Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 63 of 206
Found at i:17803287 original size:11 final size:10
Alignment explanation
Indices: 17803261--17803298 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
17803251 TAATTTGAAG
17803261 TGTTTTTATA
1 TGTTTTTATA
17803271 TGTTTTTATAA
1 TGTTTTTAT-A
17803282 T-TTTTT-TA
1 TGTTTTTATA
17803290 TGTTTTTAT
1 TGTTTTTAT
17803299 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.08
9 6 0.24
10 15 0.60
11 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (10 bp):
TGTTTTTATA
Found at i:17807289 original size:19 final size:20
Alignment explanation
Indices: 17807259--17807305 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17807249 CTCAGGAAAA
17807259 AATTTAAATAATAATATAAAT
1 AATTT-AATAATAATATAAAT
* *
17807280 -ATTTAATAATATTATTAAT
1 AATTTAATAATAATATAAAT
17807299 AATTTAA
1 AATTTAA
17807306 GTTAAGTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAATAATAATATAAAT
Found at i:17808028 original size:7 final size:7
Alignment explanation
Indices: 17808018--17808055 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
17808008 AATCCCAAAT
17808018 CTTAAAC
1 CTTAAAC
17808025 CTTAAAC
1 CTTAAAC
*
17808032 CTCAAAC
1 CTTAAAC
*
17808039 TTTAAAC
1 CTTAAAC
17808046 CTTAAAC
1 CTTAAAC
17808053 CTT
1 CTT
17808056 GTTCAGGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (7 bp):
CTTAAAC
Found at i:17811235 original size:27 final size:27
Alignment explanation
Indices: 17811197--17811314 Score: 85
Period size: 27 Copynumber: 4.3 Consensus size: 27
17811187 ATATTACATA
* *
17811197 GGGTTTGAGTTTAGGGTTTGAGGTTCG
1 GGGTTTGGGTTTAGGGTTCGAGGTTCG
*
17811224 GGGTTTGGGTTT-GAGGTTCGAGATTCG
1 GGGTTTGGGTTTAG-GGTTCGAGGTTCG
* * * * * * *
17811251 AGATTTGGGTTCATGGTTTGGGGTTTG
1 GGGTTTGGGTTTAGGGTTCGAGGTTCG
* * * *
17811278 GGGTTCGGGGTTTAGGATTCAAGGTTCT
1 GGGTT-TGGGTTTAGGGTTCGAGGTTCG
17811306 GGGTTTGGG
1 GGGTTTGGG
17811315 ATAAAAAATT
Statistics
Matches: 65, Mismatches: 23, Indels: 6
0.69 0.24 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.71
28 18 0.28
ACGTcount: A:0.11, C:0.06, G:0.44, T:0.39
Consensus pattern (27 bp):
GGGTTTGGGTTTAGGGTTCGAGGTTCG
Found at i:17813121 original size:2 final size:2
Alignment explanation
Indices: 17813114--17813166 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
17813104 ACAAAAGATA
17813114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17813156 AT AT AT AT AT A
1 AT AT AT AT AT A
17813167 GANNNNNNNN
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17813277 original size:2 final size:2
Alignment explanation
Indices: 17813270--17813305 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17813260 NNNNNNNNNC
17813270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17813306 AATTTATGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17817090 original size:163 final size:164
Alignment explanation
Indices: 17816813--17817144 Score: 468
Period size: 163 Copynumber: 2.0 Consensus size: 164
17816803 CGAGGCTCAT
* * * *
17816813 CATTCATTTGGTGTCCACCTAAAAATGTTGTCTTTAAATGGTCATCATGAGATCCGTTCTTCAGA
1 CATTCATTTGGTGTCCACCCAAAAACGTTGTCTTCAAATGGTCATCATGAGAACCGTTCTTCAGA
* * * *
17816878 TTCCACCACGAAGGCGTTCCTTTCCAAAGATAGCTACAAAGGCTTTCCTTTTAGAGTCTCGCCAC
66 TTCCACCACGAAGGCATTCATTTCCAAAGATAGCTACAAAAGCTTTCCTTTCAGAGTCTCGCCAC
* *
17816943 GAAGACATCC-TTTTAACAGAGTTTGCCACAAGG
131 GAAGACATCCTTTTTAACAGAGATAGCCACAAGG
* **
17816976 CATTCATTTGGTGTCCGCCCAAAGGCGTTGTCTTCAAATGGTCATCATGAGAACCGTTCTTCAGA
1 CATTCATTTGGTGTCCACCCAAAAACGTTGTCTTCAAATGGTCATCATGAGAACCGTTCTTCAGA
*** * * *
17817041 TTCTGTCACGAAGGCATTCATTTCCAAAGATAGGTACAAAAGTTTTCCTTTCAGAGTCTCGCCAT
66 TTCCACCACGAAGGCATTCATTTCCAAAGATAGCTACAAAAGCTTTCCTTTCAGAGTCTCGCCAC
*
17817106 GAAGATATCCTTTTTAACAGAGATAGCCACAAGG
131 GAAGACATCCTTTTTAACAGAGATAGCCACAAGG
*
17817140 AATTC
1 CATTC
17817145 CTTTAACTGA
Statistics
Matches: 147, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
163 122 0.83
164 25 0.17
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (164 bp):
CATTCATTTGGTGTCCACCCAAAAACGTTGTCTTCAAATGGTCATCATGAGAACCGTTCTTCAGA
TTCCACCACGAAGGCATTCATTTCCAAAGATAGCTACAAAAGCTTTCCTTTCAGAGTCTCGCCAC
GAAGACATCCTTTTTAACAGAGATAGCCACAAGG
Found at i:17817179 original size:29 final size:29
Alignment explanation
Indices: 17817112--17817436 Score: 370
Period size: 29 Copynumber: 11.3 Consensus size: 29
17817102 CCATGAAGAT
*
17817112 ATCCTTTTTAACAGAGATAGCCAC-AAGGA
1 ATCC-TTTTAACAGAGATAGCCACAAAGGC
* *
17817141 ATTCC-TTTAACTGAGATAGTCACAAAGGC
1 A-TCCTTTTAACAGAGATAGCCACAAAGGC
* **
17817170 ATCCTTTTAACAGAGATAACCGTAAAGGC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
*
17817199 ATCCTTTTAACAGAGATAGCCATAAAGGC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
* ** * *
17817228 -TTCTTTTTTCAGAGATCGCCACAAAGAC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
* * * *
17817256 TTCATTTTAATAGAGATAGCCACAAATGC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
* *
17817285 ATCCTTTTAATAGAGATAGCCACAAAGTC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
*
17817314 ATCCTTTTAACTGAGATAGCCACAAAGGC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
17817343 ATCCTTTTAACAGAGATAGCCACAAAGGC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
* * * *
17817372 ATCCTTTT-TCAGAGATCGCCATAAAGAC
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
* * *
17817400 ATCTTTTTAACAGAGATAGCCATAAAGGT
1 ATCCTTTTAACAGAGATAGCCACAAAGGC
17817429 ATCCTTTT
1 ATCCTTTT
17817437 TCAAAGATCA
Statistics
Matches: 249, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
28 64 0.26
29 182 0.73
30 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (29 bp):
ATCCTTTTAACAGAGATAGCCACAAAGGC
Found at i:17817213 original size:86 final size:85
Alignment explanation
Indices: 17817112--17817436 Score: 328
Period size: 86 Copynumber: 3.8 Consensus size: 85
17817102 CCATGAAGAT
* *
17817112 ATCCTTTTTAACAGAGATAGCCACAAGGAATTCCTTTAACTGAGATAGTCACAAAGGCATCCTTT
1 ATCC-TTTTAACAGAGATAGCCACAAGGAA-TCCTTTAACAGAGATAGCCACAAAGGCATCCTTT
* **
17817177 TAACAGAGATAACCGTAAAGGC
64 TAACAGAGATAGCCACAAAGGC
* ** * ** * * * *
17817199 ATCCTTTTAACAGAGATAGCCATAAAGGCTTCTTTTTTCAGAGATCGCCACAAAGACTTCATTTT
1 ATCCTTTTAACAGAGATAGCCA-CAAGGAATCCTTTAACAGAGATAGCCACAAAGGCATCCTTTT
* *
17817264 AATAGAGATAGCCACAAATGC
65 AACAGAGATAGCCACAAAGGC
* ** *
17817285 ATCCTTTTAATAGAGATAGCCACAAAGTCATCCTTTTAACTGAGATAGCCACAAAGGCATCCTTT
1 ATCCTTTTAACAGAGATAGCCAC-AAGGAATCC-TTTAACAGAGATAGCCACAAAGGCATCCTTT
17817350 TAACAGAGATAGCCACAAAGGC
64 TAACAGAGATAGCCACAAAGGC
* * * * * * *
17817372 ATCCTTTT-TCAGAGATCGCCATAAAGACATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTT
1 ATCCTTTTAACAGAGATAGCCACAAGGA-ATC-CTTTAACAGAGATAGCCACAAAGGCATCCTTT
17817436 T
64 T
17817437 TCAAAGATCA
Statistics
Matches: 191, Mismatches: 42, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
85 2 0.01
86 129 0.68
87 60 0.31
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (85 bp):
ATCCTTTTAACAGAGATAGCCACAAGGAATCCTTTAACAGAGATAGCCACAAAGGCATCCTTTTA
ACAGAGATAGCCACAAAGGC
Found at i:17817317 original size:144 final size:144
Alignment explanation
Indices: 17817117--17817436 Score: 448
Period size: 144 Copynumber: 2.2 Consensus size: 144
17817107 AAGATATCCT
*
17817117 TTTTAACAGAGATAGCCAC-AAGGAATTCC-TTTAACTGAGATAGTCACAAAGGCATCCTTTTAA
1 TTTTAACAGAGATAGCCACAAAGGAA-TCCTTTTAACTGAGATAGCCACAAAGGCATCCTTTTAA
** * * *
17817180 CAGAGATAACCGTAAAGGCATCCTTTTAACAGAGATAGCCATAAAGGCTTCTTTTTTCAGAGATC
65 CAGAGATAACCACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTTCAGAGATC
*
17817245 GCCACAAAGACTTCA
130 GCCACAAAGACATCA
* * * *
17817260 TTTTAATAGAGATAGCCACAAATGCATCCTTTTAA-TAGAGATAGCCACAAAGTCATCCTTTTAA
1 TTTTAACAGAGATAGCCACAAAGGAATCCTTTTAACT-GAGATAGCCACAAAGGCATCCTTTTAA
* *
17817324 CTGAGATAGCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTTCAGAGATC
65 CAGAGATAACCACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTTCAGAGATC
* *
17817389 GCCATAAAGACATCT
130 GCCACAAAGACATCA
* *
17817404 TTTTAACAGAGATAGCCATAAAGGTATCCTTTT
1 TTTTAACAGAGATAGCCACAAAGGAATCCTTTT
17817437 TCAAAGATCA
Statistics
Matches: 155, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
143 22 0.14
144 133 0.86
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (144 bp):
TTTTAACAGAGATAGCCACAAAGGAATCCTTTTAACTGAGATAGCCACAAAGGCATCCTTTTAAC
AGAGATAACCACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTTCAGAGATCG
CCACAAAGACATCA
Found at i:17819155 original size:42 final size:42
Alignment explanation
Indices: 17819067--17819284 Score: 296
Period size: 42 Copynumber: 5.0 Consensus size: 42
17819057 GCGTTTACAG
*
17819067 AAAAAAA-ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
1 AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
17819108 AAAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTT
1 -AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
17819151 AAAAAAAGACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
17819193 AAAAAAAGATGCCGCTAAAGATCAAGATCATGTTCTTTAGCGGTGCTT
1 AAAAAAAGACGCCGCT----A--AAGATCATGTTCTTTAGCGGCGCTT
*
17819241 AAATAAAA-ACGCCGCTAAAGATCATGTTCATTAGCGGCGCTT
1 AAA-AAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
17819283 AA
1 AA
17819285 TTCACAAACG
Statistics
Matches: 158, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
42 86 0.54
43 32 0.20
44 1 0.01
46 1 0.01
48 34 0.22
49 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:17819260 original size:90 final size:83
Alignment explanation
Indices: 17819067--17819284 Score: 301
Period size: 90 Copynumber: 2.5 Consensus size: 83
17819057 GCGTTTACAG
*
17819067 AAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCTAAAGATC
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AAAAAAAGACGCCGCTAAAGATC
*
17819132 ATGTTCTTTAGTGGCGCTT
65 ATGTTCTTTAGCGGCGCTT
* *
17819151 AAAAAAAGACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAGATGCCGCTAAAGATC
1 AAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCGCT----A--
*
17819216 AAGATCATGTTCTTTAGCGGTGCTT
59 AAGATCATGTTCTTTAGCGGCGCTT
*
17819241 AAATAAAAACGCCGCTAAAGATCATGTTCATTAGCGGCGCTTAA
1 AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
17819285 TTCACAAACG
Statistics
Matches: 119, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
84 22 0.18
85 32 0.27
88 1 0.01
90 60 0.50
91 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (83 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCGCTAAAGATCA
TGTTCTTTAGCGGCGCTT
Found at i:17819799 original size:21 final size:21
Alignment explanation
Indices: 17819775--17819848 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
17819765 CTTCTCTAGT
*
17819775 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
* * *
17819796 TGCTTCTCTCACTGCAACCTC
1 TGCTTCCCTCGCTGCAGCCTC
**
17819817 TGCTTCCCTCGCTATAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
17819838 TGCTTCCCTCG
1 TGCTTCCCTCG
17819849 TTGTCTCCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.08, C:0.43, G:0.15, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:17825484 original size:9 final size:9
Alignment explanation
Indices: 17825378--17825672 Score: 208
Period size: 9 Copynumber: 33.7 Consensus size: 9
17825368 GTAAATAATA
17825378 TAAGTTATG
1 TAAGTTATG
*
17825387 TACGTGTA--
1 TAAGT-TATG
*
17825395 TAAGTTATA
1 TAAGTTATG
17825404 TAAGTTATG
1 TAAGTTATG
*
17825413 T-A-TTAAG
1 TAAGTTATG
* *
17825420 TAAGCTAAG
1 TAAGTTATG
* *
17825429 TAAGTTGTC
1 TAAGTTATG
* *
17825438 AAAGTAATG
1 TAAGTTATG
*
17825447 TATGTTATG
1 TAAGTTATG
17825456 TAAG-T-TG
1 TAAGTTATG
17825463 TAAGTTATTATG
1 TAAG---TTATG
17825475 TAAGTTATG
1 TAAGTTATG
17825484 TAAGTTATG
1 TAAGTTATG
17825493 TAAGTTAAATG
1 TAAGTT--ATG
17825504 T-A-TTATG
1 TAAGTTATG
*
17825511 TAGGTTATG
1 TAAGTTATG
*
17825520 TAAGTTGTG
1 TAAGTTATG
* *
17825529 TAAGATATT
1 TAAGTTATG
17825538 TAAGTTATG
1 TAAGTTATG
*
17825547 TAAGTTTTG
1 TAAGTTATG
17825556 T-A-TTATG
1 TAAGTTATG
17825563 TAAGTTATG
1 TAAGTTATG
17825572 TAAGTTAAATG
1 TAAGTT--ATG
17825583 T-A-TTATG
1 TAAGTTATG
*
17825590 TAGGTTATG
1 TAAGTTATG
*
17825599 TAAGTTGTG
1 TAAGTTATG
* *
17825608 TAAGATATT
1 TAAGTTATG
17825617 TAAGTTATG
1 TAAGTTATG
*
17825626 TAAGTTTTG
1 TAAGTTATG
17825635 T-A-TTATG
1 TAAGTTATG
17825642 TAAGTTATG
1 TAAGTTATG
* *
17825651 TATGCTATG
1 TAAGTTATG
17825660 T-A-TTATG
1 TAAGTTATG
17825667 TAAGTT
1 TAAGTT
17825673 GTTATGTTAT
Statistics
Matches: 221, Mismatches: 41, Indels: 48
0.71 0.13 0.15
Matches are distributed among these distances:
7 36 0.16
8 12 0.05
9 154 0.70
10 4 0.02
11 9 0.04
12 6 0.03
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:17825525 original size:27 final size:26
Alignment explanation
Indices: 17825444--17825494 Score: 52
Period size: 28 Copynumber: 1.9 Consensus size: 26
17825434 TGTCAAAGTA
*
17825444 ATGTATGTTATGTAAGTTGTAA-GTTATT
1 ATGTAAGTTATGTAAG-T-TAATG-TATT
17825472 ATGTAAGTTATGTAAGTT-ATGTA
1 ATGTAAGTTATGTAAGTTAATGTA
17825495 AGTTAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
25 3 0.14
26 2 0.10
27 1 0.05
28 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTATGTAAGTTAATGTATT
Found at i:17825569 original size:79 final size:79
Alignment explanation
Indices: 17825479--17825668 Score: 348
Period size: 79 Copynumber: 2.4 Consensus size: 79
17825469 ATTATGTAAG
17825479 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
17825544 ATGTAAGTTTTGTA
66 ATGTAAGTTTTGTA
17825558 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
17825623 ATGTAAGTTTTGTA
66 ATGTAAGTTTTGTA
* *
17825637 TTATGTAAGTTATGTATGCT--ATGTATTATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTA
17825669 AGTTGTTATG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
77 12 0.11
79 97 0.89
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (79 bp):
TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
ATGTAAGTTTTGTA
Found at i:17825691 original size:70 final size:68
Alignment explanation
Indices: 17825567--17825702 Score: 161
Period size: 70 Copynumber: 1.9 Consensus size: 68
17825557 ATTATGTAAG
*
17825567 TTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTT
1 TTATGTAAGTT-AATGTATTATGTA-GTTATGTAAGTTGTGTAAGATATTTAAGTTATGCAAGTT
17825632 TTGTA
64 TTGTA
* *
17825637 TTATGTAAGTT-ATGTATGCTATGTA-TTATGTAAGTTGT-TATGTTATTACGTAAGTTATGCAA
1 TTATGTAAGTTAATGTAT--TATGTAGTTATGTAAGTTGTGTAAGATATT---TAAGTTATGCAA
17825699 GTTT
61 GTTT
17825703 ATATATAAGC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
67 7 0.12
68 19 0.33
70 32 0.55
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (68 bp):
TTATGTAAGTTAATGTATTATGTAGTTATGTAAGTTGTGTAAGATATTTAAGTTATGCAAGTTTT
GTA
Found at i:17825800 original size:16 final size:16
Alignment explanation
Indices: 17825779--17825828 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
17825769 AAAAAATTTA
17825779 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
17825795 TAAGTTA---A-CATG
1 TAAGTTATGTATTATG
17825807 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
17825823 TAAGTT
1 TAAGTT
17825829 TACATATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:17825810 original size:28 final size:28
Alignment explanation
Indices: 17825777--17825845 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
17825767 TAAAAAAATT
17825777 TATAAGTTATGTATTATGTAAGTTAACA
1 TATAAGTTATGTATTATGTAAGTTAACA
* *
17825805 TGTAAGTTATGTATTATGTAAGTTTACA
1 TATAAGTTATGTATTATGTAAGTTAACA
17825833 TATAAGTTTATGT
1 TATAAG-TTATGT
17825846 GATAGTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 31 0.84
29 6 0.16
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (28 bp):
TATAAGTTATGTATTATGTAAGTTAACA
Found at i:17825822 original size:156 final size:156
Alignment explanation
Indices: 17825626--17826047 Score: 590
Period size: 157 Copynumber: 2.7 Consensus size: 156
17825616 TTAAGTTATG
* * * * * *
17825626 TAAGTTTTGTATTATGTAAGTT---ATGTATGCTATGTATTATGTAAGTTGT-TATGTTA-TTAC
1 TAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATGTAAGTT-TACATATAAGTTAC
* *
17825686 GT-A-AGTTATGCAAGTTTATATATAAGCTTGTAGATAAGTTATGTAAGTTAATATGTAAGTAAT
65 GTGATAGTTATGCAAGTTTATATA-AA-CAT-TA-ATAAGTTATATAAGTTAATATGTAAGTAAT
*
17825749 GTATTATGTAAGTTTATAT-AAAAAAATTTA
126 GCATTATGTAAGTTTATATAAAAAAAATTTA
*
17825779 TAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATGTAAGTTTACATATAAGTTTAT
1 TAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATGTAAGTTTACATATAAG-TTAC
*
17825844 GTGATAGTTATGTAAGTTTATATAAACATTAATAAGTTATATAAGTTAATATGTAAGTAATGCAT
65 GTGATAGTTATGCAAGTTTATATAAACATTAATAAGTTATATAAGTTAATATGTAAGTAATGCAT
17825909 TATGTAAGTTTATATAAAAAAAATTTA
130 TATGTAAGTTTATATAAAAAAAATTTA
* *
17825936 TAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATGTAACTTTACATATAAGTTTAT
1 TAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATGTAAGTTTACATATAAG-TTAC
* *
17826001 GTGATAGTTATGTAAGTTTATATAAATATTAATAAGTTATATAAGTT
65 GTGATAGTTATGCAAGTTTATATAAACATTAATAAGTTATATAAGTT
17826048 CTTGTACATA
Statistics
Matches: 247, Mismatches: 13, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
153 21 0.09
155 1 0.00
156 74 0.30
157 123 0.50
158 7 0.03
159 3 0.01
160 18 0.07
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (156 bp):
TAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATGTAAGTTTACATATAAGTTACG
TGATAGTTATGCAAGTTTATATAAACATTAATAAGTTATATAAGTTAATATGTAAGTAATGCATT
ATGTAAGTTTATATAAAAAAAATTTA
Found at i:17825957 original size:16 final size:16
Alignment explanation
Indices: 17825936--17825982 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
17825926 AAAAAATTTA
17825936 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
17825952 TAAGTTA---A-CATG
1 TAAGTTATGTATTATG
17825964 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
17825980 TAA
1 TAA
