Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 48 of 185
Found at i:13553764 original size:123 final size:123
Alignment explanation
Indices: 13553542--13553862 Score: 358
Period size: 123 Copynumber: 2.6 Consensus size: 123
13553532 TACCTTTCGG
* *** * ** * * * *
13553542 GGCTTTAGCGGCATTTTCAAAAAAGCGCCACTAATGCTCGGGGCTTTCGCGGCGTTTTTGAGAAT
1 GGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTTAGGGTTTTAGCGGCGTTTTTGAAAAA
* * * *
13553607 GCACCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCTCTAATGCTCAG-
66 GCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCT-AGA
* ** * * * *
13553665 GGTTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGTGTTTTAGCGGCGTTTTTTAAAAA
1 GGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTTAGGGTTTTAGCGGCGTTTTTGAAAAA
* * * * *
13553730 GCGCAGCTAATGCTCTGTGTTTTAGCGGCGTTTTTTAAAAAGCACCGCTAATGCTGGA
66 GCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTAGA
*
13553788 GGCTTTAGCAGCATTTTTGGAACAGCGCCGCTAATGC-TAGGGTCTTTAGCGGCGTTTTTGAAAA
1 GGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTTAGGGT-TTTAGCGGCGTTTTTGAAAA
13553852 AGCGCCGCTAA
65 AGCGCCGCTAA
13553863 AAACATTTTA
Statistics
Matches: 163, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
122 5 0.03
123 158 0.97
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (123 bp):
GGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTTAGGGTTTTAGCGGCGTTTTTGAAAAA
GCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTAGA
Found at i:13554246 original size:14 final size:14
Alignment explanation
Indices: 13554227--13554253 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13554217 GAGTATGGGT
13554227 TTAGGGATTATGGA
1 TTAGGGATTATGGA
13554241 TTAGGGATTATGG
1 TTAGGGATTATGG
13554254 TTCAAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:13554281 original size:35 final size:33
Alignment explanation
Indices: 13554230--13554356 Score: 96
Period size: 35 Copynumber: 3.7 Consensus size: 33
13554220 TATGGGTTTA
* *
13554230 GGGATTATGGATTAGGGATTATGGTTCAAGGGTT
1 GGGATTAAGGTTTAGGGATTA-GGTTCAAGGGTT
*
13554264 GGGATTTAAGGTTTAGGGGTTAGACGTT-AAGGGTT
1 GGGA-TTAAGGTTTAGGGATTAG--GTTCAAGGGTT
** *
13554299 AAGAGTTAAGGATTTAGGGTTTAAGGATTCAAGGGTT
1 GGGA-TTAAGG-TTTAGGGATT-AGG-TTCAAGGGTT
* *
13554336 GGG-TTAAGGTTTTGGGTTTAG
1 GGGATTAAGGTTTAGGGATTAG
13554357 ATTAATTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
33 2 0.03
34 14 0.18
35 36 0.47
36 14 0.18
37 10 0.13
ACGTcount: A:0.24, C:0.02, G:0.38, T:0.35
Consensus pattern (33 bp):
GGGATTAAGGTTTAGGGATTAGGTTCAAGGGTT
Found at i:13554567 original size:21 final size:21
Alignment explanation
Indices: 13554515--13554567 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
13554505 GAGTATGGAT
*
13554515 TTAGGGATTATGGTTTAAGGG
1 TTAGGGATTAAGGTTTAAGGG
*
13554536 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGA-TTAAGGTTTAAGGG
*
13554557 TTAGGGGTTAA
1 TTAGGGATTAA
13554568 ACATTAGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 20 0.74
22 3 0.11
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (21 bp):
TTAGGGATTAAGGTTTAAGGG
Found at i:13554607 original size:8 final size:8
Alignment explanation
Indices: 13554585--13554613 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13554575 GGGTTAAGAG
13554585 TTAGGGAT
1 TTAGGGAT
13554593 TTA-GGAT
1 TTAGGGAT
13554600 TTAGGGAT
1 TTAGGGAT
13554608 TTAGGG
1 TTAGGG
13554614 GTCGAGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (8 bp):
TTAGGGAT
Found at i:13555075 original size:40 final size:40
Alignment explanation
Indices: 13555031--13555181 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
13555021 AAAATAAAAG
*
13555031 GCATTAGCGGCGCTTTTTAAAAAACGACGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
13555071 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
* **
13555111 GCATTAGCGGCGCTTCTTAAAAAAACGCCGCTATAGATTTA
1 GCATTAGCGGCGCTT-TTTAAAAAACGCCGCTATAGATCGA
* *
13555152 ACTTTAGCGGCGCTATTTT-AAAAACGCCGC
1 GCATTAGCGGCGCT-TTTTAAAAAACGCCGC