17825983 CTTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
15 1 0.04
16 13 0.52
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:17825968 original size:28 final size:28
Alignment explanation
Indices: 17825934--17826002 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
17825924 AAAAAAAATT
*
17825934 TATAAGTTATGTATTATGTAAGTTAACA
1 TATAAGTTATGTATTATGTAACTTAACA
* *
17825962 TGTAAGTTATGTATTATGTAACTTTACA
1 TATAAGTTATGTATTATGTAACTTAACA
17825990 TATAAGTTTATGT
1 TATAAG-TTATGT
17826003 GATAGTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 30 0.83
29 6 0.17
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.46
Consensus pattern (28 bp):
TATAAGTTATGTATTATGTAACTTAACA
Found at i:17826004 original size:157 final size:156
Alignment explanation
Indices: 17825689--17826047 Score: 619
Period size: 157 Copynumber: 2.3 Consensus size: 156
17825679 TTATTACGTA
* * * *
17825689 AGTTATGCAAGTTTATATATAAGCTTGTAGATAAGTTATGTAAGTTAATATGTAAGTAATGTATT
1 AGTTATGTAAGTTTATATA-AA-CAT-TA-ATAAGTTATATAAGTTAATATGTAAGTAATGCATT
17825754 ATGTAAGTTTATATAAAAAAATTTATAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTAT
62 ATGTAAGTTTATATAAAAAAATTTATAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTAT
*
17825819 TATGTAAGTTTACATATAAGTTTATGTGAT
127 TATGTAACTTTACATATAAGTTTATGTGAT
17825849 AGTTATGTAAGTTTATATAAACATTAATAAGTTATATAAGTTAATATGTAAGTAATGCATTATGT
1 AGTTATGTAAGTTTATATAAACATTAATAAGTTATATAAGTTAATATGTAAGTAATGCATTATGT
17825914 AAGTTTATATAAAAAAAATTTATAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTAT
66 AAGTTTATAT-AAAAAAATTTATAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTAT
17825979 GTAACTTTACATATAAGTTTATGTGAT
130 GTAACTTTACATATAAGTTTATGTGAT
*
17826006 AGTTATGTAAGTTTATATAAATATTAATAAGTTATATAAGTT
1 AGTTATGTAAGTTTATATAAACATTAATAAGTTATATAAGTT
17826048 CTTGTACATA
Statistics
Matches: 192, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
156 47 0.24
157 123 0.64
158 2 0.01
159 2 0.01
160 18 0.09
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (156 bp):
AGTTATGTAAGTTTATATAAACATTAATAAGTTATATAAGTTAATATGTAAGTAATGCATTATGT
AAGTTTATATAAAAAAATTTATAAGTTATGTATTATGTAAGTTAACATGTAAGTTATGTATTATG
TAACTTTACATATAAGTTTATGTGAT
Found at i:17826183 original size:13 final size:13
Alignment explanation
Indices: 17826165--17826263 Score: 92
Period size: 13 Copynumber: 7.5 Consensus size: 13
17826155 CAAATTTTAG
*
17826165 TAAGTAATGTATT
1 TAAGTAATATATT
*
17826178 TAAGTAACATATT
1 TAAGTAATATATT
*
17826191 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17826204 TAACCAA-ATTTT
1 TAAGTAATATATT
*
17826216 AGTAAGTAATGTATT
1 --TAAGTAATATATT
17826231 TAAGTAATATATT
1 TAAGTAATATATT
*
17826244 CAAGTAATATATT
1 TAAGTAATATATT
*
17826257 AAAGTAA
1 TAAGTAA
17826264 ATTTTAGTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
12 3 0.04
13 57 0.84
14 5 0.07
15 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:17826233 original size:27 final size:27
Alignment explanation
Indices: 17826129--17826225 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
17826119 ATATATACTT
17826129 AAATTTTAGTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATAAATTTAAAC
** **
17826156 AAATTTTAGTAAGTAATGTATTTAAGT
1 AAATTTTAGTAAGTAATAAATTTAAAC
* *
17826183 AACATATT--TAAGTAATAAATTTAACC
1 AA-ATTTTAGTAAGTAATAAATTTAAAC
17826209 AAATTTTAGTAAGTAAT
1 AAATTTTAGTAAGTAAT
17826226 GTATTTAAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.07
26 16 0.28
27 33 0.58
28 4 0.07
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (27 bp):
AAATTTTAGTAAGTAATAAATTTAAAC
Found at i:17826290 original size:53 final size:52
Alignment explanation
Indices: 17826139--17826273 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 52
17826129 AAATTTTAGT
*
17826139 AAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAACATATTT
1 AAGTAATAAA-TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAACATATTC
* *
17826192 AAGTAATAAATTTAACCAAATTTTAGTAAGTAATGTATTTAAGTAATATATTC
1 AAGTAATAAA-TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAACATATTC
* *
17826245 AAGTAATATATTAAAGTAAATTTTAGTAA
1 AAGTAATAAATTAAA-CAAATTTTAGTAA
17826274 AAAATATGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 4 0.05
53 71 0.95
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (52 bp):
AAGTAATAAATTAAACAAATTTTAGTAAGTAATGTATTTAAGTAACATATTC
Found at i:17826367 original size:9 final size:9
Alignment explanation
Indices: 17826325--17826450 Score: 70
Period size: 9 Copynumber: 14.9 Consensus size: 9
17826315 CTTAAAAATT
*
17826325 GTTATTTAA
1 GTTATGTAA
*
17826334 GTAATGTAA
1 GTTATGTAA
*
17826343 G--ATATAA
1 GTTATGTAA
*
17826350 ATTATGTAA
1 GTTATGTAA
*
17826359 GTCATGTAA
1 GTTATGTAA
** *
17826368 AATATTTAA
1 GTTATGTAA
*
17826377 GTAATGTAA
1 GTTATGTAA
17826386 GTTATGTAA
1 GTTATGTAA
17826395 GTTATGT-A
1 GTTATGTAA
*
17826403 --TA-ATAA
1 GTTATGTAA
17826409 GTTATGTAA
1 GTTATGTAA
*
17826418 GTTGTGT-A
1 GTTATGTAA
*
17826426 -TTATGTGA
1 GTTATGTAA
*
17826434 GTTATGCAA
1 GTTATGTAA
*
17826443 TTTATGTA
1 GTTATGTA
17826451 GGCTATATAT
Statistics
Matches: 85, Mismatches: 24, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 10 0.12
8 5 0.06
9 66 0.78
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
GTTATGTAA
Found at i:17826410 original size:23 final size:23
Alignment explanation
Indices: 17826383--17826426 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17826373 TTAAGTAATG
17826383 TAAGTTATGTAAGTTATGTATAA
1 TAAGTTATGTAAGTTATGTATAA
*
17826406 TAAGTTATGTAAGTTGTGTAT
1 TAAGTTATGTAAGTTATGTAT
17826427 TATGTGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
TAAGTTATGTAAGTTATGTATAA
Found at i:17829205 original size:22 final size:21
Alignment explanation
Indices: 17829143--17829207 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
17829133 TAAAACGGCC
17829143 TAAACCCCAAACCCTAAACCT
1 TAAACCCCAAACCCTAAACCT
**
17829164 TAAACCCCAAACTTTTAAACCT
1 TAAACCCCAAAC-CCTAAACCT
* *
17829186 TAAACCCAAAACACCAAAACCT
1 TAAACCCCAAAC-CCTAAACCT
17829208 ACATCATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 12 0.33
22 24 0.67
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCCAAACCCTAAACCT
Found at i:17829490 original size:16 final size:17
Alignment explanation
Indices: 17829471--17829505 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17829461 CAAATATGAC
17829471 AAACTA-AATATATAAT
1 AAACTACAATATATAAT
*
17829487 AAACTACATTATATAAT
1 AAACTACAATATATAAT
17829504 AA
1 AA
17829506 CCTAGCGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
AAACTACAATATATAAT
Found at i:17829766 original size:114 final size:114
Alignment explanation
Indices: 17829528--17830545 Score: 1224
Period size: 114 Copynumber: 8.9 Consensus size: 114
17829518 TCCCAAAACG
* * * ** * * * *
17829528 CGCCGCTAATAATATGTTTTACCGGCGTTTTCCCGTAAGCGCCATTACTGT-TAGTATACATCAA
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAAT-TCTAATATACCTCAA
* * * * * * **
17829592 GACCAAAGCGCTGCGTTTTTGTTAAGATATTTTACGGCTCTTTTCACCAAG
65 GACCAAA-CTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
* * *
17829643 AGCCGCTAATACTATGCATTAGCGGTGTTTTACC-ATAAGCGCCACTAATTCTAATATACCTCAA
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTT-CCAATAAGCGCCACTAATTCTAATATACCTCAA
* * *
17829707 AACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACTATT
65 GACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
* * * * *
17829757 CACCGCTAATACTATGCGTTAGCGGTGTTTTCCGATGAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
* * *
17829822 ACCAAACTCTGTGTTTTGGTTAAGATATTTTGCGGCGCTTCTGACGACG
66 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
* * * *
17829871 CGCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATGAGCGCCACTAATTCTAATATACCTTAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
* * *
17829936 ACCAAACTCTGTGTTTTGGTTAAGATATTTTGCGGCGCTTCTGACGACG
66 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
* *
17829985 CGCCGCTAATACTATGCGTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATATCTCAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
**
17830050 ACCAAACTCTGCGTTTTGGTTAAGATAAGTTGCGGCGCTTTTGACGACGT
66 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGAC-T
*
17830100 -GCCGCTAATACTATGCTTTAGTGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
* * * *
17830164 ACCAAACTCTGCGTTGTGGTTAAGATATGTTGCAGCGCTTTTGACGACG
66 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
*
17830213 CGCCACTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
* * * *
17830278 ACCAAACTCTGCGTTTTGGTTAATATATTTTGCGGCGCTTTTCACAAAT
66 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
* * * * * *
17830327 CGCCGCTAATACT-TGCTTTAGCGGCATTTTTTTC-GTATGCGCCACTAATTCTAATATACATAA
1 CGCCGCTAATACTATGCTTTAGCGGC--GTTTTCCAATAAGCGCCACTAATTCTAATATACCTCA
** * * * * *
17830390 AGACCAAAACGATGTGTTTTCGTTAAGACT-TTTTACGGCGCTGTTCACGA-T
64 AGACC-AAACTCTGCGTTTTGGTTAAGA-TATTTTGCGGCGCTTTTGACGACT
* * * * * * *
17830441 CGCCGCTAATACT-TTCTTTAGCGGCATTTTCCCATAATCGCCACTAATTCTAGTATACATCTAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
* * *
17830505 ACCAAAACGCTGCGTTTTGCTTAAGAGATTTTGCGGCGCTT
66 ACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
17830546 GATTGTAAAC
Statistics
Matches: 801, Mismatches: 91, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
112 5 0.01
113 72 0.09
114 628 0.78
115 93 0.12
116 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (114 bp):
CGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACGACT
Found at i:17832073 original size:23 final size:23
Alignment explanation
Indices: 17832042--17832085 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17832032 TAAATATGTA
*
17832042 TAAATCTAAAAAATTCTTAAAAT
1 TAAACCTAAAAAATTCTTAAAAT
* *
17832065 TAAACCTAAAAATTTTTTAAA
1 TAAACCTAAAAAATTCTTAAA
17832086 CTAACATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAACCTAAAAAATTCTTAAAAT
Found at i:17832801 original size:34 final size:34
Alignment explanation
Indices: 17832763--17832828 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
17832753 TGCATGGAAA
17832763 AAGAGA-AGAAAAAAAACAAAGAAAGATGAAAATG
1 AAGAGAGAGAAAAAAAACAAAGAAA-ATGAAAATG
* * * *
17832797 AAGAGAGTGTAAAACAACAAAGCAAATGAAAA
1 AAGAGAGAGAAAAAAAACAAAGAAAATGAAAA
17832829 ATGAGTAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 13 0.48
35 14 0.52
ACGTcount: A:0.67, C:0.06, G:0.20, T:0.08
Consensus pattern (34 bp):
AAGAGAGAGAAAAAAAACAAAGAAAATGAAAATG
Found at i:17836769 original size:21 final size:22
Alignment explanation
Indices: 17836744--17836791 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17836734 TTCTTCTTCT
*
17836744 TTTTTTTTTACTTTTTTTC-CTA
1 TTTTTTTGT-CTTTTTTTCACTA
*
17836766 TTTTTTTGTTTTTTTTTCACTA
1 TTTTTTTGTCTTTTTTTCACTA
17836788 TTTT
1 TTTT
17836792 GCTACCATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTTGTCTTTTTTTCACTA
Found at i:17837715 original size:40 final size:39
Alignment explanation
Indices: 17837628--17837717 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 39
17837618 TAATAATATA
* *
17837628 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATTAGTGTTT
17837667 TTTGAATATAATAAAATATTTATTATATTTA-TAGTAGTGTT
1 TTT-AATATAATAAAATATTTATTATATTTATTAGT-GT-TT
17837708 TTTAATATAA
1 TTTAATATAA
17837718 ATACTTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
39 6 0.13
40 35 0.76
41 5 0.11
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (39 bp):
TTTAATATAATAAAATATTTATTATATTTATTAGTGTTT
Found at i:17843541 original size:29 final size:29
Alignment explanation
Indices: 17843504--17843616 Score: 106
Period size: 29 Copynumber: 3.8 Consensus size: 29
17843494 AAAATTATTA
17843504 AAATATTATAAAATATTAAAATATTTATAT
1 AAATATTATAAAAT-TTAAAATATTTATAT
**
17843534 AAAT-TTATAAAATTTAATAATAACT-TAT
1 AAATATTATAAAATTTAA-AATATTTATAT
* * *
17843562 AAATATTATAAAATTCTAATA-AGTTATAA
1 AAATATTATAAAATT-TAAAATATTTATAT
*
17843591 AAATTTTATAAAATTAATAAAATATT
1 AAATATTATAAAATT--TAAAATATT
17843617 AAAATTGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
28 13 0.19
29 41 0.61
30 11 0.16
31 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATATTATAAAATTTAAAATATTTATAT
Found at i:17843651 original size:10 final size:10
Alignment explanation
Indices: 17843470--17843765 Score: 70
Period size: 10 Copynumber: 30.6 Consensus size: 10
17843460 TATTTTTCTC
*
17843470 ATAAAAAATG
1 ATAAAAAATT
*
17843480 ATTAAAAATT
1 ATAAAAAATT
17843490 ACT-AAAAATT
1 A-TAAAAAATT
*
17843500 ATTAAAATATT
1 A-TAAAAAATT
*
17843511 ATAAAATATT
1 ATAAAAAATT
* *
17843521 A-AAATATTT
1 ATAAAAAATT
* *
17843530 ATATAAATTT
1 ATAAAAAATT
*
17843540 AT-AAAATTT
1 ATAAAAAATT
* *
17843549 AATAATAACTT
1 -ATAAAAAATT
*
17843560 AT-AAATATT
1 ATAAAAAATT
17843569 AT--AAAATT
1 ATAAAAAATT
* * *
17843577 CTAATAAGTT
1 ATAAAAAATT
17843587 AT-AAAAATT
1 ATAAAAAATT
* *
17843596 TTATAAAATT
1 ATAAAAAATT
*
17843606 A-ATAAAA-T
1 ATAAAAAATT
*
17843614 AT-TAAAATT
1 ATAAAAAATT
* *
17843623 GATATAAACTT
1 -ATAAAAAATT
17843634 AT-AAAAATT
1 ATAAAAAATT
*
17843643 ATAAAAAATC
1 ATAAAAAATT
*
17843653 ATAAAAACTTT
1 ATAAAAA-ATT
* * *
17843664 TTTAAAAATG
1 ATAAAAAATT
17843674 AT-AAAAA-T
1 ATAAAAAATT
* *
17843682 CT-AATAATT
1 ATAAAAAATT
*
17843691 ATAAAAAACT
1 ATAAAAAATT
*
17843701 AT--GAAATT
1 ATAAAAAATT
*
17843709 A-ATAAAATAT
1 ATAAAAAAT-T
**
17843719 ATTTAAAATT
1 ATAAAAAATT
*
17843729 CTATAAAAATT
1 ATA-AAAAATT
*
17843740 AATAAAAACTT
1 -ATAAAAAATT
*
17843751 ATAAATAA-T
1 ATAAAAAATT
17843760 ATAAAA
1 ATAAAA
17843766 TTTTTAACAA
Statistics
Matches: 210, Mismatches: 54, Indels: 45
0.68 0.17 0.15
Matches are distributed among these distances:
8 23 0.11
9 55 0.26
10 87 0.41
11 43 0.20
12 2 0.01
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:17843656 original size:19 final size:19
Alignment explanation
Indices: 17843473--17843801 Score: 105
Period size: 19 Copynumber: 17.2 Consensus size: 19
17843463 TTTTCTCATA
* *
17843473 AAAAATGATTAAAAATTACT
1 AAAAATTATAAAAAATTA-T
*
17843493 AAAAATTATTAAAATATTAT
1 AAAAATTA-TAAAAAATTAT
* *
17843513 AAAATATTA-AAATATTTAT
1 AAAA-ATTATAAAAAATTAT
* *
17843532 ATAAATT-TATAAAATTTAAT
1 AAAAATTATA-AAAAATT-AT
* *
17843552 AATAACTTAT-AAATATTAT
1 AA-AAATTATAAAAAATTAT
* * *
17843571 -AAAATTCTAATAAGTTAT
1 AAAAATTATAAAAAATTAT
* *
17843589 AAAAATTTTATAAAATTA-
1 AAAAATTATAAAAAATTAT
*
17843607 ATAAAA-TAT-TAAAATTGAT
1 A-AAAATTATAAAAAATT-AT
*
17843626 ATAAACTTAT-AAAAATTAT
1 A-AAAATTATAAAAAATTAT
* * *
17843645 AAAAAATCATAAAAACTTTTTT
1 -AAAAATTATAAAAA--ATTAT
* *
17843667 AAAAATGAT-AAAAA-TCT
1 AAAAATTATAAAAAATTAT
* *
17843684 AATAATTATAAAAAACTAT
1 AAAAATTATAAAAAATTAT
*
17843703 -GAAATTAATAAAATATATT-T
1 AAAAATT-ATAAAA-A-ATTAT
*
17843723 -AAAATTCTATAAAAATTAAT
1 AAAAATTATA-AAAAATT-AT
*
17843743 AAAAACTTATAAATAA-TAT
1 AAAAA-TTATAAAAAATTAT
* * * *
17843762 AAAATTTTTAACAAACTAT
1 AAAAATTATAAAAAATTAT
*
17843781 AAAAA-TATTAAAAA-TAT
1 AAAAATTATAAAAAATTAT
17843798 AAAA
1 AAAA
17843802 TTTTAAATTT
Statistics
Matches: 232, Mismatches: 49, Indels: 59
0.68 0.14 0.17
Matches are distributed among these distances:
17 28 0.12
18 40 0.17
19 72 0.31
20 50 0.22
21 34 0.15
22 8 0.03
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:17843770 original size:105 final size:105
Alignment explanation
Indices: 17843568--17843786 Score: 247
Period size: 105 Copynumber: 2.1 Consensus size: 105
17843558 TTATAAATAT
* ** *
17843568 TATAAAATTCTAATAAGTTATAAAAATTTTATAAAATTAATAAAATATTAAAATTGATATAAACT
1 TATAAAAATCTAATAAGTTATAAAAATACTATAAAATTAATAAAATATTAAAATTGATATAAAAT
17843633 TATAAAAATTATAAAAAATCATAAAAACTTTTTTAA-AAA-
66 TATAAAAATTATAAAAAATCATAAAAAC-TTTTTAACAAAC
* *
17843672 TGATAAAAATCTAATAA-TTATAAAAA-ACTATGAAATTAATAAAATATATTTAAAATT-CTATA
1 T-ATAAAAATCTAATAAGTTATAAAAATACTATAAAATTAAT-AAA-ATA-TTAAAATTGATAT-
*
17843734 AAAATTAATAAAAACTTATAAATAAT-AT-AAAA-TTTTTAACAAAC
61 AAAATT-ATAAAAA-TTATAAAAAATCATAAAAACTTTTTAACAAAC
17843778 TATAAAAAT
1 TATAAAAAT
17843787 ATTAAAAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
103 11 0.11
104 20 0.20
105 31 0.31
106 18 0.18
107 9 0.09
108 10 0.10
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (105 bp):
TATAAAAATCTAATAAGTTATAAAAATACTATAAAATTAATAAAATATTAAAATTGATATAAAAT
TATAAAAATTATAAAAAATCATAAAAACTTTTTAACAAAC
Found at i:17843794 original size:29 final size:29
Alignment explanation
Indices: 17843611--17843795 Score: 77
Period size: 29 Copynumber: 6.4 Consensus size: 29
17843601 AAATTAATAA
* * *
17843611 AATATTAAAATTGATATAAACTTATAAA-
1 AATATAAAAATTAATAAAAACTTATAAAT
* * *
17843639 AATTATAAAAAATCATAAAAACTTTTTTAAA-
1 AA-TATAAAAATTAATAAAAAC--TTATAAAT
*
17843670 AATGATAAAAATCTAAT---AA-TTATAAAA
1 AAT-ATAAAAAT-TAATAAAAACTTATAAAT
* *
17843697 AACTAT-GAAATTAATAAAATA-TATTTAAAAT
1 AA-TATAAAAATTAATAAAA-ACT-TAT-AAAT
**
17843728 TCTATAAAAATTAATAAAAACTTATAAAT
1 AATATAAAAATTAATAAAAACTTATAAAT
**
17843757 AATAT-AAAATTTTTAACAAAC-TATAAA-
1 AATATAAAAATTAATAA-AAACTTATAAAT
17843784 AATATTAAAAAT
1 AATA-TAAAAAT
17843796 ATAAAATTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
25 4 0.03
26 10 0.08
27 8 0.07
28 20 0.17
29 35 0.29
30 9 0.08
31 31 0.26
32 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (29 bp):
AATATAAAAATTAATAAAAACTTATAAAT
Found at i:17845350 original size:2 final size:2
Alignment explanation
Indices: 17845343--17845368 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17845333 CTATGGTGAG
17845343 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17845369 TAATTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17850401 original size:134 final size:134
Alignment explanation
Indices: 17850122--17850406 Score: 297
Period size: 134 Copynumber: 2.1 Consensus size: 134
17850112 TTAAGACCAA
* * * * * *
17850122 AACTATCATTTTTAAAGCTCGCTAATTTATGATCACGACTTCAGTTCATTGATTTACGATCATGA
1 AACTTTCATTTTTAAAGCTCGCTAAGTTACGATCACAACTCCAATTCATTGATTTACGATCATGA
* * * * * *
17850187 ACACGTCATTAAGTGTTCATCGAGTTACGATCACTACTTCACTTAAATAGTTCGCTAATTTATAA
66 ACACGTCATTAAGAGTTCATCGAGTTACGATCACTACTCCACTTAAACAGGTCACTAATTTAGAA
*
17850252 TCAT
131 TCAC
* *
17850256 AACTTTTATTTTTAAAGCTCGTTAAGTTACGATCACAACTCCAATTCATTGATTTACGATCATGA
1 AACTTTCATTTTTAAAGCTCGCTAAGTTACGATCACAACTCCAATTCATTGATTTACGATCATGA
** * * * * * * *
17850321 ACATTTCATTAAGAGTTCGTCGATTTATGATC-GTAACTCCA-TTGAAGCAGGTCATTGATTTAG
66 ACACGTCATTAAGAGTTCATCGAGTTACGATCACT-ACTCCACTT-AAACAGGTCACTAATTTAG
*
17850384 GATCAC
129 AATCAC
17850390 AA-TTGTCATTTTTAAAG
1 AACTT-TCATTTTTAAAG
17850407 TTCACTGATT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
133 5 0.04
134 117 0.96
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (134 bp):
AACTTTCATTTTTAAAGCTCGCTAAGTTACGATCACAACTCCAATTCATTGATTTACGATCATGA
ACACGTCATTAAGAGTTCATCGAGTTACGATCACTACTCCACTTAAACAGGTCACTAATTTAGAA
TCAC
Found at i:17852233 original size:571 final size:571
Alignment explanation
Indices: 17850863--17857311 Score: 6332
Period size: 568 Copynumber: 11.4 Consensus size: 571
17850853 TATATGATCG
* * * * *
17850863 TGAACCCTTCATTAAGTGTTTGCC-ATTTTACAATCGTAACTCCACTTAAATAGTTCGTTGATTT
1 TGAACACTTCATTAAGAGTTCGCCGA-TTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTT
* * * * *
17850927 ATTATTACAACTGTCATTTTTAAAGCTCACTAATTAACAATCAC-AGCTTCAATTCATTGGTTTA
65 ATGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGA-CTTCAATTCATTGATTTA
* * * *
17850991 TGATCATGAACACTTCTTGGTTCAAAAGGAATATAAATTTGCTGAACTAGTTCCAAGCATGGCCA
129 CGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCA
* * * * *
17851056 GAGATGATTTTCAACTAGCTAATTCTGTCCTCTTTGCCCTTCAGAGCAAGTTAGATGTTAGAGAT
194 GAGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGAT
* * * * *
17851121 GATAAATAAAGGCGTGTTAAGGAAGAACTAAAAACTAACCTTGAAAGAAGAAGGATAGAGGAATC
259 GATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATC
* * * ** ** * *
17851186 AATTTTGTTACATTGTCTTTATGAGGTTGAAACTACTTTTCTAAAATAGACGTTTGAAACGAGGC
324 AATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGC
* * *
17851251 TCGAAATGGA-CTGATTTTTTCAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACGAT
389 TTGAAATGGATC-GATCTTTTCAAAAAACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGAT
* * * *
17851315 CACGACCTTGTACTTACAAGATTTTACGAATTTCACGGTCCATG-G-ATTTACACGATCAAAACT
453 CACGACCTTCTACTTACAGGATTTTACGAATCTCACGGT-C-TGCGAATTT--ACGATCATAACT
* ** * * * * * *
17851378 GTCTTTTTTACTGCTTGCTAATTTATGTTTATAGCTTCAGTTCATTAATTTACAATCA
514 GTCATTTTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* *
17851436 TGAACACTTCATTAAGGGTTCGCCGATTTACGATCGCTACTCCACTTAAATAGTTCGTTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * * * * * * * *
17851501 CGATAATAATTGTCAATTTTAAAGCTCACTTATTTACAATCATGACTTCATTTCATTTATTTACG
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* *
17851566 ATCACGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGTGTGGCCAGA
131 ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
** * * * *
17851631 GATGATTTTTTACTAGCTAATTTTGACCTCTCTACCCTTTAAAGCAAGTTTGGTGCTAGAGATGA
196 GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
* * * *
17851696 TAAATATAGACGTGTTGAGGAAGAACTTAAAACTAACCTTGAAAGAGGGAGGATAGAGGAATCAA
261 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAA
* * * * * * * *
17851761 TTTTGTTAAATTGTCTTTGTGATGCTGAAGCTACATCTCTTCACCATATGTTTCAAATGAGGCTT
326 TTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTT
* * * * * *
17851826 GCAATGGATCGATCTTTTGAAAAAACAAGGAACTATTTGAAAAACTTAAACTGATTTATGATCAC
391 GAAATGGATCGATCTTTTCAAAAAACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGATCAC
* * * *
17851891 AACCTTCTACTTACAGGATTTTACGAATCTCATGGTCTGCGAATTTACGATCATAACAGTCAATT
456 GACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGAATTTACGATCATAACTGTCATTT
* * * * * * ** *
17851956 GTCAAGCTTGTTGATTTACGTATACAACTTTAGTTCACTT-ATTTATGATAA
521 TTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCA-TTGATTTACAATCA
* * * * *
17852007 TGAACAGTTAATTAAGAGTTCGCCGATTTACGATTGCAACTCCATTTAAATAGTTCTTTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * ** * *
17852072 TAATCATAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTCAATTCATCGATTTACG
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* * ** * ** * * * * *
17852137 ATAATTAACAGGTCCTAATTTACAAAGAAAGTAAATTTGCTGAACTAGTTCTAAGCATGGCCAGA
131 ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
* * * *
17852202 GATGATTTTCAACTAGCTAATTCTAACCTCTCTACCGTTCAAAACAAGTTAGATGCTAGACATGA
196 GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
* * * *
17852267 TTAATAAAGGCGTGTTGAGGAAGAACTCAAAACTGACATTGAAAGAAGGAGGATAG-GGTAATAA
261 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGG-AATCA
* * * * *
17852331 ATTTTGTTACTTTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCGTCCATCTGAAACAAGGCT
325 ATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCT
** ** * * * *
17852396 TGAAATGGATTAATC-TACCAAAAAAACAAGTAACT-TTCTCTAAAA-TTTTAGCTGATTTACGA
390 TGAAATGGATCGATCTTTTC-AAAAAACAAGGAACTATT-T-GAAAAGCTTCAGCTGATTTACGA
* * * * ** *
17852458 TCATGACCTTGTACTTATAGGATTTTACAAATCT-GTGGATCCGCGAATTT---A-C-T-A---T
452 TCACGACCTTCTACTTACAGGATTTTACGAATCTCACGG-TCTGCGAATTTACGATCATAACTGT
*
17852513 C----TT-AA-CT-GTCT--TTT---T-TACAGCTTCAGTTCATTGATTTACAATCG
516 CATTTTTAAAGCTCG-CTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* * * * *
17852557 TGAACACTTCATTAGGAGTTCACCAATTTACGATCACAACTCCACTTAAATAGTTCATTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* ** * *
17852622 CGATCACAACTGAGATTTTTAAAGCTCATTGA-TTACAATCACGACTCCAATTCATTGATTTACG
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* * * * **
17852686 ATCATGAACACTT-TCGGGTTCACAAGAAATTTAAATTTGCTGAACTAGTTCTAAGCGTGGTTAG
131 ATCATGAACACTTCT-TGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAG
* * *
17852750 AGATGATTTTCAACTAGCTAATTTTGACCTCTCTGCCCTTCAAAGCAAGTGAGATGCTAGAGATG
195 AGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATG
* * ** * *
17852815 ATGAATATAGACGTACTGAGGAAGAACTCAAAACTGACTTTGAAAGAAGG-GTGATAGATGAATC
260 ATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAG-GATAGAGGAATC
* * * * * *
17852879 AATTTTGTTACATTGTTTTTGTGATGCTGAAGCTACTTCTCTTCATCATACATCTGAAATGAGGC
324 AATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGC
* ** * *
17852944 -TGAAAATGGATCGATCTAATAAAAAAAACAAGGAAACT-TTTGAAAAGCTTCAGTTGATTTATG
389 TTG-AAATGGATCGATCT-TTTCAAAAAACAAGG-AACTATTTGAAAAGCTTCAGCTGATTTACG
* * * * * * *
17853007 GTCATGACCTTCTACTTACAAGATTTTATGAATCTCACGGCCTGTTG-ATTTACGATCAAAACTG
451 ATCACGACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTG-CGAATTTACGATCATAACTG
* *
17853071 TCATTTTTAAAGCTCGCTAATTTACG-AT-CACGACTTCAATTCATTGATTTACAATCA
515 TCATTTTTAAAGCTCGCTGATTTACGTATACA-G-CTTCAGTTCATTGATTTACAATCA
* * * * * * * *
17853128 TGAATATTTCATTAAGAGTTCGTCGATTTACAATCGTAACTCCACTTAAATAGTTTGTTTATTAA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * ** *
17853193 CT-ATCACAACTGTTATTTTTAAAGTTCGTTGATTTACAATCACAACTTCAATTCATTGATTTAC
66 -TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTAC
* * ** * * * *
17853257 GATCATGAACACTTCTTGGTTTACAAGGAATATAAATTTTTTGAACTAGTT-TAAGCATTGCCGG
130 GATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAG
* * * *
17853321 AGATGATTTTCAACTAGCTAATTCTGGCCTCTCTACCCTTCAGAGTAAGTTAGATGCTAGAGATA
195 AGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATG
* * * * *
17853386 ATGAATATAGACGTGCTGTA-AAAGAACTCAAAACTAACCTTG--A-AAGGAGGATAGAGGAATC
260 ATAAATAAAGACGTGTTG-AGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATC
* * * ** * * * * *
17853447 AATTTTGTTAAATTGTATTTGTGATACTAAAGCTACATCTCTTCACCATACGTTTGAAATGAGGT
324 AATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGC
* * * * * *
17853512 TTGAAATGGATCGATCTTCTCAAAATAGA-AAGGAACTATCTAAAAAGCTTTAACTAATTTACGA
389 TTGAAATGGATCGATCTTTTCAAAA-A-ACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGA
* * * * *
17853576 TCATGACCTTCTACTTACAGGATTTTATGAATCTCATGGTCTGCGAATTTACTATCATAATTGTC
452 TCACGACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGAATTTACGATCATAACTGTC
* * * * *
17853641 ATTTGTAAAGCTCACTGA-TTATGTATACAACTTCAGTTCATTTATTTACAATCA
517 ATTTTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* * *
17853695 TGAACACTTAATTAAGA-------G---T-CGA--G--ACTACACTTAAACAGTTCGTTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * *
17853745 TGATCACAACTATCAGTTTTAAAGCTTACTGATTTACAATCACGACTTCAATTCATTGATTTACG
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* * * * * * *
17853810 ATCATGAACACTTCTTGGTCCAGAAGGAATGTAAATTTTCTAAACTGGTTTCATGCGTGGCCAGA
131 ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
* * * * *
17853875 GATGATTTTCAACTAGCTAGTTCTGTCCTCTCTACCCTTCAGAGTAAGTTAGATGCTAGACATGA
196 GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
* * *
17853940 TAAATAAAGGCGTGTTTAGGAAGAACTCAAAACTGACCTTGAAAGAAGGATGATAGAGGAATCAA
261 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAA
* * * *
17854005 TTTTGTTACATTGTCTTTATGAGGTTGAAGCTACTTCTTTTCACCGT-CTGTCTAAAACGAGGCT
326 TTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATAC-GTCTGAAACGAGGCT
* * * * * * * * *
17854069 TAAAATGAATTGAT-TTGCTCAAAAAGACAAGAAACTTTTTGAAAAGCTTTAACTAATTTACGAT
390 TGAAATGGATCGATCTT-TTCAAAAA-ACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGAT
* * * * * * *
17854133 CATGACCTTATACTTATAGGATTATACGAATCTAACGGTCCGC-AGATTTACGATCATAAGTGTC
453 CACGACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGA-ATTTACGATCATAACTGTC
* * * * * * * * * *
17854197 GTTTTTACAGCTTGTTTATTTACGTTTACAACTTTAGTTCTTTGATTTACAATAA
517 ATTTTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
** * * * *
17854252 TGAACACTTCATTAAGAGTTCATCAATTTACAATTGCAACTCCACTTAAATAGTTCGTTGAGTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * * *
17854317 CT-ATCACAACTATTATTTTTAAAGCTCACTGATTCACAATCACGACTTCAGTTCATTGATTTAC
66 -TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTAC
17854381 GATCATGAACAC-TCTTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCA
130 GATCATGAACACTTC-TTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCA
* * * * *
17854445 GTGATGATTTTCAGCTAGCTAACTCTGACTTCTCTGCCCTTCAAAGCAAGTTAGATGCTAGAGAT
194 GAGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGAT
* *
17854510 GATAAATAAAGGCGTGTTGAGGAAGAACTCAAAACTGACATT--AA-AAGGAGGATAGAGGAATC
259 GATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATC
* * * * * *
17854572 AATTTTGTTACATTGTCTTTATGAGGTTGAAGCTACTT-TTTTGAACCGTACGCCTAAAACGAGG
324 AATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTT-CACCATACGTCTGAAACGAGG
** * * * * *
17854636 CTCAAAATTGATCGAT-TTGCTT-AATAAACAAGGAATTTTTTGAAAAGCTTCAGTTGATTTACG
388 CTTGAAATGGATCGATCTT--TTCAAAAAACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACG
* * * * *
17854699 ATCACGACCTTGTACTTACAAGG-TTTTACGAATCTCACGGTCCGCGAGTTTTCGATCA-ACATT
451 ATCACGACCTTCTACTTAC-AGGATTTTACGAATCTCACGGTCTGCGAATTTACGATCATA-ACT
* * *
17854762 GTCTTTTTTACAGCAT-GCTGATTTATGT-TCACAGCTTCAGTTCATTGATTTACAATCA
514 GTCATTTTTAAAGC-TCGCTGATTTACGTAT-ACAGCTTCAGTTCATTGATTTACAATCA
* * * * ** * * * * * *
17854820 TGAAAACTCCATTAAGAATACGTTGATTTATGATTGCAACTCGACTTAAACATTTCGTTGGTTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * * * * *
17854885 CGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACAACTTCAGTTTATTTATTTACG
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* * * * * * * *
17854950 ATCATTAACTCTCCTTAGTTCACAAGAAATGTAAATTTGTTGAACTAGTTCCAAGCGTGGTCGGA
131 ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
* * * * * * * * *
17855015 TATGATTTTAAACTAGCTAAGTCTGACCTCTTTGCCATTCATAGTAAGTTAGATTCTAGAGATGA
196 GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
* *
17855080 TAAATAAAAACGTGTTGAGGAAGAACTCAAAACTGACATTGAAAGAAGGAGGATAGAGGAATCAA
261 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAA
* * * * * * * *
17855145 TTTTGTTAAATTGTCTTTATTAGGCTGAAGTTGCGTCTCTTCACCGTACGTCTGGAATGAGGCTT
326 TTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTT
* * * * *
17855210 -AAATGGATCGATCTTCT-AAAAAA-AAAGAACTATTTGAAAAGCTTCAACTTATTTACAATCAC
391 GAAATGGATCGATCTTTTCAAAAAACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGATCAC
* * * * **
17855272 GACCTTCTACTTATAGGATTTTACGAATCTCACGATCCGC-AGATTTATGATCATATTTGTCATT
456 GACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGA-ATTTACGATCATAACTGTCATT
** * * ** * *
17855336 TGGAAAGCTCACTGATTTACTTATACAGCTTTTGTTCATTTATTTACGATCA
520 TTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* * * * * *
17855388 TGAACAGTTAATTAAGAGTTCGTCGATTTATGATCGCAATTCCACTTAAACAGTTCGTTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * * * ** * *
17855453 CGATCA-AACTGTCATATTCAAAGCTCACTGATTTATAAT-TTGGCTTCAGTTCATTGATTTACG
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* * * * * *
17855516 ATCATGAACACTTGTTGGTTCACTAGGAATGTAAATTTACTGAACTAGTTCTAAGCATGGTCAGA
131 ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
* * * *
17855581 GATGATTTTCAACTAGCTAATTCTGACCTCTTTGCCCTTCATAGCAAGTTAGATTCTAGAGATGA
196 GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
* * *
17855646 TAAATAAAGATGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGGCA-GAGGATAGAGGAATCA
261 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAA-GAAGGAGGATAGAGGAATCA
* * * * * * *
17855710 ATTTTGTTAAATTTTTCTTTATTAGGCTGAAGTTACTTCTCTTCACCTTCCGTCTGAAACAAGGC
325 ATTTTGTTACA-TTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGC
* * ** * * * * * * *
17855775 TTGAAATGAATCAATCTGCTCAAAAAAAGAAGAAATTGTTCT-AAAAGTTTCAGTTGATTTACAA
389 TTGAAATGGATCGATCTTTTC-AAAAAACAAGGAACTATT-TGAAAAGCTTCAGCTGATTTACGA
* * * * *
17855839 TCACAACCTTCTACTTATAGGATTTTACGAATCTCACGGTCCGCGGATTTACGATCATAACAGTC
452 TCACGACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGAATTTACGATCATAACTGTC
* * * * ** * * * *
17855904 AATTGTAAAGCTCGCTGATTAATGTATACAAATTTAGTTCATTTATTTACGACCA
517 ATTTTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* * * ** *
17855959 TGAACATTTAATTAAGAGTTCACCGATTTACGATCGCAACTCCTTTTAAACAGTTCGTTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * * * * * * * **
17856024 CGATCATAACTGTTATTTTTAAAGTTCAATGATTTATAATCACGACTTCAGTTTATTGATTTATA
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
* * *
17856089 ATCATGAACAC-TCTTTGGTACACAAGGAATGTAAATTTACTGAACTAGTTTCAAGCGTGGCCAG
131 ATCATGAACACTTC-TTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAG
* * * * * * *
17856153 AAATAAATTTCAACTAGTTAATTCTGACCTCTCTACCCTTCAAAGTAAGTTAGATACTAGAGATC
195 AGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATG
* * *
17856218 ATAAATAAATG-CGTGTTGAGGAAGAACTCAAAACTCACCTTGAAAGAAGTATGATAGAGGAATC
260 ATAAATAAA-GACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATC
* * * * * ** * * *
17856282 AATTTTGTTACATTGTCTTTATTAGCCCGAAGCTATTTTTCTGAATCGTATGTCTGAAACGAGGC
324 AATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGC
* * * * * *
17856347 TCGAAATGGATCGA--TTTGCTAAAAA-AAGAAACT-TTCTGAAAAGCTTAAGTTGATTTACGAT
389 TTGAAATGGATCGATCTTTTCAAAAAACAAGGAACTATT-TGAAAAGCTTCAGCTGATTTACGAT
* * * * * * *
17856408 CAC-AGCCTTTTACTTACAGGATTTTACGAATTTCATGGTCTGCGGATTTACAATCAAAATTGTC
453 CACGA-CCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGAATTTACGATCATAACTGTC
* * * * * * *
17856472 TTTTTTATAGCTCACTAATTTACGTTTACAGCTTCAATTCATTGATTTACAGTCA
517 ATTTTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* ** * * * * * *
17856527 TAAACACTTCATTAAGAGTTCTTCGATTTACAATTGTAACTCTACTTAAACATTTCGTTGATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
* * * * * *
17856592 TGATCACAACTGTCAGTTTTAAAGCTCGCTGATTTACAATCATGGCTTCAGTTCATTGATTTACA
66 TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
** * * * * *
17856657 ATCATGAACACTTAATCGTTCTCAAGGAATGCAAATTTACTGAAGTAGTTCCAAGCGTGG--AGA
131 ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
* * * * * *
17856720 GATGACTTTCAGCTAGCTAATTCTAACCTCTCTTCCCTTTAGAGCAAGTTAGATGCTAGAGATGA
196 GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
* * *
17856785 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGACAGAAGGAGGATAAAGAAATCAA
261 TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATC-A
* * * * * * * * * *
17856850 AATTTGTTAAATTGTCTTTGTGATGCAGAAGTTACATCTATTCACCATACGTCTAAAATGAGGCT
325 ATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCT
* * * * *
17856915 TG-AATGGGTTGATCTTCTCAAATAAACAAGGAACTATCTGAAAAGCTTTAGCTGATTTAC-AGT
390 TGAAATGGATCGATCTTTTCAAA-AAACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGA-T
* * * * * * * *
17856978 TACGACCTTTTACTTATAGGATTTTATGAATCTCACGGTTTAC-AGATTTATGATCATAACTATC
453 CACGACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGA-ATTTACGATCATAACTGTC
* * * *
17857042 ATTTTTAAAGCTCGTTGATTTACGTATACAGTTTTAGTTCATTGATTTACAGTCA
517 ATTTTTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
* * * *
17857097 TGAACCCTTCATTAAGAGTTCGCAGATTTACGATCGTAACTCCACTTAAATAGTTCATT-ATTTA
1 TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTT-
* * * *
17857161 ACT-ATCACAAACTATTATTTTTAAAGCTCACTTATTTACAATCATGACTTCAATTCATTGATTT
65 A-TGATCAC-AACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTT
* * * * * *
17857225 ATGATTATGAACACTTATTGGTTCATAAGGAATGTAAATTTGCTGAACTAGTTCCACGAGTGGCC
128 ACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCC
17857290 AGAGATGATTTTCAACTAGCTA
193 AGAGATGATTTTCAACTAGCTA
17857312 CTTTTCTTAT
Statistics
Matches: 4862, Mismatches: 876, Indels: 276
0.81 0.15 0.05
Matches are distributed among these distances:
548 3 0.00
549 259 0.05
550 161 0.03
551 11 0.00
552 121 0.02
553 103 0.02
554 5 0.00
555 9 0.00
556 187 0.04
557 49 0.01
558 1 0.00
559 2 0.00
560 1 0.00
562 2 0.00
563 2 0.00
564 2 0.00
565 6 0.00
566 319 0.07
567 192 0.04
568 1035 0.21
569 127 0.03
570 212 0.04
571 1018 0.21
572 397 0.08
573 634 0.13