13555182 AAAAAATAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 65 0.64
41 36 0.35
42 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
Found at i:13555148 original size:81 final size:80
Alignment explanation
Indices: 13555031--13555181 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 80
13555021 AAAATAAAAG
* *
13555031 GCATTAGCGGCGCTTTTTAAAAAACGACGCTATAGATCGAGCATTAGCGGCGCT-TTTTAAAAAA
1 GCATTAGCGGCGCTTTTAAAAAAACGACGCTATAGATCGAACATTAGCGGCGCTATTTT-AAAAA
13555095 CGCCGCTATAGATCGA
65 CGCCGCTATAGATCGA
* ** *
13555111 GCATTAGCGGCGCTTCTTAAAAAAACGCCGCTATAGATTTAACTTTAGCGGCGCTATTTTAAAAA
1 GCATTAGCGGCGCTT-TTAAAAAAACGACGCTATAGATCGAACATTAGCGGCGCTATTTTAAAAA
13555176 CGCCGC
65 CGCCGC
13555182 AAAAAATAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 15 0.24
81 44 0.70
82 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (80 bp):
GCATTAGCGGCGCTTTTAAAAAAACGACGCTATAGATCGAACATTAGCGGCGCTATTTTAAAAAC
GCCGCTATAGATCGA
Found at i:13557310 original size:23 final size:23
Alignment explanation
Indices: 13557283--13557356 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
13557273 ATTGCTTCCA
*
13557283 TTTTTTTCATTACATATTAAGCC
1 TTTTTATCATTACATATTAAGCC
** * * * *
13557306 TTTTTCA-CAAAAAAAATGATGGCC
1 TTTTT-ATCATTACATATTAAG-CC
13557330 TTTTTATCATTACATATTAAGCC
1 TTTTTATCATTACATATTAAGCC
13557353 TTTT
1 TTTT
13557357 CTACATCTGA
Statistics
Matches: 35, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
23 20 0.57
24 15 0.43
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (23 bp):
TTTTTATCATTACATATTAAGCC
Found at i:13558443 original size:42 final size:42
Alignment explanation
Indices: 13558375--13558511 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 42
13558365 TAAAAGCATG
* *
13558375 TTTTTAGCGGTGTTTGTGAA-A-AAGCGTCGCTAAAAGTCAT-
1 TTTTTAGCGGCGTTTGT-AATAGAAGCGTCGCTAAAGGTCATA
* **
13558415 TTTTATAGTGGCGTTTGTAATAGAAGCGTCGCTAAAGGTTGTA
1 TTTT-TAGCGGCGTTTGTAATAGAAGCGTCGCTAAAGGTCATA
* * *
13558458 TTTTTAGCGGCGTTTGTAGTAGAAGCGCCTCTAAAGGTCATGA
1 TTTTTAGCGGCGTTTGTAATAGAAGCGTCGCTAAAGGTCAT-A
*
13558501 TCTTTAGCGGC
1 TTTTTAGCGGC
13558512 ATTTTTTGCG
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 6 0.08
41 12 0.15
42 47 0.59
43 15 0.19
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (42 bp):
TTTTTAGCGGCGTTTGTAATAGAAGCGTCGCTAAAGGTCATA
Found at i:13560483 original size:24 final size:23
Alignment explanation
Indices: 13560439--13560492 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
13560429 AGTTATCTAT
13560439 AAATCA-A-ATTTCTAAGATTAC
1 AAATCATATATTTCTAAGATTAC
13560460 AAAATCATATATTT-TAAGATTTAC
1 -AAATCATATATTTCTAAGA-TTAC
*
13560484 ATATCATAT
1 AAATCATAT
13560493 CTAGGATTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.21
23 14 0.50
24 8 0.29
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
AAATCATATATTTCTAAGATTAC
Found at i:13566319 original size:20 final size:20
Alignment explanation
Indices: 13566294--13566344 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
13566284 TTATTTTTTG
13566294 AAAGTTGAGTGGCTGAATTT
1 AAAGTTGAGTGGCTGAATTT
13566314 AAAGTTGAGTGGCTGAATTT
1 AAAGTTGAGTGGCTGAATTT
13566334 AAAGTTGAGTG
1 AAAGTTGAGTG
13566345 ATTATTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.33
Consensus pattern (20 bp):
AAAGTTGAGTGGCTGAATTT
Found at i:13569775 original size:28 final size:29
Alignment explanation
Indices: 13569716--13569776 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
13569706 AAAAGCCCTT
*
13569716 TTTTTTCAATATTTACCGAAATGGGCCGA
1 TTTTTTCAATATTTACCGAAATGAGCCGA
*
13569745 TTTTTT-AATTATTTATCGAAATGAGCC-A
1 TTTTTTCAA-TATTTACCGAAATGAGCCGA
13569773 TTTT
1 TTTT
13569777 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (29 bp):
TTTTTTCAATATTTACCGAAATGAGCCGA
Found at i:13578104 original size:13 final size:13
Alignment explanation
Indices: 13578086--13578111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13578076 GTCATGCAAT
13578086 ACATAATAAAAAA
1 ACATAATAAAAAA
13578099 ACATAATAAAAAA