574 4 0.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (571 bp):
TGAACACTTCATTAAGAGTTCGCCGATTTACGATCGCAACTCCACTTAAATAGTTCGTTGATTTA
TGATCACAACTGTCATTTTTAAAGCTCACTGATTTACAATCACGACTTCAATTCATTGATTTACG
ATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCCAAGCGTGGCCAGA
GATGATTTTCAACTAGCTAATTCTGACCTCTCTACCCTTCAAAGCAAGTTAGATGCTAGAGATGA
TAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAA
TTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTT
GAAATGGATCGATCTTTTCAAAAAACAAGGAACTATTTGAAAAGCTTCAGCTGATTTACGATCAC
GACCTTCTACTTACAGGATTTTACGAATCTCACGGTCTGCGAATTTACGATCATAACTGTCATTT
TTAAAGCTCGCTGATTTACGTATACAGCTTCAGTTCATTGATTTACAATCA
Found at i:17857943 original size:20 final size:20
Alignment explanation
Indices: 17857918--17857955 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17857908 CACTATCTGC
*
17857918 TAATTTATTATCACAACTAT
1 TAATTTATGATCACAACTAT
17857938 TAATTTATGATCACAACT
1 TAATTTATGATCACAACT
17857956 TAAGTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (20 bp):
TAATTTATGATCACAACTAT
Found at i:17858552 original size:19 final size:20
Alignment explanation
Indices: 17858509--17858552 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
17858499 GATCTGCTTA
17858509 AAAAAATAAGGAAATTTCTG
1 AAAAAATAAGGAAATTTCTG
*
17858529 AAAAAATAAGGAACTTTCTG
1 AAAAAATAAGGAAATTTCTG
17858549 AAAA
1 AAAA
17858553 GATTCACCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.23
Consensus pattern (20 bp):
AAAAAATAAGGAAATTTCTG
Found at i:17858846 original size:20 final size:20
Alignment explanation
Indices: 17858821--17858864 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17858811 GATCTGCTTA
17858821 AAAAAAAAAGGAAA-TTTCTG
1 AAAAAAAAA-GAAACTTTCTG
*
17858841 AAAAAATAAGAAACTTTCTG
1 AAAAAAAAAGAAACTTTCTG
17858861 AAAA
1 AAAA
17858865 GATTCACCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.20
Consensus pattern (20 bp):
AAAAAAAAAGAAACTTTCTG
Found at i:17858867 original size:312 final size:312
Alignment explanation
Indices: 17858339--17859122 Score: 1248
Period size: 312 Copynumber: 2.5 Consensus size: 312
17858329 CCTTGAGATC
* * * * *
17858339 AAGTTAGATGCTAGAGATGAAGAATATA-GAAGTGTTGAGGAAGAACTCAAAAGTGACCTTGAAA
1 AAGTTAAATGCTAAAGATGACGAATATAGGCA-TGTTGAGGAAGAACTCAAAACTGACCTTGAAA
** * * *
17858403 GAA-AGAGGATAGAGGAATCAATTTTTTTTACATTATTTTTGTGAGGCTGAAGCTACTTCTCTTT
65 GAAGA-AGGATAGAGGAATCAA-TTTCCTTACATTGTTTTTGTTAGGCTGATGCTACTTCTCTTT
* * * *
17858467 ACTGTACATTTGAAACAAGTCTTAAATAGATTGATCTGCTTAAAAAAATAAGGAAATTTCTGAAA
128 ACCGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTTAAAAAAAAAAGGAAATTTCTGAAA
*
17858532 AAATAAGGAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTA
193 AAATAAGAAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTA
*
17858597 TGAATATCACGGTCTACTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGGGA
258 TGAATATCACGGTCTACTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAGA
* *
17858652 AAGTTAAATGCTAAAGATGACGAATATAGGCTTGTTGAGGAAGAACTCAAAATTGACCTTGAAAG
1 AAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAG
* *
17858717 AAGAAGGATAGATGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTACC
66 AAGAAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGGCTGATGCTACTTCTCTTTACC
*
17858782 GTTCGTTTGAAACAAGTCTTAAATGGATTGATCTGCTTAAAAAAAAAAGGAAATTTCTGAAAAAA
131 GTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTTAAAAAAAAAAGGAAATTTCTGAAAAAA
17858847 TAAGAAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTATGA
196 TAAGAAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTATGA
* * * * *
17858912 ATCTCATGGTCTGCTTCAACTAGCAAATTTTTACCTCTCTTCTCATTAGAGC
261 ATATCACGGTCTACTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAGA
17858964 AAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAG
1 AAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAG
*
17859029 AAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGGCTGATGCTACTTCTCTTTACC
66 AAGAAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGGCTGATGCTACTTCTCTTTACC
* * *
17859094 ATACGTTTGAAACGAGGCTTGAAATGGAT
131 GTACGTTTGAAACAAGTCTT-AAATGGAT
17859123 CGATTTACCC
Statistics
Matches: 434, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
312 350 0.81
313 82 0.19
314 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (312 bp):
AAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAG
AAGAAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGGCTGATGCTACTTCTCTTTACC
GTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTTAAAAAAAAAAGGAAATTTCTGAAAAAA
TAAGAAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTATGA
ATATCACGGTCTACTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAGA
Found at i:17861120 original size:571 final size:570
Alignment explanation
Indices: 17858926--17861120 Score: 2160
Period size: 571 Copynumber: 3.9 Consensus size: 570
17858916 CATGGTCTGC
* * * * * * *
17858926 TTCAACTAGCAAATTTTTACCTCTCTTCTCATTAGAGCAAGTTAAATGCTAAAGATGACGAATAT
1 TTCAACTAGCTAATTTTGACCTCTCTGCACTTTAGAGCAAGTTAGATGCTAAAGATGATGAATAT
* * **
17858991 AGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAATTTCCTT
66 AGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGTT
* * * * * * *
17859056 ACATTGTTTTTGTTAGGCTGATGCTACTTCTCTTTACCATACGTTTGAAACGAGGCTTGAAATGG
131 ACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTATACATTTGAAATGAGGCTTGAAATGG
* ** * * *
17859121 ATCGATTTAC--CCAAAAACTAAGGATCTTTTTGAAAAGCTTCAGCTGATTTATAATCATGACCT
196 ATCGATTTGCTAAAAAAAAC-AAGGAACTTTTTGAAAAGCTTAAGCTGATTTACAATCATGACCT
** * * ** * * * *
17859184 TCTACTTACAATATTTTATGAA-CTTTACTTTCCGCTGATTTACTATCCCAAC--TACCATTTCT
260 TCTACTTACAGGATTTTACGAATC-TCACGGTCCGCTGATTTACGATCACAACTATAACTTTTC-
* * * * * * * *
17859246 AAAGCTCGTTGAGTTAAGAACACAACTTAAGTTTATTGATTTATGATCATTAACACTTCATTAAG
323 AAA-CTCATTGATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAG
*** * * * * * *
17859311 AGTTCAACGATTTACGATCGTGACTCCATTTAAACAGTTCAATTATTTACAATCACAATTGTCAT
387 AGTTC-ACGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTACGATCACAACTGTCAT
* * * * * * * * ****
17859376 TTTTAACGCTCACTGAATTACAATCATGACTTCAATTGATTGATCTATGATCATGAACACGACTT
451 TTTTAAAGCTCGCTGATTTACAATCACGACTTCAGTTAATTGATTTACGATCATGAACATTTTTT
* * *
17859441 GGTTCACAAGATATGTTTATTTGCTGAACTAGTTCCAAGCATTGCCAAAGATGATTT
516 GGTTCACAAGA-ATGTTAATTTGCTGAACTAGTTCCAAGCATAGCCAAAGACGA-TT
* *
17859498 TTCAACTAGCT-A-----A--T-TCTG------A-A-CAAGCTAGATGCTAGAA-ATGATAAATA
1 TTCAACTAGCTAATTTTGACCTCTCTGCACTTTAGAGCAAGTTAGATGCTA-AAGATGATGAATA
* * * * *
17859545 TATG-CGTGTTGAGGAAGAACTCAAAATTAACCTTAAAAGAAAGAGGATAGAGGGATCAATTTTG
65 TA-GACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTG
* * * * **
17859609 TTACATTGTCTCTATGAGGCTGAAGCTACTTTTCTTCACTATACATTTGAAATGAGGCTACAAAT
129 TTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTATACATTTGAAATGAGGCTTGAAAT
* * * * * * *
17859674 GGAACGATTTGCTTAAAAACATAAGGAACTTTTTAAAAAGCTTTAGCT--TTTAATAAT-ATTGT
194 GGATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTAAGCTGATTT-ACAATCA-TG-
* * ** * * *
17859736 A-CTGCTACTTACACGATTTTTTGAATATCACGATCCGCTGATTTACGATCACAACTATTA-TTT
256 ACCTTCTACTTACAGGATTTTACGAATCTCACGGTCCGCTGATTTACGATCACAACTATAACTTT
* * * *
17859799 TTAAA-GCATGCTGATTTAGGATCACAACTTCAGTTCATTAATTTACGATCATGAACACTTCATT
321 TCAAACTCAT--TGATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACACTTCATT
* * * * * *
17859863 AAGAGTTCACAAGTTTAGGATCACAACTCCACTTAAATAGTTCACTGATTTACGATCAAAAGTGT
384 AAGAGTTCACGA-TTTACGATCACAACTCCACTTAAACAATTCACTGATTTACGATCACAACTGT
* * * * * * * *
17859928 TAGTTTTAAAGCTCGTTGTTTTACAATCACGGCTTCAGATAATTGATTTAAGATCATGAATAGTT
448 CATTTTTAAAGCTCGCTGATTTACAATCACGACTTCAGTTAATTGATTTACGATCATGAACA-TT
* * * * *
17859993 TTTT-GTTCAGAAGTAATGTTAATTTCCTAAATTAGTTCTAAGCATAGCCAAAGATC-ATT
512 TTTTGGTTCACAAG-AATGTTAATTTGCTGAACTAGTTCCAAGCATAGCCAAAGA-CGATT
* * * * * *
17860052 TTCAAATAGTTAATTTTGACCTATCTGCACTTTAGAACAAGTTAGCTG-TCACAGATGATGAATA
1 TTCAACTAGCTAATTTTGACCTCTCTGCACTTTAGAGCAAGTTAGATGCT-AAAGATGATGAATA
* * * * *
17860116 TATACATGTTGAGGAAGAGCTCAAAACTAATCTTGAAAGAAGAAGGATAGAGGGATCAATTTTGT
65 TAGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
* **
17860181 TACATTGTCTTTGTGAGGCTAAAGCTACTTCTCTTAACTGCACATTTGAAATGAGGCTTGAAATG
130 TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTATACATTTGAAATGAGGCTTGAAATG
* * * *
17860246 GATCGATTTGC-CAAAAAAACAAGGAACTTTTTGAAAAG-TGTCAGCTAATTTACGATCATGACC
195 GATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCT-TAAGCTGATTTACAATCATGACC
* *** *
17860309 TTCTACTTACAGGATTTTACGAATCTCACGGTCCACTGATTTACGATCACAACTATCTTTTTTAA
259 TTCTACTTACAGGATTTTACGAATCTCACGGTCCGCTGATTTACGATCACAACTATAACTTTTCA
* * * *
17860374 AACTCGTTGATTTACGATCATAGCTTCAGTTCATTGATTTAGGATCATGAACACTTCATTAAGAG
324 AACTCATTGATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAG
* * ***
17860439 TTCATCGATTTACGATCACAACTCCACTTAAACAATTCGCTGATTTATGATTGGAACTGTCATTT
389 TTCA-CGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTACGATCACAACTGTCATTT
*
17860504 TTAAAGCTCGCTGATTTACAATCACGACTTCGGTTAATTGATTTACGATCATGAA-ATTTTTTGG
453 TTAAAGCTCGCTGATTTACAATCACGACTTCAGTTAATTGATTTACGATCATGAACATTTTTTGG
* * * * * *
17860568 TTCACAAGCAATGTAAATTTGCTGAACTAATTCCAAGCATGGCTAGAGACGACT
518 TTCACAAG-AATGTTAATTTGCTGAACTAGTTCCAAGCATAGCCAAAGACGATT
* *
17860622 TTCAACTAGCTAATTTTGCCCTCTCTGC-CTTTCAGAGCAAGTTAGATGCTAAAGATGATGAATT
1 TTCAACTAGCTAATTTTGACCTCTCTGCACTTT-AGAGCAAGTTAGATGCTAAAGATGATGAATA
* * * * * * *
17860686 TAGACGTGTTAAGGAAGAACTTAAAATTGACCTTTAAAGAAGGAGGATAGAGGAATCAATTTTAT
65 TAGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
* * **
17860751 TACATTGCCTTTGTTAGGCTGAAGCTACTTCTCTTAACTATATGTTTGAAATGAGGCTTGAAATG
130 TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTATACATTTGAAATGAGGCTTGAAATG
* * ** * *
17860816 GACCGATCTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTAAATTGATTTACGATCACGACCT
195 GATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTAAGCTGATTTACAATCATGACCT
* * * * *
17860881 TTTACTTACAGGATTTTACGAATCTCATGGTCCGCTAATTTACAATCACAACTGTAACTTTTCAA
260 TCTACTTACAGGATTTTACGAATCTCACGGTCCGCTGATTTACGATCACAACTATAACTTTTCAA
* * * * * *
17860946 ACTCATTGCTTTACGACCATATCTTCAGTTCATTGATTTACGATCATGAACCCTTAATTAAGAGT
325 ACTCATTGATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGT
* * * ** *
17861011 TCACCGATTTACAATCACTACTTCACTTAAACAATTCGTTGATTTATGATCACAACTGTCATTTT
390 TCA-CGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTACGATCACAACTGTCATTTT
* * * *
17861076 TAAAGCCCGCTGATTTAAAATGATGACTTCAGTTAATTGATTTAC
454 TAAAGCTCGCTGATTTACAATCACGACTTCAGTTAATTGATTTAC
17861121 CATTTTGAAA
Statistics
Matches: 1332, Mismatches: 241, Indels: 101
0.80 0.14 0.06
Matches are distributed among these distances:
553 2 0.00
554 18 0.01
555 374 0.28
556 34 0.03
557 6 0.00
560 1 0.00
562 1 0.00
563 7 0.01
564 1 0.00
566 1 0.00
569 13 0.01
570 243 0.18
571 605 0.45
572 24 0.02
573 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (570 bp):
TTCAACTAGCTAATTTTGACCTCTCTGCACTTTAGAGCAAGTTAGATGCTAAAGATGATGAATAT
AGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGTT
ACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTATACATTTGAAATGAGGCTTGAAATGG
ATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTAAGCTGATTTACAATCATGACCTT
CTACTTACAGGATTTTACGAATCTCACGGTCCGCTGATTTACGATCACAACTATAACTTTTCAAA
CTCATTGATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTT
CACGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTACGATCACAACTGTCATTTTTA
AAGCTCGCTGATTTACAATCACGACTTCAGTTAATTGATTTACGATCATGAACATTTTTTGGTTC
ACAAGAATGTTAATTTGCTGAACTAGTTCCAAGCATAGCCAAAGACGATT
Found at i:17865070 original size:14 final size:14
Alignment explanation
Indices: 17865051--17865092 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
17865041 CTTTAGTTCC
17865051 TTGATTTACGATCA
1 TTGATTTACGATCA
17865065 TTGATTTACGATCA
1 TTGATTTACGATCA
17865079 -TGATTTACGATCA
1 TTGATTTACGATCA
17865092 T
1 T
17865093 GATCACAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGATTTACGATCA
Found at i:17865084 original size:13 final size:13
Alignment explanation
Indices: 17865052--17865095 Score: 79
Period size: 13 Copynumber: 3.3 Consensus size: 13
17865042 TTTAGTTCCT
17865052 TGATTTACGATCA
1 TGATTTACGATCA
17865065 TTGATTTACGATCA
1 -TGATTTACGATCA
17865079 TGATTTACGATCA
1 TGATTTACGATCA
17865092 TGAT
1 TGAT
17865096 CACAGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TGATTTACGATCA
Found at i:17868109 original size:29 final size:29
Alignment explanation
Indices: 17868076--17868141 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
17868066 CGATGAATGG
17868076 AAAGGGATAGCTTTGGCTATCG-TATACGA
1 AAAGGGATAGCTTTGGCTATCGAT-TACGA
* *
17868105 AAAGGGATAGCTTTGGCTATTGATTATGA
1 AAAGGGATAGCTTTGGCTATCGATTACGA
17868134 AAAGGGAT
1 AAAGGGAT
17868142 GGTGACGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (29 bp):
AAAGGGATAGCTTTGGCTATCGATTACGA
Found at i:17868195 original size:30 final size:29
Alignment explanation
Indices: 17868129--17868285 Score: 120
Period size: 30 Copynumber: 5.3 Consensus size: 29
17868119 GGCTATTGAT
*
17868129 TATGAAAAGGGATGGTGACGACCATCATC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
17868158 AATGAAAAGGGATGGTGATGACCATTGAAC
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
* * * *
17868188 TATGAAAAGGGATAGCT-TC-AGCTATCAAAT
1 TATGAAAAGGGAT-GGTGACGA-CCATC-AAC
* *
17868218 TATGAAAAAGGATGGTGACAACCATCAAAC
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
17868248 AATAAAAAGGGATGGTGATGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
17868278 TATGAAAA
1 TATGAAAA
17868286 AGGTTAGCTT
Statistics
Matches: 98, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
29 26 0.27
30 69 0.70
31 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:17868272 original size:90 final size:88
Alignment explanation
Indices: 17868103--17868296 Score: 253
Period size: 90 Copynumber: 2.2 Consensus size: 88
17868093 TATCGTATAC
** ** * * * *
17868103 GAAAAGGGATAGCTTTGGCTATTGATTATGAAAAGGGATGGTGACGACCATCATCAATGAAAAGG
1 GAAAAGGGATAGCTTCAGCTATAAATTATGAAAAAGGATGGTGACAACCATCAACAATAAAAAGG
**
17868168 GATGGTGATGACCATTGAACTAT
66 GATGGTGATGACCATCAAACTAT
17868191 GAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAAGGATGGTGACAACCATCAAACAATAAAAA
1 GAAAAGGGATAGCTTCAGCTAT-AAATTATGAAAAAGGATGGTGACAACCATC-AACAATAAAAA
*
17868256 GGGATGGTGATGACCATCAAATTAT
64 GGGATGGTGATGACCATCAAACTAT
* *
17868281 GAAAAAGGTTAGCTTC
1 GAAAAGGGATAGCTTC
17868297 GACTGTTGAA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 20 0.22
89 26 0.29
90 45 0.49
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (88 bp):
GAAAAGGGATAGCTTCAGCTATAAATTATGAAAAAGGATGGTGACAACCATCAACAATAAAAAGG
GATGGTGATGACCATCAAACTAT
Found at i:17868312 original size:90 final size:89
Alignment explanation
Indices: 17868129--17868320 Score: 242
Period size: 90 Copynumber: 2.1 Consensus size: 89
17868119 GGCTATTGAT
* * * **
17868129 TATGAAAAGGGATGGTGACGACCATCATCAATGAAAAGGGATGGTGATGACCATTGAACTATGAA
1 TATGAAAAGGGATGGTGACAACCATCAACAATAAAAAGGGATGGTGATGACCATCAAACTATGAA
* *
17868194 AAGGGATAGCTTCAGCTATCAAAT
66 AAAGGATAGCTTCAGCTATCAAAC
* *
17868218 TATGAAAAAGGATGGTGACAACCATCAAACAATAAAAAGGGATGGTGATGACCATCAAATTATGA
1 TATGAAAAGGGATGGTGACAACCATC-AACAATAAAAAGGGATGGTGATGACCATCAAACTATGA
* * **
17868283 AAAAGGTTAGCTTC-GACTGTTGAAC
65 AAAAGGATAGCTTCAG-CTATCAAAC
17868308 TATGAAAAGGGAT
1 TATGAAAAGGGAT
17868321 AACTTCGATT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 25 0.29
90 62 0.71
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (89 bp):
TATGAAAAGGGATGGTGACAACCATCAACAATAAAAAGGGATGGTGATGACCATCAAACTATGAA
AAAGGATAGCTTCAGCTATCAAAC
Found at i:17872596 original size:896 final size:898
Alignment explanation
Indices: 17870881--17872640 Score: 2443
Period size: 896 Copynumber: 2.0 Consensus size: 898
17870871 TCATTATTAA
* * *
17870881 GGCTCGCTAATTTACGATCATGAAAACTTAATTAAGAGTTTCCCAATTTCTAATTTATGTTTGCA
1 GGCTCGCTAATTAACGATCATGAAAACTTAATTAACAGTTTCCCAATTTATAATTTATGTTTGCA
* * * *
17870946 ACTTCACCTAATCAGTTCATTGATTTACGATCATAACGTCAGTTCATTGATTTACGATCATGAAC
66 ACTTCACCTAATCAGTTCATTGATTTACGATCACAAAGTCAATTCATTGATTTACAATCATGAAC
* ** *
17871011 ACTTCTTGGTTCAAAAGGAATGTAACTTTTTTGAACTAGTTCTGTTCATGGCAAGAGATGATTTT
131 ACTTCTTGGTTCAAAAGGAATGTAAATTTGCTGAACTAGTTCTATTCATGGCAAGAGATGATTTT
*
17871076 CAACTAGCTTATTCTCACCGCTATACACTTTAGAGCAAGTTAGATGCTAGAGATGATAAATATAT
196 CAACTAGCTTATTCTCACCGCTATACACTTCAGAGCAAGTTAGATGCTAGAGATGATAAATATAT
* * *
17871141 GCGTGCTTAGGAAGAACTCAAAACTAAACTTGAAAGAAGGAGGATATAGGACTCAATTTTGTTAC
261 GCGTGCTTAGAAAGAACTCAAAACTAAACTTG-AAGAAGGAAGATATAGGACTCAATTTTGTTAA
*
17871206 ATTGTCTTTGTGAGGCTGAAGCTACTACTCTTAATCGTATCCTTGAAATGGGCTTGAAATGGACC
325 ATTGTCTTCGTGAGGCTGAAG--ACTACTCTTAATCGTATCCTTGAAATGGGCTTGAAATGGACC
* * *
17871271 GAATTGCTAAAAAAACAAGAATCTTTCTAAAATGCTTCAGCTGATTTACAATCACGACTTTGGCA
388 GAATTGCTAAAAAAAAAAGAATCTTTCTAAAATGCCTCAGCTGATTTACAATCACGACTTAGGCA
* * * *
17871336 ATACAACTGTCATTTTTACTAATGTGATGGTCCGCAGATTTAGGATCACAACTTTTATTTTTAAA
453 ATACAACTGTCATTTTTACTAATGTCACGGTCAGCAGATTTAGGATCACAACTTTCATTTTTAAA
* * * ** *
17871401 GCTCACTGATTTATGATCATGAACCCTTCATCAACAGTTCATTGATTTACAATCGCAACTCAACT
518 GCTCACTAATTTACGATCATGAACACTTCATCAACAGTTCATTGAAATACAATCACAACTCAACT
** *
17871466 TAAACAGTTCACTGATTCACGATCATGACTATCATTTTTAAAGCTTGTAGATTTAAAACCATAAC
583 TAAACAGTTCACTGATTCACGATCACAACTATCATTTTTAAAGCTCGTAGATTTAAAACCATAAC
* * * *
17871531 TTTAGTTTAGTGATTTAAGATCATGGACTCTTCTTCGTTCACAATGAATGTAAATTTGCAGAAAA
648 TTTAGTTCAGTGATTTAAGATCATGAACTCTTCTTCGTTAACAATGAATATAAATTTGCAGAAAA
17871596 AGTTCTAAGCGTCGCAAGAGATAATTTACACGTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCA
713 AGTTCTAAGCGTCGCAAGAGATAATTTACACGTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCA
* **