1 ACATAATAAAAAA
13578112 GTGGCCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
ACATAATAAAAAA
Found at i:13581842 original size:3 final size:3
Alignment explanation
Indices: 13581824--13581861 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
13581814 AGGGAAGCGA
*
13581824 AAG ACG AAG AAAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG A
13581862 GCGATCCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13582707 original size:125 final size:125
Alignment explanation
Indices: 13582359--13582728 Score: 575
Period size: 125 Copynumber: 3.0 Consensus size: 125
13582349 TTTTAGGTTC
*** * * * *
13582359 TGGAAGAAATAATTTCGAGTTGACATTTCTGATCAAACAGTATAAAATCGCTTCTAGCAGGATGT
1 TGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGC
*
13582424 TATTTGAGAAGAATTTGTG-AAATCGCGCCCTCGTGGACTCGCTTTTGCTACAGTAGGTCA
65 TATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCA
*
13582484 TGGAAGAAAT-ATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGTAGGATGCT
1 TGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCT
*
13582548 ATTTTGAGAAGAATTTGT-AAAATCGCACCCTCGTGGACACGCTTTTGCTACAGTAGGTCA
66 A-TTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCA
*
13582608 TGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATACTATAAAATCGCTTCTAGCAGGATGCT
1 TGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCT
* **
13582673 ATTTGAGAAGAATTTGTGAAAATCGCGCCTTCGTGGACGTGCTTTTGCTACAGTAG
66 ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAG
13582729 CATGTTTAGG
Statistics
Matches: 225, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
123 43 0.19
124 85 0.38
125 97 0.43
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (125 bp):
TGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCT
ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCA
Found at i:13587388 original size:7 final size:7
Alignment explanation
Indices: 13587378--13587402 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13587368 TTATATACAT
13587378 AATACTA
1 AATACTA
13587385 AATACTA
1 AATACTA
13587392 AATACTA
1 AATACTA
13587399 AATA
1 AATA
13587403 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:13587610 original size:20 final size:20
Alignment explanation
Indices: 13587573--13587610 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13587563 TTTATTTTTA
*
13587573 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
13587593 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
13587611 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:13588658 original size:14 final size:11
Alignment explanation
Indices: 13588615--13588648 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
13588605 AAGAGAATTT
13588615 TTGA-AGGAAA
1 TTGAGAGGAAA
13588625 TTGAGAGGAAA
1 TTGAGAGGAAA
13588636 TTGAGAGGAAA
1 TTGAGAGGAAA
13588647 TT
1 TT
13588649 TGATAGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:13594146 original size:28 final size:28
Alignment explanation
Indices: 13594103--13594168 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
13594093 ATGGTTTTTC
*
13594103 CAGAAAAGTGTGAGCGTTCTCCCTGAAG
1 CAGAAAAGTGTAAGCGTTCTCCCTGAAG
*
13594131 CAGAAAAGTGTAAGCGTTCTTCCTGAAG
1 CAGAAAAGTGTAAGCGTTCTCCCTGAAG
13594159 CAGAAAAGTG
1 CAGAAAAGTG
13594169 ATGTGCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.21
Consensus pattern (28 bp):
CAGAAAAGTGTAAGCGTTCTCCCTGAAG
Found at i:13603936 original size:24 final size:24
Alignment explanation
Indices: 13603902--13603949 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13603892 TTTATTGCAA
*
13603902 TATTCAATGGCTTGACTACAACAT
1 TATTCAATGGCTTGACCACAACAT
*
13603926 TATTCAGTGGCTTGACCACAACAT
1 TATTCAATGGCTTGACCACAACAT
13603950 GCCACTTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
TATTCAATGGCTTGACCACAACAT
Found at i:13606141 original size:9 final size:9
Alignment explanation
Indices: 13606125--13606176 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
13606115 GGTATTTTTC
13606125 GGTAATTCG
1 GGTAATTCG
*
13606134 GTTAATTCG
1 GGTAATTCG
*
13606143 GTTAATTCG
1 GGTAATTCG
13606152 GGTAATTCG
1 GGTAATTCG
13606161 GGTAATTCG
1 GGTAATTCG
13606170 GGTAATT
1 GGTAATT
13606177 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:13606294 original size:28 final size:28
Alignment explanation
Indices: 13606238--13606296 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
13606228 CTTATTAACC
** **
13606238 AAAAAAATTTCGGTTCGGTTAAATTTTA
1 AAAAAAAAATCGGTTCGGTTAAAGGTTA
*
13606266 AAAAAAAAATCGGTTCGGTTAACGGTTA
1 AAAAAAAAATCGGTTCGGTTAAAGGTTA
13606294 AAA
1 AAA
13606297 TTTTTGGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (28 bp):
AAAAAAAAATCGGTTCGGTTAAAGGTTA
Found at i:13606352 original size:12 final size:12
Alignment explanation
Indices: 13606335--13606359 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13606325 AGTAATTTCG
13606335 GGTCGGTTAACC
1 GGTCGGTTAACC
13606347 GGTCGGTTAACC
1 GGTCGGTTAACC
13606359 G
1 G
13606360 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:13607416 original size:13 final size:13
Alignment explanation
Indices: 13607398--13607474 Score: 64
Period size: 13 Copynumber: 5.9 Consensus size: 13
13607388 AGTTCTTCAT
13607398 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* *
13607411 TGCTTTTGAGAAG
1 TGCTTTTAAAAAG
* **
13607424 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
* * *
13607437 TACTTTTTAGAAG
1 TGCTTTTAAAAAG
* *
13607450 TGCTTTTAAGAGG
1 TGCTTTTAAAAAG
13607463 TGCTTTTAAAAA
1 TGCTTTTAAAAA
13607475 TTTTGAGTGT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:13607468 original size:26 final size:25
Alignment explanation
Indices: 13607398--13607469 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
13607388 AGTTCTTCAT
13607398 TGCTTTTAAAAAGTGCTTTTGAGAAG
1 TGCTTTT-AAAAGTGCTTTTGAGAAG
** * *
13607424 TGCTGTGGAAAAGTACTTTTTAGAAG
1 TGCT-TTTAAAAGTGCTTTTGAGAAG
*
13607450 TGCTTTTAAGAGGTGCTTTT
1 TGCTTTTAA-AAGTGCTTTT
13607470 AAAAATTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 3 0.08
26 32 0.89
27 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.40
Consensus pattern (25 bp):
TGCTTTTAAAAGTGCTTTTGAGAAG
Found at i:13607964 original size:15 final size:15
Alignment explanation
Indices: 13607944--13608038 Score: 126
Period size: 15 Copynumber: 6.5 Consensus size: 15
13607934 TGTTAATTCC
13607944 ATTTATGTAATTAAT
1 ATTTATGTAATTAAT
13607959 ATTTATGTAATT-AT
1 ATTTATGTAATTAAT
*
13607973 AAGTT-TGTAATTAAT
1 -ATTTATGTAATTAAT
13607988 ATTTATGTAATT-AT
1 ATTTATGTAATTAAT
*
13608002 AAGTT-TGTAATTAAT
1 -ATTTATGTAATTAAT
13608017 ATTTATGTAATTAAT
1 ATTTATGTAATTAAT
13608032 ATTTATG
1 ATTTATG
13608039 ATTTTAGTCC
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
14 24 0.34
15 46 0.66
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
ATTTATGTAATTAAT
Found at i:13607981 original size:29 final size:29
Alignment explanation
Indices: 13607949--13608029 Score: 162
Period size: 29 Copynumber: 2.8 Consensus size: 29
13607939 ATTCCATTTA
13607949 TGTAATTAATATTTATGTAATTATAAGTT
1 TGTAATTAATATTTATGTAATTATAAGTT
13607978 TGTAATTAATATTTATGTAATTATAAGTT
1 TGTAATTAATATTTATGTAATTATAAGTT
13608007 TGTAATTAATATTTATGTAATTA
1 TGTAATTAATATTTATGTAATTA
13608030 ATATTTATGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (29 bp):
TGTAATTAATATTTATGTAATTATAAGTT
Found at i:13607983 original size:14 final size:14
Alignment explanation
Indices: 13607964--13608014 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
13607954 TTAATATTTA
13607964 TGTAATTATAAGTT
1 TGTAATTATAAGTT
*
13607978 TGTAATTA-ATATTT
1 TGTAATTATA-AGTT
13607992 ATGTAATTATAAGTT
1 -TGTAATTATAAGTT
13608007 TGTAATTA
1 TGTAATTA
13608015 ATATTTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.59
15 11 0.34
16 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (14 bp):
TGTAATTATAAGTT
Found at i:13607992 original size:44 final size:44
Alignment explanation
Indices: 13607944--13608038 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
13607934 TGTTAATTCC
*
13607944 ATTTATGTAATTA-ATATTTATGTAATT-ATAAGTT-TGTAATTAAT