17871661 AGTTAGATGCTAGAGATGATGAATATAGGCCTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGA
778 AATTAGATGCTAGAGATGATGAATATAGAACTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGA
17871726 AAGAAGAAACAAGACTCAACTGTCCACTGATTTACGATCACAGCTATCATTTCTAT
843 AAGAAGAAACAAGACTCAACTGTCCACTGATTTACGATCACAGCTATCATTTCTAT
* * *
17871782 GGCTCGCTGATTAACGATCATGAAAACTTCATTAACA-TATTCCCAATTTATGATTTATGATTT-
1 GGCTCGCTAATTAACGATCATGAAAACTTAATTAACAGT-TTCCCAATTTATAATTTATG-TTTG
** * * *
17871845 CAACTTCAGTTAATCAGTTCGTTGATTTACGATCACAAATTCAATTCATTTATTTACAATCATGA
64 CAACTTCACCTAATCAGTTCATTGATTTACGATCACAAAGTCAATTCATTGATTTACAATCATGA
* * *
17871910 ACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCTATTCATGGCAATATATGATT
129 ACACTTCTTGGTTCAAAAGGAATGTAAATTTGCTGAACTAGTTCTATTCATGGCAAGAGATGATT
* * * * * *
17871975 TTCAACTAGCTTATTCTGACCTCTCTGC-CATTCAGAGCAATTTAGATGCTAGAGATGATGAATA
194 TTCAACTAGCTTATTCTCACCGCTATACAC-TTCAGAGCAAGTTAGATGCTAGAGATGATAAATA
* *
17872039 TATGCGTG-TTGAGAAAGAGCTTAAAACTAAACTTG-A-AAGGAAGATATAGGACTCAATTTTGT
258 TATGCGTGCTT-AGAAAGAACTCAAAACTAAACTTGAAGAAGGAAGATATAGGACTCAATTTTGT
* *
17872101 TAAATTTTCTTCGTGAGGCTTAAG-CTACTCTTAATCGTATCCTTGAAATGAGG-TTGAAATGGA
322 TAAATTGTCTTCGTGAGGCTGAAGACTACTCTTAATCGTATCCTTGAAATG-GGCTTGAAATGGA
* * *
17872164 TCG-ATCTGCTAAAAAAAATAA-AGATCTTTTTAAAGA-GCCTCATCTGATTTACAATCACGACG
386 CCGAAT-TGCTAAAAAAAA-AAGA-ATCTTTCTAAA-ATGCCTCAGCTGATTTACAATCACGAC-
* * * *
17872226 TTAGG-ATTACAATTGTCATTTTTACTAATGTCACGGTTAGCAGATTTGGGATCACAACTTTCAT
446 TTAGGCAATACAACTGTCATTTTTACTAATGTCACGGTCAGCAGATTTAGGATCACAACTTTCAT
* * *
17872290 TTTTAAAGCTCGCTAATTTACGGTCATGAACACTTCATCAACAGTTCGTTGAAAT-CTAATCACA
511 TTTTAAAGCTCACTAATTTACGATCATGAACACTTCATCAACAGTTCATTGAAATAC-AATCACA
* * * * *
17872354 ACTCAACTTAAATAGTTCACTGATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACA
575 ACTCAACTTAAACAGTTCACTGATTCACGATCACAACTATCATTTTTAAAGCTCGTAGATTTAAA
* * * *
17872419 CCCATGACTTTAG-TCCGTTGATTTAAGATCATGAACTCTTCTTTGTTAACAATGAATATAAATT
640 ACCATAACTTTAGTTCAG-TGATTTAAGATCATGAACTCTTCTTCGTTAACAATGAATATAAATT
* * * * * * * *
17872483 TGCTGAAATAGTTCTAAGCGTGGCCAGAGATGATTTTCAAC-TAGCTAATTCTGACCTTTCTGTC
704 TGCAGAAAAAGTTCTAAGCGTCGCAAGAGATAATTTAC-ACGTAGCTAATTCTGACCTCTCTGCC
* * *
17872547 CTTCAGAGCAAATTAGATGCTAGAGATGATGAATATAGAAGTTTTGAGGAAGAACTCAAAACTAA
768 CTTCAAAGCAAATTAGATGCTAGAGATGATGAATATAGAACTGTTGAGGAAGAACTCAAAACTAA
* *
17872612 CCTTGAAGGAAAGAAGATACAAGACTCAA
833 CCTTGAAAGAAAGAAGAAACAAGACTCAA
17872641 TTTTGTTACA
Statistics
Matches: 754, Mismatches: 92, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
894 2 0.00
895 53 0.07
896 390 0.52
897 7 0.01
898 45 0.06
899 1 0.00
900 4 0.01
901 249 0.33
902 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (898 bp):
GGCTCGCTAATTAACGATCATGAAAACTTAATTAACAGTTTCCCAATTTATAATTTATGTTTGCA
ACTTCACCTAATCAGTTCATTGATTTACGATCACAAAGTCAATTCATTGATTTACAATCATGAAC
ACTTCTTGGTTCAAAAGGAATGTAAATTTGCTGAACTAGTTCTATTCATGGCAAGAGATGATTTT
CAACTAGCTTATTCTCACCGCTATACACTTCAGAGCAAGTTAGATGCTAGAGATGATAAATATAT
GCGTGCTTAGAAAGAACTCAAAACTAAACTTGAAGAAGGAAGATATAGGACTCAATTTTGTTAAA
TTGTCTTCGTGAGGCTGAAGACTACTCTTAATCGTATCCTTGAAATGGGCTTGAAATGGACCGAA
TTGCTAAAAAAAAAAGAATCTTTCTAAAATGCCTCAGCTGATTTACAATCACGACTTAGGCAATA
CAACTGTCATTTTTACTAATGTCACGGTCAGCAGATTTAGGATCACAACTTTCATTTTTAAAGCT
CACTAATTTACGATCATGAACACTTCATCAACAGTTCATTGAAATACAATCACAACTCAACTTAA
ACAGTTCACTGATTCACGATCACAACTATCATTTTTAAAGCTCGTAGATTTAAAACCATAACTTT
AGTTCAGTGATTTAAGATCATGAACTCTTCTTCGTTAACAATGAATATAAATTTGCAGAAAAAGT
TCTAAGCGTCGCAAGAGATAATTTACACGTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAAT
TAGATGCTAGAGATGATGAATATAGAACTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAAG
AAGAAACAAGACTCAACTGTCCACTGATTTACGATCACAGCTATCATTTCTAT
Found at i:17873553 original size:515 final size:509
Alignment explanation
Indices: 17872406--17873951 Score: 1697
Period size: 513 Copynumber: 3.0 Consensus size: 509
17872396 TTTTTAAAGC
* **
17872406 TCGTTGATTTACACCCATGACTTTAGTCCGTTGATTTAAGATCATGAACTCTTCTTTGTTAACAA
1 TCGTTGATTTACAACCATGACTTTAGTCTATTGATTTAAGATCATGAACTCTTCTTTGTTAACAA
* * * *
17872471 TGAATATAAATTTGCTGAAATAGTTCTAAGCGTGGCCAGAGATGATTTTCAACTAGCTAATTCTG
66 TGAATATAAATTTGCTGAAATAGTTCTAAGTGAGGCCAGAGATGATTTTCAACTAGCTTATTCTC
* * *
17872536 ACC-TT-T-CTGTCCTTCAGAGCAAATTAGATGCTAGAGATGATGAATATAGAAGTTTTGAGGAA
131 ACCGTTATAC-G-CCTT-AGAGCAAATTAGATGCTAGAGATGATGAATATATATGTATTGAGGAA
* * * *
17872598 GAACTCAAAACT-AACCTTGAAGGAAAGAA-GATACAAGACTCAATTTTGTTACATAGTCATTAT
193 GAACTCAAAACTGAA-CTTGAAAG-AAGAAGGATACAAGACTCAATTTTGTTACATTGTCTTTGT
* * ** * * *
17872661 GAGGCTGAAGCTACTTCACTTAATTTTATGCTTGAAATGAGACTTTAAATGGTTCGATTTGCTAA
256 GAGGCTGAAGCTACTACTCTTAATCGTATCCTTGAAATG-GACTTGAAATGGATCGATTTGCTAA
* * * * * * * *
17872726 AAGAAACAAAGAACTTTCTAAAAAGTTTCAACGAAATTATAATCACAACCTTCTA--CTTAC-A-
320 AA-AAACAAGGATCTTTCTAAAAAGCTTCAGCTAATTTACAATCACAA--TT-TAGGATTACAAT
* * * * * * * *
17872787 G-GA-TTTTA-TGAATCTCACGGTTCGCTGATTTATGATCACAACTTTCATTATTAAGGCTCGTT
381 GTCATTTTTACT-AATGTCACGG-TCCCAGATTTAGGATCACAACTTTCATTTTTAAAGCTCATT
* *
17872849 GATTTACGACCATGAACACTTCATTAAGAGTTTTCCAGTTTCTGATTTATGATCGCAACTTC-AC
444 GATTTACGATCATGAACACTTCATCAAGAG-TTT---G--T-TGATTTATGATCGCAAC-TCAAC
* * *
17872913 CTGATCAGT
501 TTAAACAGT
* * * ** * * * * *
17872922 TCATTGATTTACGAGCACAACTTCAGT-TCATTGATTTATGATCATGAACACTTCTTGGTTCACA
1 TCGTTGATTTACAACCATGACTTTAGTCT-ATTGATTTAAGATCATGAACTCTTCTTTGTTAACA
* * * * * * * * * *
17872986 AGGAATTTAACTTTGTTGAACTAGTT-T-TGTTCATGGCAAAAGATGATTTTCAACTAGTTTATT
65 ATGAATATAAATTTGCTGAAATAGTTCTAAG-TGA-GGCCAGAGATGATTTTCAACTAGCTTATT
** * * *
17873049 CTCACCGTTATACGCCTTAGAGCAGGTTATATGCTAAAGATGATGAATATATATGCGGATTGAGG
128 CTCACCGTTATACGCCTTAGAGCAAATTAGATGCTAGAGATGATGAATATATAT--GTATTGAGG
17873114 AAGAACTCAAAACTGAACTTGAAAGAAGAAGGATACAAGACTCAATTTTGTTACATTGTCTTTGT
191 AAGAACTCAAAACTGAACTTGAAAGAAGAAGGATACAAGACTCAATTTTGTTACATTGTCTTTGT
* * * *
17873179 GAGGCTGAAGCTAGTACTCTTAATCGTATCCTTAAAATGGGCTTGAAATGGACCGATTTGCTAAA
256 GAGGCTGAAGCTACTACTCTTAATCGTATCCTTGAAATGGACTTGAAATGGATCGATTTGCTAAA
*
17873244 AAAACCAAGGATCTTTCTAAAAAGCTTCAGCTAATTTACAATCACGATGTTAGGATTACAATTGT
321 AAAA-CAAGGATCTTTCTAAAAAGCTTCAGCTAATTTACAATCACAAT-TTAGGATTACAA-TGT
*
17873309 CATTTTTACTAATGTCACGGTCACCAGATTTAGGATCACAACTTTCATTTTTAAAGCTCACTGAT
383 CATTTTTACTAATGTCACGGTC-CCAGATTTAGGATCACAACTTTCATTTTTAAAGCTCATTGAT
*
17873374 TTACGGTCATGAACACTTCATCAAGAGTTTGTTGATTTATGATCGCAACTCAACTTAAACAGT
447 TTACGATCATGAACACTTCATCAAGAGTTTGTTGATTTATGATCGCAACTCAACTTAAACAGT
* *
17873437 TCGTTGATTTACAACCATGATTTTAGTCTATTGATTTAAGATCATGAACTCTTTTTTGTTAACAA
1 TCGTTGATTTACAACCATGACTTTAGTCTATTGATTTAAGATCATGAACTCTTCTTTGTTAACAA
* *
17873502 TGAATATAAATTTGCTAAAATAGTTCTAAGTGAGGCCAGAGATGATTTTCAACTAGCTTATTCAC
66 TGAATATAAATTTGCTGAAATAGTTCTAAGTGAGGCCAGAGATGATTTTCAACTAGCTTATTCTC
* * ** * *
17873567 ACCGCTATATGTTTTAGAGCAATTTAGATGCTAGAGATGATGAATATATATGTACTGAGGAAGAA
131 ACCGTTATACGCCTTAGAGCAAATTAGATGCTAGAGATGATGAATATATATGTATTGAGGAAGAA
* * *
17873632 CTCAAAACTGAACTTGAAAGAAGAAGGATATAGGACTCAATTTTGTTACATTGTCTTTGTGAGGT
196 CTCAAAACTGAACTTGAAAGAAGAAGGATACAAGACTCAATTTTGTTACATTGTCTTTGTGAGGC
* *
17873697 TGAAGCTACTACTTTTAATCGTATCCTTGAAAT-GATCTTGAAATGGATCGATCTGCTAAAAAAT
261 TGAAGCTACTACTCTTAATCGTATCCTTGAAATGGA-CTTGAAATGGATCGATTTGCTAAAAAA-
* *
17873761 ACAAGGATCTTTCTAAAAGGCTTCAGCTGATTTACAATCACAACTTTAGGATTACAACTGTC-TT
324 ACAAGGATCTTTCTAAAAAGCTTCAGCTAATTTACAATCACAA-TTTAGGATTACAA-TGTCATT
* * * * * * *
17873825 CTTTACTGATGTGACGGTCCGTAAATTTAGGATCACAAATTTTATTTTTAAATCTCATTGATTTA
387 -TTTACTAATGTCACGGTCC-CAGATTTAGGATCACAACTTTCATTTTTAAAGCTCATTGATTTA
* * * * * * * *
17873890 TGATCATGAACCCTTTATCAATAGTTCGTCGATTTACGATCGCAACTAAACTTAAACAGT
450 CGATCATGAACACTTCATCAAGAGTTTGTTGATTTATGATCGCAACTCAACTTAAACAGT
17873950 TC
1 TC
17873952 ACTGATTCAC
Statistics
Matches: 862, Mismatches: 138, Indels: 63
0.81 0.13 0.06
Matches are distributed among these distances:
512 4 0.00
513 291 0.34
514 5 0.01
515 170 0.20
516 140 0.16
517 73 0.08
518 95 0.11
519 3 0.00
520 1 0.00
521 6 0.01
522 73 0.08
523 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (509 bp):
TCGTTGATTTACAACCATGACTTTAGTCTATTGATTTAAGATCATGAACTCTTCTTTGTTAACAA
TGAATATAAATTTGCTGAAATAGTTCTAAGTGAGGCCAGAGATGATTTTCAACTAGCTTATTCTC
ACCGTTATACGCCTTAGAGCAAATTAGATGCTAGAGATGATGAATATATATGTATTGAGGAAGAA
CTCAAAACTGAACTTGAAAGAAGAAGGATACAAGACTCAATTTTGTTACATTGTCTTTGTGAGGC
TGAAGCTACTACTCTTAATCGTATCCTTGAAATGGACTTGAAATGGATCGATTTGCTAAAAAAAC
AAGGATCTTTCTAAAAAGCTTCAGCTAATTTACAATCACAATTTAGGATTACAATGTCATTTTTA
CTAATGTCACGGTCCCAGATTTAGGATCACAACTTTCATTTTTAAAGCTCATTGATTTACGATCA
TGAACACTTCATCAAGAGTTTGTTGATTTATGATCGCAACTCAACTTAAACAGT
Found at i:17874392 original size:36 final size:35
Alignment explanation
Indices: 17874352--17874442 Score: 80
Period size: 35 Copynumber: 2.6 Consensus size: 35
17874342 TCATTTTTAA
* *
17874352 AGTTCACTGATTTACGATCATGAACACTTTA-TCAAC
1 AGTTCACTGATTTACGATCA-GAA-ACTTAACTAAAC
* * *
17874388 AGTTC-GTCAATTTACGATC-GCAACTTAACTTAAAC
1 AGTTCACT-GATTTACGATCAGAAACTTAAC-TAAAC
17874423 AGTTCACTGATTTACGATCA
1 AGTTCACTGATTTACGATCA
17874443 CAACTATCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
33 5 0.12
34 2 0.05
35 20 0.47
36 16 0.37
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (35 bp):
AGTTCACTGATTTACGATCAGAAACTTAACTAAAC
Found at i:17879603 original size:485 final size:476
Alignment explanation
Indices: 17878154--17879617 Score: 1380
Period size: 485 Copynumber: 3.0 Consensus size: 476
17878144 CAACTTAAGC
* * * *
17878154 TCATTGATTTACGATCATGAATACTTATTGATTCACAATGAATGTAAATTTGCTAAACTAGTTCA
1 TCATTGATTTACGATCATGAACACTTATTGGTTCACAATGAATGTAAATTTGCTGAACTAGTTCT
* * *
17878219 ATTAATGGCAAGAGATGATTTTCAACTAGCTTATTCT--CATCGCTCAGCCTTTCAGAGCAAGTT
66 ATTCATGGCAAGAGATGATTTTCAACTAGCTTATTCTGACCTCCCT-A-CCTTTCAGAGCAAGTT
* * * *
17878282 AGATGTTAGAGATGATAAATATAT-ATGTGTTGAGGAAGAACTCAAAACTGAACTTGAAAGAAGG
129 AGATGCTAGAGATGATGAATATATGCT-TGTTGAGGAAGAACTCAAAACTAAACTTGAAAGAAGG
* * *
17878346 AGGATATAGGACTCAATTTTGTTACATTTTCTTTGTGAGGTTGAAGTTACTACTCTTAATTGTAT
193 AGGATATAGAACTCAATTTTGTTACA-TATCTTTGTGAGGTTGAAGCTACTACTCTTAATTGTAT
* * *
17878411 CCTTGAAATGATCTTGAAATGGATCGATCCGCTAAAAATCACAAGAATCTTTCTAAAAGGCTTCA
257 -CTTGAAATGAACTTGAAATGGATCGATCTGCTAAAAAACA-AAG-ATCTTTCTAAAAGGCTTCA
* *
17878476 GCTGATTTACAATCACGACTTTAGGATTACAACTGTC-TTCTTTACTAATGTCACAGTTCGCAAA
319 GCTGATTTACAATCACGACTTTAGGATTACAACTGTCATT-TTTACTAATGTCACAGTTCACAGA
* * * ** * * * *
17878540 TTTAGGACCAC-AACTAAACTTAAACAGTTCGCTTATTTACGATC--GCA-ACTGTCATTTTTAA
383 TTTAGGATCACAAATTCATTTTTAA-AGCTCGCTAATTTACGATCATGAACACT-TCA---TTAA
* * * * * *
17878601 AGCTCGTTGACTTAC-AAC-CATGACTT--TAGT
443 AGTTCGTTGATTTACGATCGAATCACTTAACAGT
* * * * * *
17878631 TCATTGATTTAAGATCATGAACTCTTATTTGTTCACAATTAATGTAAATTCGCTGAA-AAGGTTC
1 TCATTGATTTACGATCATGAACACTTATTGGTTCACAATGAATGTAAATTTGCTGAACTA-GTTC
** * * * * * ** * * *
17878695 TAAGCGTGGCTAGATATAATTTTCAACTAGCTAATTCTGACCTCTTTGCCCTTCAGAGCAAATTA
65 TATTCATGGCAAGAGATGATTTTCAACTAGCTTATTCTGACCTCCCTACCTTTCAGAGCAAGTTA
* * * * ** *
17878760 GATGCTAGAGATGATGAATATAAGCATGATGAGGAAGAACTCAAAACTAACCTTGAAAGAAAAAA
130 GATGCTAGAGATGATGAATATATGCTTGTTGAGGAAGAACTCAAAACTAAACTTGAAAGAAGGAG
* * * * *
17878825 GATACA-AGACTCAATTTTGTTACATAGTCATTATGAGGTTGAAACTACTTA-TCGTAATTGTAT
195 GATATAGA-ACTCAATTTTGTTACATA-TCTTTGTGAGGTTGAAGCTAC-TACTCTTAATTGTAT
** ** *
17878888 GCTTGAAATGAGACGTT-AAATGG-TCCGATCTAATAAAAAAGGAA-A-CTTTCTGAAAGGCTTC
257 -CTTGAAATGA-AC-TTGAAATGGAT-CGATCTGCTAAAAAACAAAGATCTTTCTAAAAGGCTTC
* * * * * ** * *
17878949 AGCTGAATTACAATAACGACCTTCTA-G-TTAC-A--G-GA-TGTTACGAACCTCACAGTTCTCT
318 AGCTGATTTACAATCACGA-CTT-TAGGATTACAACTGTCATTTTTACTAATGTCACAGTTCACA
* * **
17879007 GATTTACGATCACAACTGTCATTTTT-AAGCCTTACTAATTTACGATCATGAACACTTCATTAAG
381 GATTTAGGATCACAAAT-TCATTTTTAAAG-CTCGCTAATTTACGATCATGAACACTTCATTAA-
* **
17879071 AGTTTCCCAATTTTTGATTTGTGATCGCAAATTCACTTAACCAGT
443 AG-TT--C----GTTGATTTACGATCG--AA-TCACTTAA-CAGT
* * * *
17879116 TCATTGATTTACGATCATAAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTGCT
1 TCATTGATTTACGATCATGAACACTTATTGGTTCACAATGAATGTAAATTTGCTGAACTAGTTCT
* *
17879181 ATTCATGGCAATAGATGATTTTTAACTAGCTTATTCTGACCTCCCTACCTTTCAGAGCAAGTTAG
66 ATTCATGGCAAGAGATGATTTTCAACTAGCTTATTCTGACCTCCCTACCTTTCAGAGCAAGTTAG
* *
17879246 ATGCTAGATATGATGAATATATGCTTGTTGAGGAAGAACTTAAAACTAAACTTGAAAGAAGGAGG
131 ATGCTAGAGATGATGAATATATGCTTGTTGAGGAAGAACTCAAAACTAAACTTGAAAGAAGGAGG
* * *
17879311 GTATAGAACTCAATTTTGTTACATATCTTTGTGAGGCTGAAGCTACTACTCTTAATCGTATCTTT
196 ATATAGAACTCAATTTTGTTACATATCTTTGTGAGGTTGAAGCTACTACTCTTAATTGTATC-TT
*
17879376 GAAATGAACTTGAAATGGATCGATCTGCTCAAAAAAACAAAGATCTTTCTAAAAAGCTTCAGCTG
260 GAAATGAACTTGAAATGGATCGATCTGCT--AAAAAACAAAGATCTTTCTAAAAGGCTTCAGCTG
* *
17879441 ATTTACAATCACGACTTTAGGATTACAACTGTCATTTTTACTAATGTCACGGTCCACAGATTTAG
323 ATTTACAATCACGACTTTAGGATTACAACTGTCATTTTTACTAATGTCACAGTTCACAGATTTAG
* * * *
17879506 GATCACAAGATTCATTTTTAAAGCTCGCTGATTTACAATCATGAACACTTCATCAATAGTTCGTC
388 GATCACAA-ATTCATTTTTAAAGCTCGCTAATTTACGATCATGAACACTTCATTAA-AGTTCGTT
17879571 GATTTACGATCGTAACTCAACTTAAACAGT
451 GATTTACGATCG-AA-TC-ACTT-AACAGT
* *
17879601 TCACTGATTTATGATCA
1 TCATTGATTTACGATCA
17879618 CAACTGTCAT
Statistics
Matches: 773, Mismatches: 158, Indels: 104
0.75 0.15 0.10
Matches are distributed among these distances:
469 32 0.04
470 18 0.02
471 6 0.01
472 5 0.01
473 5 0.01
474 36 0.05
475 5 0.01
476 4 0.01
477 218 0.28
478 22 0.03
479 6 0.01
481 1 0.00
482 7 0.01
483 18 0.02
484 41 0.05
485 228 0.29
486 9 0.01
487 35 0.05
488 1 0.00
489 1 0.00
490 1 0.00
491 3 0.00
492 67 0.09
493 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (476 bp):
TCATTGATTTACGATCATGAACACTTATTGGTTCACAATGAATGTAAATTTGCTGAACTAGTTCT
ATTCATGGCAAGAGATGATTTTCAACTAGCTTATTCTGACCTCCCTACCTTTCAGAGCAAGTTAG
ATGCTAGAGATGATGAATATATGCTTGTTGAGGAAGAACTCAAAACTAAACTTGAAAGAAGGAGG
ATATAGAACTCAATTTTGTTACATATCTTTGTGAGGTTGAAGCTACTACTCTTAATTGTATCTTG
AAATGAACTTGAAATGGATCGATCTGCTAAAAAACAAAGATCTTTCTAAAAGGCTTCAGCTGATT
TACAATCACGACTTTAGGATTACAACTGTCATTTTTACTAATGTCACAGTTCACAGATTTAGGAT
CACAAATTCATTTTTAAAGCTCGCTAATTTACGATCATGAACACTTCATTAAAGTTCGTTGATTT
ACGATCGAATCACTTAACAGT
Found at i:17882464 original size:134 final size:133
Alignment explanation
Indices: 17882235--17882512 Score: 307
Period size: 134 Copynumber: 2.1 Consensus size: 133
17882225 ACGATCACGG
* * * *
17882235 CTTCAATTCATTGATTTACAATAGTGAACACTTCATTAAGAATTCACCTATTTACGATCGTAACT
1 CTTCAGTTTATTGATTTACAATAGTGAACACTTCATTAAGAATTCACCAATTTACGATCGCAACT
* * *
17882300 CCACTTAAACTATTCGTTGAATTCCGATCACAATTGTCATTTTTAAAGCTCGTTA-G-TTTACAA
66 CCACTTAAACTATTCGCTGAATTACAATCACAATTGTCATTTTTAAAG-T--TTACGATTTACAA
17882363 ACACAA
128 ACACAA
* * **
17882369 CTTCAGTTTATTGATTTACGATCA-TGAACACTTTATTAA-AAGTTCACCAATTTATTATCGCAA
1 CTTCAGTTTATTGATTTACAAT-AGTGAACACTTCATTAAGAA-TTCACCAATTTACGATCGCAA
* * *
17882432 CTCCACTTAAGC-AGTTCGCTG-ATATACAATCACAATTTTCTTTTTTAAAGTTTACTGATTTAC
64 CTCCACTTAAACTA-TTCGCTGAAT-TACAATCACAATTGTCATTTTTAAAGTTTAC-GATTTAC
*
17882495 AATCACAA
126 AAACACAA
17882503 CTTCAGTTTA
1 CTTCAGTTTA
17882513 CAAGGATTGT
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
131 3 0.02
133 7 0.06
134 111 0.91
135 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (133 bp):
CTTCAGTTTATTGATTTACAATAGTGAACACTTCATTAAGAATTCACCAATTTACGATCGCAACT
CCACTTAAACTATTCGCTGAATTACAATCACAATTGTCATTTTTAAAGTTTACGATTTACAAACA
CAA
Found at i:17884109 original size:529 final size:528
Alignment explanation
Indices: 17883166--17884158 Score: 1175
Period size: 529 Copynumber: 1.9 Consensus size: 528
17883156 GCTTCAGTTC
* * * * **
17883166 ATTGATTTACGATTATGAACATTTCTTGGTTAAAAAGCAATGTAAATTTTCCAAACTAGTTTTAA
1 ATTGATTTACGATCATGAACACTTATTGATTAAAAAGCAATGTAAATTTTCCAAACTAGTTCCAA
* * *
17883231 GCATAGCCAGAAATGATTTTCAACTAACTACTTCTGACTTCTCTGCCCTTCAGAACAACTTAGAT
66 GCATAGCCAGAAATAATTTTCAACTAACTAATTCTGACCTCTCTGCCCTTCAGAACAACTTAGAT
* * *
17883296 GTTATGATGAATATAAGCATGTTGAGAAAGAACTCAAAACTGACCCTGAAAGAAGGAGGATAGAG
131 GTGATGATGAATATAAGCATGTTGAGAAAGAACTCAAAACTCACCCTG-AAGAAGGAGGAAAGAG
* * **** *
17883361 GAATGAATTTCCTTTCATTATCTTTGTTAGGCTAATGCTACTTCTCTTCGTTGTACGTCTGAAAC
195 GAATCAATTTCCTTTCATTATCTTTGTGAGGCTAATGCTACTTCTCTTAACCGTACGTCTAAAAC
* * * * *
17883426 GAGGCTTGAAATGGATCGATCTACTCAGAAAAATAAGGATCTTTCTGAAAAACTTTAGCTGATTT
260 GAGGCTTGAAATGGATCAATCTACTCAGAAAAATAAGGAACCTACTGAAAAACTTTAGCTGATTG
** * *
17883491 ACAATCATGACCTACTTATAGGATTTTATGAATCTCACGGTTCGCAGATTTACGATAACAACTGT
325 ACAATCACAACCTACTTACAAGATTTTATGAATCTCACGGTTCGCAGATTTACGATAACAACTGT
* ** *
17883556 TATTTTTAAAGCTCGTTAATTTATGATCACGACTTCAGTTTATAGATTTACGATCATGAACACTA
390 TATTTATAAAGCTCCCTAATTTATGATCACGACTTCAGTTAATAGATTTACGATCATGAACACTA
17883621 CATCAAGAGTTCGTTGATTTACGACCACAACTCAACTTAAATAGTTCACTGATTTATGTTCACAA
455 CATCAAGAGTTCGTTGATTTACGACCACAACTCAACTTAAATAGTTCACTGATTTATGTTCACAA
17883686 CTTTAATTT
520 CTTTAATTT
* * * **
17883695 ATTGATTTACGATCATGAACACTTATTGATTCACAAGGAATGTAAATTTGT-TGAACTAGTTCCA
1 ATTGATTTACGATCATGAACACTTATTGATTAAAAAGCAATGTAAATTT-TCCAAACTAGTTCCA
* * * * * * *
17883759 AGCATGGCCAGAGATAATTTTCAACTAGCTAATTCTGACCTCTCTGCCTTTTAGAGCAAGTTAGA
65 AGCATAGCCAGAAATAATTTTCAACTAACTAATTCTGACCTCTCTGCCCTTCAGAACAACTTAGA
* * * *
17883824 TGCTAGAGATGATGAATATAAGCGTGTTGA-AGAAGAGCTCAAAATTCACCTTG-A-AAGGAGGA
130 TG-T---GATGATGAATATAAGCATGTTGAGA-AAGAACTCAAAACTCACCCTGAAGAAGGAGGA
* ** *
17883886 AAGAGTAATCAATTTTGTTAT-ATTGTCTTTGTGAGGCTGAA-GCTACTTCTCTTAACCGTACGT
190 AAGAGGAATCAATTTCCTT-TCATTATCTTTGTGAGGCT-AATGCTACTTCTCTTAACCGTACGT
* * * * *
17883949 CTAAAATGAGGCTTGAAATGGATCAATCT-GTTA-AAAAA-AA-GAACCTACTTAAAAGCTTTAG
253 CTAAAACGAGGCTTGAAATGGATCAATCTACTCAGAAAAATAAGGAACCTACTGAAAAACTTTAG
* ** *
17884010 CTTATTGATGATCACAATCTTCTACTTACAAGATTTTATGAATCTCACGG-TCTGCTGATTTACG