1 ATTTATGTAATTATA-AGTT-TGTAATTAAT-AGTTATGTAATTAAT
*
13607988 ATTTATGTAATTATAAGTTTGTAATTAATATTTATGTAATTAAT
1 ATTTATGTAATTATAAGTTTGTAATTAATAGTTATGTAATTAAT
13608032 ATTTATG
1 ATTTATG
13608039 ATTTTAGTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 10 0.22
44 35 0.76
45 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (44 bp):
ATTTATGTAATTATAAGTTTGTAATTAATAGTTATGTAATTAAT
Found at i:13609359 original size:35 final size:35
Alignment explanation
Indices: 13609319--13609387 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
13609309 ATTAATTGGG
* *
13609319 TTCAAACTCAATTA-TAAATTTAAAATTGGTGCTAA
1 TTCAAACTCAA-TAGTAAAATTAAAATTAGTGCTAA
*
13609354 TTCAAACTCAATAGTAAAATTAATATTAGTGCTA
1 TTCAAACTCAATAGTAAAATTAAAATTAGTGCTA
13609388 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (35 bp):
TTCAAACTCAATAGTAAAATTAAAATTAGTGCTAA
Found at i:13615315 original size:9 final size:9
Alignment explanation
Indices: 13615301--13615331 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13615291 CTGATTACAG
13615301 TTGAAGCAT
1 TTGAAGCAT
13615310 TTGAAGCA-
1 TTGAAGCAT
13615318 TTGAAGCAT
1 TTGAAGCAT
13615327 TTGAA
1 TTGAA
13615332 ATGGCATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (9 bp):
TTGAAGCAT
Found at i:13617171 original size:18 final size:18
Alignment explanation
Indices: 13617148--13617182 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13617138 ATTGGTTAAA
*
13617148 ATAAAAATATTTAAATTC
1 ATAAAAATAATTAAATTC
*
13617166 ATAAAACTAATTAAATT
1 ATAAAAATAATTAAATT
13617183 ATATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAATAATTAAATTC
Found at i:13617192 original size:13 final size:13
Alignment explanation
Indices: 13617176--13617216 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
13617166 ATAAAACTAA
13617176 TTAAATTATATAT
1 TTAAATTATATAT
* * *
13617189 TTAATTTAAATAA
1 TTAAATTATATAT
13617202 TTAAATTATATAT
1 TTAAATTATATAT
13617215 TT
1 TT
13617217 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAAATTATATAT
Found at i:13619452 original size:49 final size:49
Alignment explanation
Indices: 13619395--13619498 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
13619385 TCATGTGTTA
* * * *
13619395 TAATTTTATACAGTGTTAAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAACTT
*
13619444 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAACTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAACTT
13619493 TAATTT
1 TAATTT
13619499 GTTTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAACTT
Found at i:13621005 original size:18 final size:17
Alignment explanation
Indices: 13620979--13621013 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13620969 AATATTAAGA
*
13620979 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13620996 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13621014 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13621013 original size:16 final size:16
Alignment explanation
Indices: 13620979--13621032 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
13620969 AATATTAAGA
13620979 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
13620996 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13621012 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
13621026 ATTTTAA
1 ATTTTAA
13621033 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13621126 original size:18 final size:17
Alignment explanation
Indices: 13621098--13621132 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13621088 ATTATTAAGA
*
13621098 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13621115 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13621133 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13621132 original size:16 final size:16
Alignment explanation
Indices: 13621098--13621151 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
13621088 ATTATTAAGA
13621098 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
13621115 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13621131 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
13621145 ATTTTAA
1 ATTTTAA
13621152 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13621161 original size:239 final size:241
Alignment explanation
Indices: 13620881--13621333 Score: 856
Period size: 239 Copynumber: 1.9 Consensus size: 241
13620871 AATAAAGTAG
13620881 ATTATAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
1 ATTATAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
* *
13620946 AGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
66 AGTAAATTCACACAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
13621011 TATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
131 TATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
*
13621076 TATAAGAA-ATTTATTATTAAGAATTTTATTAAATTATATATTTTA
196 TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
13621121 ATTA-AAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
1 ATTATAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
*
13621185 AGTAAATTCACACAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
66 AGTAAATTCACACAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
13621250 TATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
131 TATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
13621315 TATAAGAATATTTAATATT
196 TATAAGAATATTTAATATT
13621334 TAATATTTAA
Statistics
Matches: 208, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
239 195 0.94
240 13 0.06
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (241 bp):
ATTATAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
AGTAAATTCACACAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
TATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
Found at i:13621162 original size:119 final size:120
Alignment explanation
Indices: 13620881--13621333 Score: 854
Period size: 120 Copynumber: 3.8 Consensus size: 120
13620871 AATAAAGTAG
13620881 ATTATAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
1 ATTA-AAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
13620946 AGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
65 AGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
13621002 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
1 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
*
13621067 GTAAATTCATATAAGAA-ATTTATTATTAAGAATTTTATTAAATTATATATTTTA
66 GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
13621121 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
1 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
* * *
13621186 GTAAATTCACACAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTA
66 GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
13621241 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
1 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
13621306 GTAAATTCATATAAGAATATTTAATATT
66 GTAAATTCATATAAGAATATTTAATATT
13621334 TAATATTTAA
Statistics
Matches: 325, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
119 116 0.36
120 205 0.63
121 4 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTA
Found at i:13621246 original size:18 final size:17
Alignment explanation
Indices: 13621218--13621252 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13621208 ATTATTAAGA
*
13621218 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13621235 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13621253 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13621252 original size:16 final size:16
Alignment explanation
Indices: 13621218--13621271 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
13621208 ATTATTAAGA
13621218 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
13621235 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13621251 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
13621265 ATTTTAA
1 ATTTTAA
13621272 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13621333 original size:7 final size:7
Alignment explanation