318 CTGATTGACAATCACAA-C--CTACTTACAAGATTTTATGAATCTCACGGTTC-GCAGATTTACG
* *
17884074 ATCAA-AACTGTCT-TTTATAAAGCTCCCTGATTTATGATCACGACTTCAGTTAATTGATTTACG
379 AT-AACAACTGT-TATTTATAAAGCTCCCTAATTTATGATCACGACTTCAGTTAATAGATTTACG
* *
17884137 ATCATGAACACTTCATTAAGAG
442 ATCATGAACACTACATCAAGAG
17884159 ATTTCCCATT
Statistics
Matches: 385, Mismatches: 65, Indels: 28
0.81 0.14 0.06
Matches are distributed among these distances:
526 27 0.07
527 3 0.01
528 7 0.02
529 219 0.57
530 86 0.22
531 4 0.01
532 1 0.00
533 38 0.10
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (528 bp):
ATTGATTTACGATCATGAACACTTATTGATTAAAAAGCAATGTAAATTTTCCAAACTAGTTCCAA
GCATAGCCAGAAATAATTTTCAACTAACTAATTCTGACCTCTCTGCCCTTCAGAACAACTTAGAT
GTGATGATGAATATAAGCATGTTGAGAAAGAACTCAAAACTCACCCTGAAGAAGGAGGAAAGAGG
AATCAATTTCCTTTCATTATCTTTGTGAGGCTAATGCTACTTCTCTTAACCGTACGTCTAAAACG
AGGCTTGAAATGGATCAATCTACTCAGAAAAATAAGGAACCTACTGAAAAACTTTAGCTGATTGA
CAATCACAACCTACTTACAAGATTTTATGAATCTCACGGTTCGCAGATTTACGATAACAACTGTT
ATTTATAAAGCTCCCTAATTTATGATCACGACTTCAGTTAATAGATTTACGATCATGAACACTAC
ATCAAGAGTTCGTTGATTTACGACCACAACTCAACTTAAATAGTTCACTGATTTATGTTCACAAC
TTTAATTT
Found at i:17887052 original size:134 final size:134
Alignment explanation
Indices: 17886846--17887153 Score: 327
Period size: 134 Copynumber: 2.3 Consensus size: 134
17886836 CTGATTTAAG
* * * * * *
17886846 ATCACAGA-TTCAATTCATTGATTTATGATCATGAAAACTTTATTAAGAGTTCGTCGATTTACAA
1 ATCACA-ACTTCAGTTCATTGATTTACGATAATGAACACTTCATTAAGAGTTCGTCAATTTACAA
* * * * * *
17886910 TCGAAACTCCACCTAAGGAGTTCACTGATTTACATTCAG-AACAGTCACTTTCCAAGCTCATTAA
65 TCCAAACTCCACCTAAGCAGTTCACTGATTTACAGTC-GCAACAGTCACTTTCAAACCTCACTAA
17886974 TTTACA
129 TTTACA
* *
17886980 ATCACAACTTCAGTTCATTGATTTACGATAATGAACACTTCATTAAGTGTTCG-CTAATTTATAA
1 ATCACAACTTCAGTTCATTGATTTACGATAATGAACACTTCATTAAGAGTTCGTC-AATTTACAA
* * * * * * *
17887044 -CCACAACTCCACTTAAGCAGTTCGCTGATTTATAGTCGCAACTGTCATTTTTAAACCTCGCTAA
65 TCCA-AACTCCACCTAAGCAGTTCACTGATTTACAGTCGCAACAGTCACTTTCAAACCTCACTAA
17887108 TTTACA
129 TTTACA
** * *
17887114 ATCACGGCTTCAGTTCATTGATTTACGATTATAAACACTT
1 ATCACAACTTCAGTTCATTGATTTACGATAATGAACACTT
17887154 GTCGATTTAC
Statistics
Matches: 145, Mismatches: 25, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
133 5 0.03
134 140 0.97
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (134 bp):
ATCACAACTTCAGTTCATTGATTTACGATAATGAACACTTCATTAAGAGTTCGTCAATTTACAAT
CCAAACTCCACCTAAGCAGTTCACTGATTTACAGTCGCAACAGTCACTTTCAAACCTCACTAATT
TACA
Found at i:17888717 original size:535 final size:535
Alignment explanation
Indices: 17887761--17888726 Score: 1255
Period size: 535 Copynumber: 1.8 Consensus size: 535
17887751 AAACAATTCG
*
17887761 CTAATTTATGATCACAACTGTCATTCTTAAAGCTCGCTAATTTACAATCACGGCTTCACATCATT
1 CTAATTTATGATCACAACTGTCATTCTTAAAGCTCGCTAATTTACAATCACAGCTTCACATCATT
* * * * * *
17887826 GATTTATGATCATGAAAACTTCTTAATTTACAAGGAATGTAACTTTCTTAAACTAGTTTTAAGTA
66 GATTTATAATCATGAAAACTTCTTAATTCACAAGAAATGTAAATTTCTTAAACTAGTTCTAAGCA
* * * *
17887891 TGGCCATAGATCATTTTCAAATAGTTAATTCTGACCTCTCTACACTTCAAAACAAGTTAGATGTC
131 TGGCCAGAGATCA-TTTCAAATAGCTAATTCTGACCTCTATACACTTCAAAACAAATTAGATGTC
* * *
17887956 AGAGATGATTAATATAGATGTGTTGAGGAAGAACTCAAAACTAATCTTGAAAGAAGGAGGATAGA
195 AGAGATGATAAATATAGACGTGTTGAGGAAGAACTCAAAACTAATCTTGAAAGAAAGAGGATAGA
* * *
17888021 GCAATCAATTTTGTTACATTGTCTTTGTGACGCTAAAGCTACTTCTCTTCACCTTACATCTGAAA
260 GCAATCAATTTTGTTACATTATCTTTATGACGCTAAAGCTACTTCTCTTCACCGTACATCTGAAA
* * * * *
17888086 TGAGGCTTGAAATGGATCGATCTGCTCAAAAAAATAAGAAACTTTCTAAAAAGCTTCAGCCAAAT
325 TAAGGCTTGAAATGGATCAATCTGCTAAAAAAAACAAGAAACTTTCTAAAAAGCTTCAGACAAAT
* *
17888151 TCTGATCACGACCTTCTACTTAAAAGATTTTATGAATCTCATGGTCCGTTAATTTTCGATCACGG
390 TATGATCACGACCTTCTACTTAAAAGATTTTACGAATCTCATGGTCCGTTAATTTTCGATCACGG
17888216 CTTAAGTTCATTGATTACCAATCTTGAACACAACTTTAAGAGTTCGCCAATTTATGATTACAACT
455 CTTAAGTTCATTGATTACCAATCTTGAACACAACTTTAAGAGTTCGCCAATTTATGATTACAACT
17888281 CCACTTAAGTAGTTGA
520 CCACTTAAGTAGTTGA
* * ** *
17888297 CTAATTTATGATCACAACTGTCATT-TTAAATGCTCGCTAATTTATATTCACAGCTTCAGTTTAT
1 CTAATTTATGATCACAACTGTCATTCTTAAA-GCTCGCTAATTTACAATCACAGCTTCACATCAT
* ** * *
17888361 TGATTTATAATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTTGTTGAACTAGTTCTAAGC
65 TGATTTATAATCATGAAAACTTCTTAATTCACAAGAAATGTAAATTTCTTAAACTAGTTCTAAGC
* * * * * * * *
17888426 GTGGCCAGAGATGC-TTTCAACTAGCTAATTTTGACCTCTATGCCCTTTAGAGCAAATTAGATGA
130 ATGGCCAGAGAT-CATTTCAAATAGCTAATTCTGACCTCTATACACTTCAAAACAAATTAGATG-
* * * *
17888490 T-AGAGATTATAAATATAGGCGTGTTGAGGAATAACTCAATACTAA-CATTGAAAGAAAGAGGAT
193 TCAGAGATGATAAATATAGACGTGTTGAGGAAGAACTCAAAACTAATC-TTGAAAGAAAGAGGAT
* * * * * *
17888553 AGATG-AATCAATTTTGTTACATTATCTTTATGA-GAGTGAAGCTATTTCTCTTCATCGTACGTT
257 AGA-GCAATCAATTTTGTTACATTATCTTTATGACG-CTAAAGCTACTTCTCTTCACCGTACATC
* * *
17888616 TGGAATAAGGCTTGAAATGGATCAATCTGCTAAAAAAAACAATG-AACTTTTTGAAAAGCTTCA-
320 TGAAATAAGGCTTGAAATGGATCAATCTGCTAAAAAAAACAA-GAAACTTTCTAAAAAGCTTCAG
** * * *
17888679 ACTGATCTATGATCACGACCTTTTACTTACAGGATTTTACGAATCTCA
384 ACAAAT-TATGATCACGACCTTCTACTTAAAAGATTTTACGAATCTCA
17888727 AGATTTTTTG
Statistics
Matches: 362, Mismatches: 60, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
534 5 0.01
535 237 0.65
536 119 0.33
537 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (535 bp):
CTAATTTATGATCACAACTGTCATTCTTAAAGCTCGCTAATTTACAATCACAGCTTCACATCATT
GATTTATAATCATGAAAACTTCTTAATTCACAAGAAATGTAAATTTCTTAAACTAGTTCTAAGCA
TGGCCAGAGATCATTTCAAATAGCTAATTCTGACCTCTATACACTTCAAAACAAATTAGATGTCA
GAGATGATAAATATAGACGTGTTGAGGAAGAACTCAAAACTAATCTTGAAAGAAAGAGGATAGAG
CAATCAATTTTGTTACATTATCTTTATGACGCTAAAGCTACTTCTCTTCACCGTACATCTGAAAT
AAGGCTTGAAATGGATCAATCTGCTAAAAAAAACAAGAAACTTTCTAAAAAGCTTCAGACAAATT
ATGATCACGACCTTCTACTTAAAAGATTTTACGAATCTCATGGTCCGTTAATTTTCGATCACGGC
TTAAGTTCATTGATTACCAATCTTGAACACAACTTTAAGAGTTCGCCAATTTATGATTACAACTC
CACTTAAGTAGTTGA
Found at i:17889032 original size:134 final size:134
Alignment explanation
Indices: 17888796--17889136 Score: 345
Period size: 134 Copynumber: 2.6 Consensus size: 134
17888786 GGTCCAGTTC
* * * * * *
17888796 ATTGATTTACGATAATGAACACTT-AGTTAAGAGTTTTCTGATTTACG--CGCAACTCCACTTAA
1 ATTGATTTACGATCATGAACACTTCA-TTAAGAGTTTACCGATTTATGATCGCAACTCTAATTAA
* * * * * * *
17888858 ACAGTTCGTTGATTTAAGATCACAACCGTCATTTTTAAAGCTCACTGATTTATGATTACA-ACTT
65 ACAGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTA-CAGT-CAGACTT
*
17888922 CCTTT-T
128 CATTTCT
* * *
17888928 ATTGATTTAGGATCATGAACACTTCATTAAGAGTTTGCCGATTTATGATCGCAACTCTATTTAAA
1 ATTGATTTACGATCATGAACACTTCATTAAGAGTTTACCGATTTATGATCGCAACTCTAATTAAA
** * * *
17888993 CTA-TTTGCTGATTTACTATCACAACTATCATTTTTAAAGCCCATTAATTTACAGTCATGGCTTC
66 C-AGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTACAGTCA-GACTTC
17889057 ATTTCT
129 ATTTCT
* * * * *
17889063 -TTGATTTACAATCTTGAACACTTCATTAAGAGTTCATCGATTTATGATCGCCACTCTAATTAAA
1 ATTGATTTACGATCATGAACACTTCATTAAGAGTTTACCGATTTATGATCGCAACTCTAATTAAA
17889127 CAGTTTGCTG
66 CAGTTTGCTG
17889137 GTTTCTCAAG
Statistics
Matches: 173, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
132 42 0.24
133 4 0.02
134 125 0.72
135 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (134 bp):
ATTGATTTACGATCATGAACACTTCATTAAGAGTTTACCGATTTATGATCGCAACTCTAATTAAA
CAGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTACAGTCAGACTTCAT
TTCT
Found at i:17889883 original size:134 final size:133
Alignment explanation
Indices: 17889586--17889903 Score: 336
Period size: 134 Copynumber: 2.4 Consensus size: 133
17889576 TAAAGCTAGC
* * * * * *
17889586 TTATTTATAATTATGGCTTCAGTTCATTAATTTACGATCATGAACACTTCATTAAGAGTTCGATG
1 TTATTTACAATCATGACTTCAGTTCATTGATTTAAGATCATGAACACTTCATTAAGAATTCGATG
* * ** * * *
17889651 ATTTACGATTACAACTCTTCTTACACAGTTACCTGATTTACAATCACAACTGTTATTTTTAAAGC
66 ATTTACGATCACAAATCCACTTAAACAGTTACCTGATTTACAATCACAACTCTAATTTTTAAA-C
17889716 TCAT
130 TCAT
* * * * * * ** *
17889720 TTATTTACTACCA-CAGCTTTAATTAATTGATTTGTGATCAGGAACACTTCATTAAGAATTC-AT
1 TTATTTACAATCATGA-CTTCAGTTCATTGATTTAAGATCATGAACACTTCATTAAGAATTCGAT
* * *
17889783 CGATTTACGATCACAAATCCACTTAAACTGTTAGCTGATTTACGATCACAACTCTAATTTTTAAA
65 -GATTTACGATCACAAATCCACTTAAACAGTTACCTGATTTACAATCACAACTCTAATTTTTAAA
*
17889848 -TCTT
129 CTCAT
17889852 TCTAATTTACAATCATGACTTCAGTTCATTGATTTAAGATCATGAACACTTC
1 T-T-ATTTACAATCATGACTTCAGTTCATTGATTTAAGATCATGAACACTTC
17889904 TTGGTTTATA
Statistics
Matches: 145, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
132 4 0.03
133 3 0.02
134 137 0.94
135 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (133 bp):
TTATTTACAATCATGACTTCAGTTCATTGATTTAAGATCATGAACACTTCATTAAGAATTCGATG
ATTTACGATCACAAATCCACTTAAACAGTTACCTGATTTACAATCACAACTCTAATTTTTAAACT
CAT
Found at i:17890417 original size:706 final size:703
Alignment explanation
Indices: 17889171--17890678 Score: 1711
Period size: 706 Copynumber: 2.1 Consensus size: 703
17889161 GTCACAGCTT
* * *
17889171 AGTTCATTAATTTACA-ATCAAGAACACTT-TT-GTTCATAAGGAATGTAAATTTGCT-AATGTA
1 AGTTCATTAATTCA-AGATCATGAACACTTCTTGGTTCATAA-GAATGTAAATTTGCTGAA-CTA
* * * * * * * * * ** *
17889232 GTTCCAAGCATGGTCAACGATAATTTTCAAATAGCTAATTCTAACATCT-TTTCACTTTAAAGCA
63 GCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCTCTAGC-CTTCAAAGCA
* * * * * * * * * * *
17889296 AGTTA-AGTGTTAAAGGTGATGAATAT-AGACATCTAGAGGAAGAACTTAAAACTAATCTTGAAA
127 GGTTAGA-TGCTAGAGATTATGAATATAAG-CGTGTTGAGAAAGAACTCAAAACTAACCTTGAAA
* * * *
17889359 GAAGGAGGATAGAGGAATCATTTATATTACATTGTCTTTGTAAGGCTTAAGCTGCTTCTATTCAC
190 GAAGGAAGATAGAGGAATCATTTATATTACATTGTCTTTGTAAGGCTGAAGCTACTTCCATTCAC
*
17889424 CGTACGTCTAAAATGAGGCTTGAAATGGATCAATCTAACAAAAAAACAAGGAACTTTCTAAAAAG
255 CGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAACAAAAAAACAAGGAACTTTCTAAAAAG
** * * *
17889489 CTTCAGTGGACTTACGATCATAACCTTCTACTAACAAGATTTTATGAATCTCACGGTCCGCTGAT
320 CTTCAGTGGACTTAAAATCACAACCTTCTACTAACAAGATTTGACGAATCTCACGGTCCGCTGAT
* * * * * *
17889554 TTACGATTAAAATTTTCATTTTTAAAGCTAGCTTATTTATAATTATGGCTTCAGTTCATTAATTT
385 TTACGATCAAAACTGTCATTTTTAAAGCTA-CTTATTTACAATCAAGGCTTCAGTTCATTAATTT
* * ** * *
17889619 ACGATCATGAACACTTCATTAAGAGTTCGATGATTTACGATTACAACTCTTCTTACACAGTTACC
449 ACGATCATGAACACTTCATTAAGAGGTCGATGACTTACGATTACAACTCCACTTAAAAAGTTACC
* * * * *
17889684 TGATTTACAATCACAACTGTTATTTTTAAAGCTCATTTATTTACTACCACAGCTTTAATTAATTG
514 TGATTTACAACCACAACTGTCATTTTTAAAGCTCATTGATTTACAACCACAGCTTTAATTAATCG
** * * * *
17889749 ATTTGTGATCAGGAACACTTCATTAAGAATTCATCGATTTACGATCACAAATCCACTTAAACT-G
579 ATTTAAGATCAGGAACACTTCATTAAGAATTCATCAATTCACGACCACAAATACACTTAAA-TAG
* ** *
17889813 TTAGCTGATTTACGATCACAACTCTAATTTTTAAATCTTTCTAATTTACAATCATGACTTC
643 TTAGCTGATTTACGATCACAACTCTAATTTTTAAAACTCACTAATTTACAATCACGACTTC
* * * * *
17889874 AGTTCATTGATTTAAGATCATGAACACTTCTTGGTTTATAAGAATTGTAAATTTTCTGAGCTAGC
1 AGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCATAAGAA-TGTAAATTTGCTGAACTAGC
17889939 TCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCTCTAGCCTTCAAAGCAGGT
65 TCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCTCTAGCCTTCAAAGCAGGT
* *
17890004 TAGATGCTAGAGATTATGAATATAAGCGTGTTGAGAAAGAACTCAAAACTGACCTTGAAAGAATG
130 TAGATGCTAGAGATTATGAATATAAGCGTGTTGAGAAAGAACTCAAAACTAACCTTGAAAGAAGG
* * * *
17890069 AAGATAGAGTG-ATCAATTT-TGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCCCTTCATCGT
195 AAGATAGAG-GAATC-ATTTATATTACATTGTCTTTGTAAGGCTGAAGCTACTTCCATTCACCGT
* * *
17890132 ACGTCTGAAATGAGGCTTCAAATGGATCGATTTGCT-A-AAAAAAACAAGGAACTTTCTGAAAAG
258 ACGTCTAAAATGAGGCTTCAAATGGATC-A-AT-CTAACAAAAAAACAAGGAACTTTCTAAAAAG
* * * * *** *
17890195 GTTCAGCT-GATTTAAAATCACGACCTTTTACTTTGAAGATTTGACGAATCTCACGGTCTGCTGA
320 CTTCAG-TGGACTTAAAATCACAACCTTCTACTAACAAGATTTGACGAATCTCACGGTCCGCTGA
* * *
17890259 TTTACGATCAAAACTGTCCTTTTTAAAGCT-CTTTGATTTACGATCACAGG-TTCAGTTCATTGA
384 TTTACGATCAAAACTGTCATTTTTAAAGCTAC-TT-ATTTACAATCA-AGGCTTCAGTTCATTAA
* *
17890322 TTTAC-AGTCATGAGCACTTCATTAAGAGGTCG-TCGACTTACGATTGCAACTCCACTTAAAAAG
446 TTTACGA-TCATGAACACTTCATTAAGAGGTCGAT-GACTTACGATTACAACTCCACTTAAAAAG
* * * * * **
17890385 TT-CACTGATTTACGACCATAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTTTGT
509 TTAC-CTGATTTACAACCACAACTGTCATTTTTAAAGCTCATTGATTTACAACCACAGCTTTAAT
* ** * * * * *
17890449 TCATCGATTTAAGATCTTGAACACTTCATTAAGAGTTCGTCAATTCATGACCGCAACTACACTTA
573 TAATCGATTTAAGATCAGGAACACTTCATTAAGAATTCATCAATTCACGACCACAAATACACTTA
* * *
17890514 AATAGTTTGCTGATTTACGATCACAACTGTCATTTTTAAAACTCACTAATTTACAATCACGACTT
638 AATAGTTAGCTGATTTACGATCACAACTCTAATTTTTAAAACTCACTAATTTACAATCACGACTT
17890579 C
703 C
* *
17890580 AGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCATAGGAATGTAAATTTGCTGAACTAGTT
1 AGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCATAAGAATGTAAATTTGCTGAACTAGCT
17890645 CTAAGCATGGCCAAAGATGATTTTCAACTAGCTA
66 CTAAGCATGGCCAAAGATGATTTTCAACTAGCTA
17890679 TGTAACACCC
Statistics
Matches: 671, Mismatches: 113, Indels: 40
0.81 0.14 0.05
Matches are distributed among these distances:
702 1 0.00
703 25 0.04
704 6 0.01
705 251 0.37
706 381 0.57
707 5 0.01
708 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (703 bp):
AGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCATAAGAATGTAAATTTGCTGAACTAGCT
CTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCTCTAGCCTTCAAAGCAGGTT
AGATGCTAGAGATTATGAATATAAGCGTGTTGAGAAAGAACTCAAAACTAACCTTGAAAGAAGGA
AGATAGAGGAATCATTTATATTACATTGTCTTTGTAAGGCTGAAGCTACTTCCATTCACCGTACG
TCTAAAATGAGGCTTCAAATGGATCAATCTAACAAAAAAACAAGGAACTTTCTAAAAAGCTTCAG
TGGACTTAAAATCACAACCTTCTACTAACAAGATTTGACGAATCTCACGGTCCGCTGATTTACGA
TCAAAACTGTCATTTTTAAAGCTACTTATTTACAATCAAGGCTTCAGTTCATTAATTTACGATCA
TGAACACTTCATTAAGAGGTCGATGACTTACGATTACAACTCCACTTAAAAAGTTACCTGATTTA
CAACCACAACTGTCATTTTTAAAGCTCATTGATTTACAACCACAGCTTTAATTAATCGATTTAAG
ATCAGGAACACTTCATTAAGAATTCATCAATTCACGACCACAAATACACTTAAATAGTTAGCTGA
TTTACGATCACAACTCTAATTTTTAAAACTCACTAATTTACAATCACGACTTC
Found at i:17890505 original size:134 final size:134
Alignment explanation
Indices: 17890255--17890609 Score: 419
Period size: 134 Copynumber: 2.6 Consensus size: 134
17890245 TCACGGTCTG
* * *
17890255 CTGATTTACGATCAAAACTGTCCTTTTTAAAGCTCTTTGATTTACGATCACAGG-TTCAGTTCAT
1 CTGATTTACGATCAAAACTGTCATTTTTAAAGCTCATTGATTTACAATCAC-GGCTTCAGTTCAT
* * ** *
17890319 TGATTTACAG-TCATGAGCACTTCATTAAGAGGTCGTCGACTTACGATTGCAACTCCACTTAAAA
65 TGATTTA-AGATCATGAACACTTCATTAAGAGGTCGTCGAATTACGACCGCAACTACACTTAAAA
17890383 AGTTCA
129 AGTTCA
* * * ** *
17890389 CTGATTTACGACCATAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTTTGTTCATC
1 CTGATTTACGATCAAAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
* * * *
17890454 GATTTAAGATCTTGAACACTTCATTAAGAGTTCGTC-AATTCATGACCGCAACTACACTTAAATA
66 GATTTAAGATCATGAACACTTCATTAAGAGGTCGTCGAATT-ACGACCGCAACTACACTTAAAAA
**
17890518 GTTTG
130 GTTCA
* * * * *
17890523 CTGATTTACGATCACAACTGTCATTTTTAAAACTCACTAATTTACAATCACGACTTCAGTTCATT
1 CTGATTTACGATCAAAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
* *
17890588 AATTCAAGATCATGAACACTTC
66 GATTTAAGATCATGAACACTTC
17890610 TTGGTTCATA
Statistics
Matches: 186, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
133 7 0.04
134 179 0.96
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (134 bp):
CTGATTTACGATCAAAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
GATTTAAGATCATGAACACTTCATTAAGAGGTCGTCGAATTACGACCGCAACTACACTTAAAAAG
TTCA
Found at i:17897237 original size:134 final size:134
Alignment explanation
Indices: 17897003--17897354 Score: 341
Period size: 134 Copynumber: 2.6 Consensus size: 134
17896993 CAGTCCGCTA
* * * * * ** *
17897003 ATTTACGATCAAAACTTTCATTTTTAAAACTCGCTAATTTACGATCATGGGTTCAGTTCATAGAT
1 ATTTAAGATCACAACTATCATTTTTAAAGCTCGCTAATTTACGATCACGACTACAGTTCATAGAT
** * * * *
17897068 TTACGATCATGAACACTTCATTAAGAGTTCACCAATTTATTATCCCAACTCCACTTCAA-CAGTT
66 TTAAAATCATGAACACTTCATTAAAAGTTCACCAATTTATGATCCCAACTCCACTT-AAGAAATT
17897132 CGTTG
130 CGTTG
* * * * *
17897137 ATTTATGATCACAACTATCACTTTTAAAGCTCGTTAATTTACGATCACGACTACTGTTCATTGAT
1 ATTTAAGATCACAACTATCATTTTTAAAGCTCGCTAATTTACGATCACGACTACAGTTCATAGAT
** ** ** *
17897202 TTAAAATGTTGAACACTTCATTAAAAGTTGGCCAATTTATGATCGTAACTCCACTTAAGAAATTT
66 TTAAAATCATGAACACTTCATTAAAAGTTCACCAATTTATGATCCCAACTCCACTTAAGAAATTC
*
17897267 TTTG
131 GTTG
* ** * * * *
17897271 ATTTAAGATCACAACTATCATTTTTAAAGCTAGCCGATTTACAATCA-TAGTTTCAGTTCAGT-G
1 ATTTAAGATCACAACTATCATTTTTAAAGCTCGCTAATTTACGATCACGA-CTACAGTTCA-TAG
*
17897334 ATTTAAGATCATGAACACTTC
64 ATTTAAAATCATGAACACTTC
17897355 TTAGTTCACA
Statistics
Matches: 175, Mismatches: 40, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
133 3 0.02
134 171 0.98
135 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (134 bp):
ATTTAAGATCACAACTATCATTTTTAAAGCTCGCTAATTTACGATCACGACTACAGTTCATAGAT
TTAAAATCATGAACACTTCATTAAAAGTTCACCAATTTATGATCCCAACTCCACTTAAGAAATTC
GTTG
Found at i:17898564 original size:133 final size:134
Alignment explanation
Indices: 17898234--17898581 Score: 384
Period size: 133 Copynumber: 2.6 Consensus size: 134
17898224 CTCAAAGTCC
* * * * * * *
17898234 TTACGATCAAAACTGTCA-TTTTAAAGTTCTCTAATTTATGATCACGACTTCAGTTTATTGATTT
1 TTACGATCACAACTGTCATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTT
** *
17898298 ACA-ATCATGAACACTTCATTAAAAGTCCTTCAATTTACGATCACAACTCCACTTAAATAGTTCA
66 A-AGATCATGAACACTTCATTAAAAGTCCACCAATTTACGATCACAACTACACTTAAATAGTTCA
*
17898362 TTGAT
130 CTGAT
* * * *
17898367 TTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTATAATCACGG-TTT-CTGTTCATCGAT
1 TTACGATCACAACTGTCATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGT-TTAAT-GAT
* ** * * *
17898430 TTAAGA-CATTGAACACTTCATTAAGAGTTGACCAATTTATGATCGCAACTACACTT-AGTAGTT
64 TTAAGATCA-TGAACACTTCATTAAAAGTCCACCAATTTACGATCACAACTACACTTAAATAGTT
17898493 CACTGAT
128 CACTGAT
* * * * *
17898500 TTATGATCCCAACTGACATTTTTAAAGCTCACTAATTTACAATCATGGCTTTAGTTTAATGATTT
1 TTACGATCACAACTGTCATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTT
17898565 AAGATCATGAACACTTC
66 AAGATCATGAACACTTC
17898582 TTGGTTCATA
Statistics
Matches: 177, Mismatches: 30, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
132 1 0.01
133 97 0.55
134 78 0.44
135 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (134 bp):
TTACGATCACAACTGTCATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTT
AAGATCATGAACACTTCATTAAAAGTCCACCAATTTACGATCACAACTACACTTAAATAGTTCAC
TGAT
Found at i:17899174 original size:134 final size:133
Alignment explanation
Indices: 17898951--17899226 Score: 383
Period size: 134 Copynumber: 2.1 Consensus size: 133
17898941 CGATAATGGT
* *
17898951 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTCATCTATTTACGATCGCAACTC
1 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAATTCATCAATTTACGATCGCAACTC
* ** ** *
17899016 TACTTAACCAGTTTGCTAATTTACGATCACAACTGTCACTTTTAAAGCTCGTTGATTTACAATGA
66 CACTTAACCAGTTCACTAATTTACGATCACAACTGTCACTTTTAAAGCTCACT-ATTTACAATCA
*
17899081 CGGC
130 CGAC
** *
17899085 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAA-ATATTGGTCAATTTATGATCGCAACT
1 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGA-ATTCATCAATTTACGATCGCAACT
* * *
17899149 CCACTTAAGCAGTTCACTGATTTACGATCACAACTGTCATTTTTAAAGCTCACTATTTACAATCA
65 CCACTTAACCAGTTCACTAATTTACGATCACAACTGTCACTTTTAAAGCTCACTATTTACAATCA
*
17899214 CGAT
130 CGAC
17899218 TTCAGTTCA
1 TTCAGTTCA
17899227 CCGATTTATG
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
133 22 0.18
134 103 0.82
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (133 bp):
TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAATTCATCAATTTACGATCGCAACTC
CACTTAACCAGTTCACTAATTTACGATCACAACTGTCACTTTTAAAGCTCACTATTTACAATCAC
GAC
Found at i:17899243 original size:97 final size:98
Alignment explanation
Indices: 17899133--17899313 Score: 285
Period size: 97 Copynumber: 1.9 Consensus size: 98
17899123 ATATTGGTCA
*
17899133 ATTTATGATCGCAACTCCACTTAAGCAGTTCACT-GATTTACGATCACAACTGTCATTTTTAAAG
1 ATTTATGATCGCAACTCCACTTAAGCAGTTCA-TAGATCTACGATCACAACTGTCATTTTTAAAG
17899197 CTCACT-ATTTACAATCACGATTTCAGTTCACCG
65 CTCACTGATTTACAATCACGATTTCAGTTCACCG
* * * *
17899230 ATTTATGATCGCAACTCCATTTATGCAGTTTATAGATCTACGATCACAATTGTCATTTTTAAAGC
1 ATTTATGATCGCAACTCCACTTAAGCAGTTCATAGATCTACGATCACAACTGTCATTTTTAAAGC
*
17899295 TCATTGATTTACAATCACG
66 TCACTGATTTACAATCACG
17899314 GCTTTTGTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
96 1 0.01
97 62 0.82
98 13 0.17
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (98 bp):
ATTTATGATCGCAACTCCACTTAAGCAGTTCATAGATCTACGATCACAACTGTCATTTTTAAAGC
TCACTGATTTACAATCACGATTTCAGTTCACCG
Found at i:17900024 original size:98 final size:98
Alignment explanation
Indices: 17899897--17900102 Score: 286
Period size: 98 Copynumber: 2.1 Consensus size: 98
17899887 ATATTGGTCA
* *
17899897 ATTTATGATCGCAACTATACTTAAGCAGTTCGCTGATTTACAATCACAACTGTCATTTTTAAAGC
1 ATTTATGATCGCAACTACACTTAAGCAGTTCGCTGATCTACAATCACAACTGTCATTTTTAAAGC
*
17899962 TCACTCATTTACAATCATGGCTTCAGTTCACCG
66 TCACTCATTTACAATCATGACTTCAGTTCACCG
* * * *
17899995 ATTTATGATCGCAACTCCACTTATGCAGTTCGTTGATCTACGATCACAACTGTCATTTTTAAAGC
1 ATTTATGATCGCAACTACACTTAAGCAGTTCGCTGATCTACAATCACAACTGTCATTTTTAAAGC
** * * * *
17900060 TTGCTGATTTACAATCCTGACTTTAGTTCACTG
66 TCACTCATTTACAATCATGACTTCAGTTCACCG
*
17900093 ATTTACGATC
1 ATTTATGATC
17900103 ATGAACAATT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (98 bp):
ATTTATGATCGCAACTACACTTAAGCAGTTCGCTGATCTACAATCACAACTGTCATTTTTAAAGC
TCACTCATTTACAATCATGACTTCAGTTCACCG
Found at i:17902490 original size:17 final size:17
Alignment explanation
Indices: 17902474--17902533 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
17902464 AGATACATAT
*
17902474 ATTTTTATATTTTATAT
1 ATTTTTATATTTTATAA
* *
17902491 TTTATTTA-ATTTTTTAA
1 ATT-TTTATATTTTATAA
*
17902508 ATTTTTAAATTTT-TAA
1 ATTTTTATATTTTATAA
17902524 ATTTTT-TATT
1 ATTTTTATATT
17902534 AAAAAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 3 0.08
16 13 0.36
17 16 0.44
18 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTATATTTTATAA
Found at i:17902512 original size:9 final size:9
Alignment explanation
Indices: 17902483--17902531 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 9
17902473 TATTTTTATA
*
17902483 TTTTATATT
1 TTTTAAATT
*
17902492 TTATTTAATT
1 TT-TTAAATT
17902502 TTTTAAA-T
1 TTTTAAATT
17902510 TTTTAAA-T
1 TTTTAAATT
17902518 TTTTAAATT
1 TTTTAAATT
17902527 TTTTA
1 TTTTA
17902532 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 16 0.46
9 12 0.34
10 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAAATT
Found at i:17914628 original size:3 final size:3
Alignment explanation
Indices: 17914622--17914675 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
17914612 TATTATTGTT
17914622 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17914670 ATA ATA
1 ATA ATA
17914676 TTATTATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17914680 original size:3 final size:3
Alignment explanation
Indices: 17914674--17914715 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17914664 ATAATAATAA
17914674 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17914716 CATTGTATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17915002 original size:18 final size:18
Alignment explanation
Indices: 17914981--17915015 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17914971 ATATACCTAC
17914981 TTATATATTTTT-TATACT
1 TTATA-ATTTTTATATACT
17914999 TTATAATTTTTATATAC
1 TTATAATTTTTATATAC
17915016 ATATATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATAATTTTTATATACT
Found at i:17915003 original size:16 final size:17
Alignment explanation
Indices: 17914978--17915012 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17914968 TATATATACC
*
17914978 TACTTATATATTTTTTA
1 TACTTATATAATTTTTA
17914995 TACTT-TATAATTTTTA
1 TACTTATATAATTTTTA
17915011 TA
1 TA
17915013 TACATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TACTTATATAATTTTTA
Found at i:17915047 original size:2 final size:2
Alignment explanation
Indices: 17915040--17915189 Score: 99
Period size: 2 Copynumber: 74.5 Consensus size: 2
17915030 ACCTTTTACA
* *
17915040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
17915082 AT TT TT AT A- ACT CAT TT AC AT TT AT AT GT AT AT AT AC AT ACT
1 AT AT AT AT AT A-T -AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
17915124 CAT GT TT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT TT TT
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
17915165 AT AT AT AT CT AC AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17915190 CCTATTTTAT
Statistics
Matches: 114, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
1 3 0.03
2 106 0.93
3 3 0.03
4 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17920401 original size:6 final size:6
Alignment explanation
Indices: 17920390--17920432 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
17920380 AACGTTTCAT
17920390 AAAAAG AAAAAG AAAAAG -AAAAG AAAAGAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAA-AAG -AAAAAG AAAAA
17920433 CGAGAGGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
6 17 0.50
7 5 0.15
8 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:17922039 original size:44 final size:44
Alignment explanation
Indices: 17921991--17922108 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
17921981 AATCACTAAC
* * * * **
17921991 CTTATCCCCCTAAAGTTGCAGTGGGGCA-AGTTGAAGATA-CGAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTAAAGATAGC-AAA
* *
17922035 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
17922079 CTTATCTCCCTAAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGA
17922109 TTAACTATAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 60 0.97
45 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
Found at i:17923619 original size:3 final size:3
Alignment explanation
Indices: 17923604--17923683 Score: 117
Period size: 3 Copynumber: 26.7 Consensus size: 3
17923594 ACTAATTAAG
* *
17923604 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
17923652 TTA TTA TTA TTA TTA TT- GTA GTTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT
17923684 GTATTAGTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.01
3 66 0.96
4 2 0.03
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17923691 original size:18 final size:18
Alignment explanation
Indices: 17923604--17923692 Score: 80
Period size: 18 Copynumber: 4.9 Consensus size: 18
17923594 ACTAATTAAG
17923604 TTATTATTGTTATTA-TTA
1 TTATTATTG-TATTAGTTA
*
17923622 TTATTATTATTATTATTGTTA
1 TTATTATT-GTATTA--GTTA
17923643 TTATTA-T-TATTA-TTA
1 TTATTATTGTATTAGTTA
*
17923658 TTATTATTAT-TGTAGTTA
1 TTATTATTGTAT-TAGTTA
17923676 TTATTATTGTATTAGTT
1 TTATTATTGTATTAGTT
17923693 CATTCATTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
15 9 0.15
16 2 0.03
17 3 0.05
18 35 0.58
19 1 0.02
20 1 0.02
21 9 0.15
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTATTATTGTATTAGTTA
Found at i:17923966 original size:18 final size:19
Alignment explanation
Indices: 17923945--17923985 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
17923935 ATATACCTAC
17923945 TTATATATTTTT-TATAC-T
1 TTATA-ATTTTTATATACAT
17923963 TTATAATTTTTATATACAT
1 TTATAATTTTTATATACAT
17923982 TTAT
1 TTAT
17923986 TCATACGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATAATTTTTATATACAT
Found at i:17923967 original size:16 final size:17
Alignment explanation
Indices: 17923942--17923976 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17923932 TATATATACC
*
17923942 TACTTATATATTTTTTA
1 TACTTATATAATTTTTA
17923959 TACTT-TATAATTTTTA
1 TACTTATATAATTTTTA
17923975 TA
1 TA
17923977 TACATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TACTTATATAATTTTTA
Found at i:17926208 original size:32 final size:30
Alignment explanation
Indices: 17926155--17926218 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
17926145 AATTATTTTA
*
17926155 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
17926185 TTGTTAATTTATTATTATTATTTTAGAGGCAT
1 TTGTTAA-TT-TTATTATTATTTTAAAGACAT
17926217 TT
1 TT
17926219 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 2 0.07
32 20 0.69
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:17940904 original size:45 final size:44
Alignment explanation
Indices: 17940796--17941434 Score: 265
Period size: 44 Copynumber: 14.7 Consensus size: 44
17940786 ACAGATCGAG
* * *
17940796 TCTTATCTCCCTGAAGTTGTAGTGGAGCGGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
*
17940840 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-AGGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * * **
17940885 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGT-CGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAA
* ** * * * * *
17940929 TCCTATCTCGTTGAAGTTACAGTGG-GCGGATTAA--AACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * * * * * *
17940972 TCTTATCTCTCTGAAATTGTAG-AGAGCAGAC--CG-CATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * * *
17941012 TTTTATCTTCCTGAAGTTGCAGTGGAGCTGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
*
17941056 TCTTATC-CTCTTGAAGTTGCAGT-GAGACAGACTGAAG-ATAGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGTA-AGCAAA
* * ** *
17941101 TCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAGCCAG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAA
* * * * * *
17941145 TCCTATCTCACTGAAGTTGCAGTGG-GCGGATTAA--AACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * * * * * *
17941188 TCTTATCTCTCTGAAATTGTAG-AGAGCAGA-T-CG-CATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
17941228 TCTTATCTCCTTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* *
17941272 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAG-ATGACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTAAG-CAAA
* * * **
17941317 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAA
* * * * * *
17941361 TCCTATCTCCCTGAAGTTTCAGTGGAG-AGGATTGAAATCA-CAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACT-AAGTAAGCAAA
* *
17941405 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
17941435 TCGCATTTAG
Statistics
Matches: 444, Mismatches: 109, Indels: 85
0.70 0.17 0.13
Matches are distributed among these distances:
40 36 0.08
41 13 0.03
42 12 0.03
43 73 0.16
44 189 0.43
45 112 0.25
46 9 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:17941179 original size:216 final size:215
Alignment explanation
Indices: 17940794--17941473 Score: 1022
Period size: 216 Copynumber: 3.1 Consensus size: 215
17940784 TAACAGATCG
* *
17940794 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* *
17940859 CAGTGAGGCAGACTGAAGAGGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTC
66 CAGTGAGGCAGACTGAAGA-TGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC
**
17940924 GGTAATCCTATCTCGTTGAAGTTACAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAAT
130 GGTAATCCTATCTCACTGAAGTTACAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAAT
*
17940989 TGTAGAGAGCAGACCGCATCT
195 TGTAGAGAGCAGATCGCATCT
* * *
17941010 AGTTTTATCTTCCTGAAGTTGCAGTGGAGCTGACTAAGTAAGCAAGTCTTATCCTCTTGAAGTTG
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* * *
17941075 CAGTGAGACAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAGCC
66 CAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC
* *
17941140 AGTAATCCTATCTCACTGAAGTTGCAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAAT
130 GGTAATCCTATCTCACTGAAGTTACAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAAT
17941205 TGTAGAGAGCAGATCGCATCT
195 TGTAGAGAGCAGATCGCATCT
17941226 AGTCTTATC-TCCTTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
1 AGTCTTATCTTCC-TGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
* *
17941290 GCAGTGAGGCAGATTGAAGATGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGT
65 GCAGTGAGGCAGACTGAAGATG-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * * * **
17941355 TGGTAATCCTATCTCCCTGAAGTTTCAGTGGAGAGGATTGAAATCACAGATCTTATCTCTCTGAA
129 CGGTAATCCTATCTCACTGAAGTTACAGTGG-GCGGATTAAAACCTTAGATCTTATCTCTCTGAA
* * *
17941420 GTTGCAGAGAGCAGATCGCATTT
193 ATTGTAGAGAGCAGATCGCATCT
*
17941443 AGTCTTAT-TTCCCTGAAGATTGCATTGGAGC
1 AGTCTTATCTT-CCTGAAG-TTGCAGTGGAGC
17941474 AAACTAAGAT
Statistics
Matches: 421, Mismatches: 36, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
215 4 0.01
216 342 0.81
217 62 0.15
218 13 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (215 bp):
AGTCTTATCTTCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCG
GTAATCCTATCTCACTGAAGTTACAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAATT
GTAGAGAGCAGATCGCATCT
Found at i:17941384 original size:89 final size:87
Alignment explanation
Indices: 17940796--17941435 Score: 222
Period size: 89 Copynumber: 7.4 Consensus size: 87
17940786 ACAGATCGAG
* * * *
17940796 TCTTATCTCCCTGAAGTTGTAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTGCA
* ***
17940861 GT-GAG-GCAGACTGAAGAGGGCAAA
65 GTGGAGAG--GATTGAA-ATCACAAA
* ** * * *
17940885 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA-TCCTAT-CTCGTTGAAGTTA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGATT-AAGTAAGCAAGTCCTATCCTC-CTGAAGTTG
* * * ** *
17940948 CAGTGG-GCGGATTAAAACCTTAGA
63 CAGTGGAGAGGATTGAAATCACAAA
* * * ** * * * ** *
17940972 TCTTATCTCTCTGAAATTGTAG-AGAGCAGA--CCG-CATCTAGTTTTATCTTCCTGAAGTTGCA
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTGCA
** * * * *
17941033 GTGGAGCTGACT-AAGTAAGCAAG
65 GTGGAGAGGATTGAAATCA-CAAA
* * * *
17941056 TCTTATCCTCTTGAAGTTGCAGT-GAGACAGACTGAAG-ATAGCAAATCTTAT-CTCCCTGAAGT
1 TCTTAT-CTCCTGAAGTTGCAGTGGAG-CAGA-TTAAGTA-AGCAAGTCCTATCCT-CCTGAAGT
** *
17941118 TGCAGTGGAGCTGATT-AAAGC-CAGTAA
61 TGCAGTGGAGAGGATTGAAATCACA--AA
* * * * * *
17941145 TCCTATCTCACTGAAGTTGCAGTGG-GCGGATTAA--AACCTTAGATCTTAT-CTCTCTGAAATT
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAAGC-AAG-TCCTATCCTC-CTGAAGTT
* * * * * *
17941206 GTAG-AGAGCA-GATCG-CAT--CTAG
62 GCAGTGGAG-AGGATTGAAATCACAAA
* * *
17941228 TCTTATCTCCTTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTGCA
*
17941293 GT-GAG-GCAGATTGAAGATGACAAA
65 GTGGAGAG--GATTGAA-ATCACAAA
** * *
17941317 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGGTAA-TCCTAT-CTCCCTGAAGTTT
1 TCTTATC-TCCTGAAGTTGCAGTGGAGCAGATT-AAGTAAGCAAGTCCTATCCT-CCTGAAGTTG
*
17941380 CAGTGGAGAGGATTGAAATCACAGA
63 CAGTGGAGAGGATTGAAATCACAAA
*
17941405 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGAT
17941436 CGCATTTAGT
Statistics
Matches: 413, Mismatches: 93, Indels: 92
0.69 0.16 0.15
Matches are distributed among these distances:
82 3 0.01
83 43 0.10
84 53 0.13
85 19 0.05
86 21 0.05
87 55 0.13
88 43 0.10
89 152 0.37
90 23 0.06
91 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (87 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTGCAG
TGGAGAGGATTGAAATCACAAA
Found at i:17943074 original size:9 final size:10
Alignment explanation
Indices: 17943062--17943106 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
17943052 TATACACATG
17943062 TTTAATTTA-
1 TTTAATTTAT
*
17943071 TTTAATTAAT
1 TTTAATTTAT
17943081 TTTAATATTAT
1 TTTAAT-TTAT
*
17943092 TTTAATTTTT
1 TTTAATTTAT
17943102 TTTAA
1 TTTAA
17943107 CTTCTGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.26
10 14 0.45
11 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTAATTTAT
Found at i:17949450 original size:2 final size:2
Alignment explanation
Indices: 17949445--17949477 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
17949435 GGAGTTATGT
17949445 TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17949478 TAATTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17952740 original size:96 final size:96
Alignment explanation