Indices: 13621321--13621346 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13621311 TTCATATAAG
13621321 AATATTT
1 AATATTT
13621328 AATATTT
1 AATATTT
13621335 AATATTT
1 AATATTT
13621342 AATAT
1 AATAT
13621347 GATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATATTT
Found at i:13622802 original size:27 final size:27
Alignment explanation
Indices: 13622760--13622814 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13622750 TGATTCATGC
13622760 TTAAACTACTCAAGGATCCTTAATCAG
1 TTAAACTACTCAAGGATCCTTAATCAG
*
13622787 TTAAACTACTCGAGGATCCTTAATCAG
1 TTAAACTACTCAAGGATCCTTAATCAG
13622814 T
1 T
13622815 CATTCTTCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (27 bp):
TTAAACTACTCAAGGATCCTTAATCAG
Found at i:13625577 original size:23 final size:23
Alignment explanation
Indices: 13625529--13625593 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
13625519 TATTAGAAGA
* *
13625529 TTTGTAATTTTATAAAATTCCAT
1 TTTGTAATCTTATAAGATTCCAT
*
13625552 TTTGTAATCTTATAAGATT-TAGT
1 TTTGTAATCTTATAAGATTCCA-T
* *
13625575 TTTATAATCTTAGAAGATT
1 TTTGTAATCTTATAAGATT
13625594 GTGTAGATCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTGTAATCTTATAAGATTCCAT
Found at i:13630613 original size:15 final size:15
Alignment explanation
Indices: 13630593--13630627 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
13630583 GATACTCCCT
*
13630593 CATTTGTAATCATTC
1 CATTTGTAATCATCC
13630608 CATTTGTAATCATCC
1 CATTTGTAATCATCC
13630623 CATTT
1 CATTT
13630628 TATCGTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (15 bp):
CATTTGTAATCATCC
Found at i:13631690 original size:17 final size:16
Alignment explanation
Indices: 13631675--13631707 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
13631665 AAAATAATAC
13631675 AAAT-GAAAAAAAAAT
1 AAATAGAAAAAAAAAT
13631690 AAATAG-AAAAAAAAT
1 AAATAGAAAAAAAAAT
13631705 AAA
1 AAA
13631708 AATAAAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATAGAAAAAAAAAT
Found at i:13631710 original size:17 final size:17
Alignment explanation
Indices: 13631665--13631711 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
13631655 ATAAACGAGC
* *
13631665 AAAATAATACAAAT-GA
1 AAAAAAATAAAAATAGA
*
13631681 AAAAAAA-ATAAATAGA
1 AAAAAAATAAAAATAGA
13631697 AAAAAAATAAAAATA
1 AAAAAAATAAAAATA
13631712 AAAGGTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAAAAATAAAAATAGA
Found at i:13631714 original size:15 final size:15
Alignment explanation
Indices: 13631681--13631714 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13631671 ATACAAATGA
*
13631681 AAAAAAAATAAATAG
1 AAAAAAAATAAAAAG
*
13631696 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAG
13631711 AAAA
1 AAAA
13631715 GGTACATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:13633592 original size:45 final size:45
Alignment explanation
Indices: 13633474--13634089 Score: 288
Period size: 44 Copynumber: 14.1 Consensus size: 45
13633464 TCAAGAGCAC
* * *
13633474 AAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
1 AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
13633519 AAGA-TT-ATTTATTTAGTCTGCCCCACTGCAATTTCAAGGG-GAT
1 AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTC-AGGGAGAT
* * * *
13633562 AAGACTTGCTTTCTTGAGTCTGCTCCACTGCAAATTCAGGTAAAT
1 AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
** *
13633607 AAGACTAT-C-GGCTTTAATCTG-TCCCACTGCAACTTCAGGGAGAT
1 AAGACT-TGCTTTCTTTAGTCTGCT-CCACTGCAACTTCAGGGAGAT
* * ** * * *
13633651 AAGATTTACCATCTTCAGTCTGC-CTCACTACAACTTCA-AGAGGAT
1 AAGACTTGCTTTCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GAT
* * * *
13633696 AAGTCTTGCTTAC-TTAGTCTGCTCCACTGTAACTTTAGGGAGAT
1 AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * * * * * *
13633740 AAGACTAG-ATGC--GA-TCTGCT-CTCTGCAACTTTAGAGAGAT
1 AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** *
13633780 AAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGAT
1 AAGACTTGCTTTCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GAT
* * *
13633825 AAGACAT-ATTTAC-TTAGTCTGCTCTACTGCAACTTCAGGGAGAT