Indices: 17952576--17952750 Score: 341
Period size: 96 Copynumber: 1.8 Consensus size: 96
17952566 AAAGTGGGTT
*
17952576 ATTTATACATGCTGTAGTGGGTCTGTAATTTGTTTTCATTAGTTTGATATAGTAGTTGTATTAGT
1 ATTTATACATGCTGTAGTGAGTCTGTAATTTGTTTTCATTAGTTTGATATAGTAGTTGTATTAGT
17952641 TTGACCATGTCTAAAAAATTGAGGGTCTGTA
66 TTGACCATGTCTAAAAAATTGAGGGTCTGTA
17952672 ATTTATACATGCTGTAGTGAGTCTGTAATTTGTTTTCATTAGTTTGATATAGTAGTTGTATTAGT
1 ATTTATACATGCTGTAGTGAGTCTGTAATTTGTTTTCATTAGTTTGATATAGTAGTTGTATTAGT
17952737 TTGACCATGTCTAA
66 TTGACCATGTCTAA
17952751 GTATGAATTG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (96 bp):
ATTTATACATGCTGTAGTGAGTCTGTAATTTGTTTTCATTAGTTTGATATAGTAGTTGTATTAGT
TTGACCATGTCTAAAAAATTGAGGGTCTGTA
Found at i:17953566 original size:9 final size:9
Alignment explanation
Indices: 17953548--17953583 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
17953538 GGTTGCAAAA
17953548 AGGACGATG
1 AGGACGATG
*
17953557 AGGACAATG
1 AGGACGATG
17953566 AGGACGATG
1 AGGACGATG
*
17953575 ACGACGATG
1 AGGACGATG
17953584 GCGACAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.39, T:0.11
Consensus pattern (9 bp):
AGGACGATG
Found at i:17956501 original size:47 final size:46
Alignment explanation
Indices: 17956447--17956540 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 46
17956437 TTGTACAAAC
17956447 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAAGACAAT
1 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAA-ACAAT
* *
17956494 ATTTTGAATATTTTTATATTATTTCATTTAATAAAATATAAACAAT
1 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAAACAAT
17956540 A
1 A
17956541 CAACATAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 6 0.13
47 39 0.87
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (46 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAAACAAT
Found at i:17959754 original size:127 final size:126
Alignment explanation
Indices: 17959528--17959945 Score: 579
Period size: 126 Copynumber: 3.3 Consensus size: 126
17959518 GCCAAATAGG
* * * * *
17959528 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTGCAGTACTTTTGCTGACATTACATCA
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACATTGCATCC
* * * *
17959593 TACTTGAAGTGTTTTTGACACTATTTGATCAGAAACATCTTCTCAAAAGTATTTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTA-TTTTTTCAGA
* * *
17959655 AACTACTGTAGCAAAAGAACGTCCATGTGAGAGCTTTTTTCAGTACTTTTGCTGACATTGTATCC
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACATTGCATCC
*
17959720 TGCTTGAAGCGTTTTTGACATTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * *
17959781 AACTACTGTAGCAAAACAGCGTCCACGTGGAAGCTTCTTTT-AGTACTTTTGCTGACAATGCATC
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTT-TTTTCAGTACTTTTGCTGACATTGCATC
* * ** *
17959845 CTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTTCTCAAAATTATTTTTTCAGG
65 CTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
** *
17959907 AACTACTGTAGCAAAA-AAATTCCATGTGGGAGCTTTTTT
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTTTTT
17959946 AAATCACTAC
Statistics
Matches: 259, Mismatches: 31, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
124 4 0.02
125 14 0.05
126 134 0.52
127 107 0.41
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACATTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:17960228 original size:41 final size:41
Alignment explanation
Indices: 17960166--17960531 Score: 439
Period size: 41 Copynumber: 8.9 Consensus size: 41
17960156 TTCTGACCTT
* * *
17960166 TCAGAGCTTTAGCGGCGTTTTTAAACAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
17960207 TTAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * *
17960248 TCTGGGCTTTCA-CGACGTTTTTGAAGAAGTGCCACTAATGC
1 TCAGGGCTTT-AGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * *
17960289 TCAGGGCTTTAGCGACGTTTTTGAATAGGCACCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
17960330 TCAGGGCTTTAGCGGCGTTTTTGAAGAAACGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * *
17960371 TCTGGGATTTAGCAGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * *
17960412 TTAGGGTTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * * *
17960453 TCAGGGTTTTAGCGGCGTTTTTTAAGAAGTGTCGCTAATGA
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * *
17960494 TCGGGGATTTAGCAGCGTTTTTGAA-AATTCGCCGCTAA
1 TCAGGGCTTTAGCGGCGTTTTTGAAGAA-GCGCCGCTAA
17960532 AACATTTTAT
Statistics
Matches: 280, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 276 0.99
42 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:17960946 original size:14 final size:15
Alignment explanation
Indices: 17960918--17960950 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
17960908 AAGGTTTATA
17960918 GATTATGGAATTAGG
1 GATTATGGAATTAGG
17960933 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
17960947 GATT
1 GATT
17960951 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:17961175 original size:7 final size:7
Alignment explanation
Indices: 17961160--17961199 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
17961150 GGGGGTAGTA
17961160 GTTAGGG
1 GTTAGGG
*
17961167 GTTAAGG
1 GTTAGGG
*
17961174 GTTTGGG
1 GTTAGGG
17961181 GTTAGGG
1 GTTAGGG
*
17961188 GTTAGAG
1 GTTAGGG
17961195 GTTAG
1 GTTAG
17961200 AGATTAAGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
GTTAGGG
Found at i:17961228 original size:15 final size:15
Alignment explanation
Indices: 17961196--17961239 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
17961186 GGGTTAGAGG
* *
17961196 TTAGAGATTAAGAG-
1 TTAGAGATTTAGGGT
*
17961210 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
17961225 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
17961240 CAGGTTAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:17966279 original size:42 final size:43
Alignment explanation
Indices: 17966216--17966329 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
17966206 AATATTTTTT
* * *
17966216 TAAAAGTCATG-TTTTTAGCGGCGTTTGT-CAAAAAGTG-CTGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGCAAAAAGCGTC-GC
** *
17966257 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGCAAAAAGCGTCGC
17966300 TAAAGGTCATGATCTTTAGCGGCGTTTGTG
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTG
17966330 GGATAAGCGC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 10 0.16
42 16 0.25
43 37 0.58
44 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGCAAAAAGCGTCGC
Found at i:17966312 original size:43 final size:43
Alignment explanation
Indices: 17966255--17966338 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
17966245 AAAAAGTGCT
17966255 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCGTC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCGTC
*
17966298 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGATAAGCG
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCG
17966339 CCGCAAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.35, T:0.29
Consensus pattern (43 bp):
GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCGTC
Found at i:17966647 original size:98 final size:98
Alignment explanation
Indices: 17966479--17966802 Score: 463
Period size: 98 Copynumber: 3.4 Consensus size: 98
17966469 CCTAAACTCC
*
17966479 AAACCCTAATTTATTT-ACTTTTTCCTTAAAAACCCAAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTGA-TTTTTCCTT-AAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
17966543 TT-AAAATTTATAATTAATTTACTCAAGTAACCCT
64 TTAAAAATTTATAATTAATTTACTCAAGTAACCCT
*
17966577 AAACCCTAATTTATTTGATTTTTTCTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTTT
1 AAACCCTAATTTATTTGATTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTTT
*
17966642 AAAAATTTACAATTAATTTACTCAAGTAACCCT
66 AAAAATTTATAATTAATTTACTCAAGTAACCCT
* *
17966675 AAACCCTAATTTATTTGATTTTTCCTTAAAACCATAAACGCTAAACCCTAATCT-A-TTTTTTTT
1 AAACCCTAATTTATTTGATTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTTT
*
17966738 AAAAATTTATAATT-A---AC-CTA--AACCCT
66 AAAAATTTATAATTAATTTACTCAAGTAACCCT
* * *
17966764 AAACCCTTATTTATTTAATTTTTCCCTTAAAATCCTAAA
1 AAACCCTAATTTATTTGATTTTT-CCTTAAAACCCTAAA
17966803 ATCTAAAATC
Statistics
Matches: 211, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
89 27 0.13
90 13 0.06
91 2 0.01
92 2 0.01
95 1 0.00
96 21 0.10
97 38 0.18
98 106 0.50
99 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (98 bp):
AAACCCTAATTTATTTGATTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTTT
AAAAATTTATAATTAATTTACTCAAGTAACCCT
Found at i:17969398 original size:13 final size:14
Alignment explanation
Indices: 17969382--17969411 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17969372 TCTATTTACA
17969382 AAAAAATAAA-ATG
1 AAAAAATAAAGATG
17969395 AAAAAATAAAGATG
1 AAAAAATAAAGATG
17969409 AAA
1 AAA
17969412 TCAAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAGATG
Found at i:17970257 original size:44 final size:43
Alignment explanation
Indices: 17970164--17970321 Score: 129
Period size: 44 Copynumber: 3.6 Consensus size: 43
17970154 ATTAACCCGG
* * ** * *
17970164 TCCACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTGC
1 TCCACTGCAACCTCAGGGAGATAAGATTA-CTTCCTCAGTCTGC
17970208 TCCACTGCAACCTCAGGGAGATAAGATTTACTTCCTCAGTCTAGC
1 TCCACTGCAACCTCAGGGAGATAAGA-TTACTTCCTCAGTCT-GC
** * * * ** *
17970253 -CCACTGTGACTTCAGGGGGATAAGGCTTGTTTTCTCAGTCTGC
1 TCCACTGCAACCTCAGGGAGATAA-GATTACTTCCTCAGTCTGC
* *
17970296 TCCGCTGCAACTTCAGGGAGATAAGA
1 TCCACTGCAACCTCAGGGAGATAAGA
17970322 CCCGATGTGA
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
43 3 0.03
44 82 0.90
45 6 0.07
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (43 bp):
TCCACTGCAACCTCAGGGAGATAAGATTACTTCCTCAGTCTGC
Found at i:17978805 original size:21 final size:20
Alignment explanation
Indices: 17978771--17978810 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17978761 CAATTTTTCC
*
17978771 ATCTTGTCCTCTTGAATTTT
1 ATCTAGTCCTCTTGAATTTT
*
17978791 ATCTAGTCGCTCTTGCATTT
1 ATCTAGTC-CTCTTGAATTT
17978811 GTGCTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.50
Consensus pattern (20 bp):
ATCTAGTCCTCTTGAATTTT
Found at i:17988075 original size:6 final size:6
Alignment explanation
Indices: 17988064--17988097 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
17988054 TTGACCTCTC
17988064 CTTTTT CTTTTT CTTTTTT CTTCTTT CTTTTT CT
1 CTTTTT CTTTTT C-TTTTT CTT-TTT CTTTTT CT
17988098 CCTATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:17988083 original size:13 final size:14
Alignment explanation
Indices: 17988065--17988095 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
17988055 TGACCTCTCC
17988065 TTTTTCTT-TTTCT
1 TTTTTCTTCTTTCT
17988078 TTTTTCTTCTTTCT
1 TTTTTCTTCTTTCT
17988092 TTTT
1 TTTT
17988096 CTCCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTCTTTCT
Found at i:17988096 original size:13 final size:12
Alignment explanation
Indices: 17988064--17988097 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
17988054 TTGACCTCTC
17988064 CTTTTTCTTTTT
1 CTTTTTCTTTTT
17988076 CTTTTTTCTTCTTT
1 C-TTTTTCTT-TTT
17988090 CTTTTTCT
1 CTTTTTCT
17988098 CCTATTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 15 0.75
14 4 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:17988122 original size:15 final size:16
Alignment explanation
Indices: 17988102--17988137 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17988092 TTTTCTCCTA
17988102 TTTTTGA-CTTTGATT
1 TTTTTGATCTTTGATT
*
17988117 TTTTTGATTTTTGATT
1 TTTTTGATCTTTGATT
17988133 TTTTT
1 TTTTT
17988138 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.75
Consensus pattern (16 bp):
TTTTTGATCTTTGATT
Found at i:17988124 original size:9 final size:9
Alignment explanation
Indices: 17988110--17988153 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
17988100 TATTTTTGAC
17988110 TTTGATTTT
1 TTTGATTTT
17988119 TTTGA--TT
1 TTTGATTTT
17988126 TTTGATTTT
1 TTTGATTTT
*
17988135 TTTTATTTT
1 TTTGATTTT
*
17988144 TTTTATTTT
1 TTTGATTTT
17988153 T
1 T
17988154 GTTTTTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.22
9 25 0.78
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (9 bp):
TTTGATTTT
Found at i:17988129 original size:16 final size:16
Alignment explanation
Indices: 17988110--17988144 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17988100 TATTTTTGAC
17988110 TTTGATTTTTTTGATT
1 TTTGATTTTTTTGATT
*
17988126 TTTGATTTTTTTTATT
1 TTTGATTTTTTTGATT
17988142 TTT
1 TTT
17988145 TTTATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (16 bp):
TTTGATTTTTTTGATT
Found at i:17988172 original size:25 final size:25
Alignment explanation
Indices: 17988114--17988173 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
17988104 TTTGACTTTG
*
17988114 ATTTTTTTGATTTTTGATTTTTTTT
1 ATTTTTTTTATTTTTGATTTTTTTT
17988139 ATTTTTTTTATTTTTG-TTTTTTGTT
1 ATTTTTTTTATTTTTGATTTTTT-TT
*
17988164 GTTTTTTTTA
1 ATTTTTTTTA
17988174 GTCTGAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (25 bp):
ATTTTTTTTATTTTTGATTTTTTTT
Found at i:17989485 original size:19 final size:20
Alignment explanation
Indices: 17989456--17989507 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
17989446 CTTTTTGTAA
* *
17989456 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
17989475 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
17989495 AAATG-AATGCAAA
1 AAATGTAATGCAAA
17989508 AAAGAGATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:17991188 original size:3 final size:3
Alignment explanation
Indices: 17991180--17991205 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17991170 AATAGTGCCT
17991180 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
17991206 TTAAAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17992776 original size:17 final size:17
Alignment explanation
Indices: 17992754--17992786 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17992744 ACATTGTTTG
17992754 AAAATAAAAGAAAAATA
1 AAAATAAAAGAAAAATA
*
17992771 AAAATATAAGAAAAAT
1 AAAATAAAAGAAAAAT
17992787 CGATTGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATAAAAGAAAAATA
Found at i:17993650 original size:13 final size:13
Alignment explanation
Indices: 17993632--17993664 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17993622 TATTATAAAA
17993632 TTAAATA-ATTATT
1 TTAAATATATT-TT
17993645 TTAAATATATTTT
1 TTAAATATATTTT
17993658 TTAAATA
1 TTAAATA
17993665 CAAGTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATATATTTT
Found at i:17994174 original size:22 final size:22
Alignment explanation
Indices: 17994146--17994188 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17994136 ATTTTAATAC
17994146 CATACAAACATATAATATTAAG
1 CATACAAACATATAATATTAAG
*
17994168 CATACAAATATATAATATTAA
1 CATACAAACATATAATATTAA
17994189 AATTTGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (22 bp):
CATACAAACATATAATATTAAG
Found at i:17994865 original size:21 final size:23
Alignment explanation
Indices: 17994839--17994883 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
17994829 TAATTTCTAA
*
17994839 TTTTTAT-AA-TTTATATAATTT
1 TTTTTATAAATTTTATACAATTT
17994860 TTTTTATAAATTTTATACAATTT
1 TTTTTATAAATTTTATACAATTT
17994883 T
1 T
17994884 AAAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 12 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTATAAATTTTATACAATTT
Found at i:17994911 original size:28 final size:28
Alignment explanation
Indices: 17994880--17994970 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 28
17994870 TTTTATACAA
17994880 TTTTAAAATTTATTAGAATTTTTTATAT
1 TTTTAAAATTTATTAGAATTTTTTATAT
*
17994908 TTTTATAATTT-TGTATGAA-TTTTTATAGGT
1 TTTTAAAATTTAT-TA-GAATTTTTTATA--T
* *
17994938 TTTTATAAA-ATATTA-AATATTTTATAT
1 TTTTA-AAATTTATTAGAATTTTTTATAT
17994965 GTTTTA
1 -TTTTA
17994971 TTCATTTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
27 2 0.04
28 27 0.53
29 10 0.20
30 9 0.18
31 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTAAAATTTATTAGAATTTTTTATAT
Found at i:17994930 original size:11 final size:9
Alignment explanation
Indices: 17994836--17995091 Score: 103
Period size: 9 Copynumber: 27.0 Consensus size: 9
17994826 TTGTAATTTC
17994836 TAATTTTTA
1 TAATTTTTA
*
17994845 TAATTTATA
1 TAATTTTTA
17994854 TAATTTTTTTTA
1 TAA---TTTTTA
*
17994866 TAAATTTTA
1 TAATTTTTA
*
17994875 TACAATTTTA
1 TA-ATTTTTA
*
17994885 AAATTTATTA
1 TAATTT-TTA
*
17994895 GAATTTTT-
1 TAATTTTTA
17994903 TATATTTTTA
1 TA-ATTTTTA
17994913 TAATTTTGTA
1 TAATTTT-TA
17994923 TGAATTTTTA
1 T-AATTTTTA
*
17994933 TAGGTTTTTA
1 TA-ATTTTTA
* *
17994943 TAAAATATTA
1 T-AATTTTTA
17994953 -AATATTTTA
1 TAAT-TTTTA
17994962 T-ATGTTTTA
1 TAAT-TTTTA
*
17994971 TTCA-TTTTA
1 -TAATTTTTA
****
17994980 TAAAAAATA
1 TAATTTTTA
17994989 -ATATTTTTCA
1 TA-ATTTTT-A
17994999 TATATTTTTA
1 TA-ATTTTTA
*
17995009 TAATATTTA
1 TAATTTTTA
17995018 TAAGTTTTTA
1 TAA-TTTTTA
*
17995028 TGATTTTTTA
1 T-AATTTTTA
*
17995038 TATTTTTTA
1 TAATTTTTA
*
17995047 TAAGTTTATA
1 TAA-TTTTTA
* *
17995057 CCAATTTTAA
1 -TAATTTTTA
17995067 T-ATTTTT-
1 TAATTTTTA
*
17995074 TAATTTTAA
1 TAATTTTTA
17995083 TAATTTTTA
1 TAATTTTTA
17995092 CGACTTTTAA
Statistics
Matches: 188, Mismatches: 34, Indels: 50
0.69 0.12 0.18
Matches are distributed among these distances:
7 1 0.01
8 16 0.09
9 82 0.44
10 62 0.33
11 19 0.10
12 8 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (9 bp):
TAATTTTTA
Found at i:17995025 original size:29 final size:29
Alignment explanation
Indices: 17994993--17995053 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
17994983 AAAATAATAT
17994993 TTTTCAT-ATATTTTTATAATATTTATAAG
1 TTTTCATGAT-TTTTTATAATATTTATAAG
* * *
17995022 TTTTTATGATTTTTTATATTTTTTATAAG
1 TTTTCATGATTTTTTATAATATTTATAAG
17995051 TTT
1 TTT
17995054 ATACCAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (29 bp):
TTTTCATGATTTTTTATAATATTTATAAG
Done.