1 AAGACTTGCTTT-CTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * *** * *
13633869 AAGACTAGATGGGATTT-G-CT-CT---TTGCAACTTCAGAGAGAT
1 AAGACTTGCT-TTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * *
13633909 AAGA--TCCAAGGT-TTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 AAGACTTGC--TTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * * * * *
13633953 AGGA-TT-ATTGGCTCTAATCTACTCCACTGCAACTTCAGGGAGAT
1 AAGACTTGCTT-TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* ** * *
13633997 AAGATTTGCCATCTTCAGTCTAC-CTCACTGCAACTTCA-GGAGGAT
1 AAGACTTGCTTTCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GAT
* * * *
13634042 AAGACTTGCTTGC-TTAGTCTACTTCACTGCAACTTCATGGAGAT
1 AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
13634086 AAGA
1 AAGA
13634090 GTAGATGCGA
Statistics
Matches: 428, Mismatches: 100, Indels: 87
0.70 0.16 0.14
Matches are distributed among these distances:
38 3 0.01
39 1 0.00
40 44 0.10
41 9 0.02
42 1 0.00
43 37 0.09
44 194 0.45
45 136 0.32
46 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
AAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
Found at i:13633794 original size:129 final size:128
Alignment explanation
Indices: 13633491--13633913 Score: 472
Period size: 129 Copynumber: 3.2 Consensus size: 128
13633481 GCTATCTTTA
* ** * *
13633491 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTTAT-TT-AGTCTGCCCCACTGCAATTTC
1 ATCTGCT-CACTGCAACTTCAGAGAGATAAGATT-TCCATCTTCAGTCTGCCTCACTGCAACTTC
* * * * * *
13633554 AAGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAAATTCAGGTAAATAAGACTATCGGC
64 AAGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA---GA
***
13633619 TTTA
125 TGCG
* * *
13633623 ATCTGTCCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTACAACTTC
1 ATCTG-CTCACTGCAACTTCAGAGAGATAAGATTT-CCATCTTCAGTCTGCCTCACTGCAACTTC
* * *
13633688 AAGAGGATAAGTCTTGCTTACTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTAGATGCG
64 AAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* *
13633753 ATCTGCTCTCTGCAACTTTAGAGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGATTT-CCATCTTCAGTCTGCCTCACTGCAACTTCA
* * ** * *
13633818 GGAGGATAAGACATATTTACTTAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTAGATGGG
65 AGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* **
13633882 ATTTGCTCTTTGCAACTTCAGAGAGATAAGAT
1 ATCTGCTCACTGCAACTTCAGAGAGATAAGAT
13633914 CCAAGGTTTT
Statistics
Matches: 251, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
129 138 0.55
130 7 0.03
131 1 0.00
132 33 0.13
133 34 0.14
134 38 0.15
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (128 bp):
ATCTGCTCACTGCAACTTCAGAGAGATAAGATTTCCATCTTCAGTCTGCCTCACTGCAACTTCAA
GAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
Found at i:13634025 original size:217 final size:217
Alignment explanation
Indices: 13633762--13634182 Score: 700
Period size: 217 Copynumber: 1.9 Consensus size: 217
13633752 GATCTGCTCT
* *
13633762 CTGCAACTTTAGAGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAA
1 CTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAA
* * * *
13633827 GACATATTTACTTAGTCTGC-TCTACTGCAACTTCAGGGAGATAAGACTAGATGGGATTTGCTCT
66 GACATACTTACTTAGTCTACTTC-ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
*
13633891 TTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGG
130 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGG
*
13633956 ATTATTGGCTCTAATCTACTCCA
195 ATCATTGGCTCTAATCTACTCCA
*
13633979 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAA
1 CTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAA
* * * * *
13634044 GACTTGCTTGCTTAGTCTACTTCACTGCAACTTCATGGAGATAAGAGTAGATGCGATCTGCTCTC
66 GACATACTTACTTAGTCTACTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTC
13634109 TGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
131 TGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
13634174 TCATTGGCT
196 TCATTGGCT
13634183 TTCGATCTGT
Statistics
Matches: 189, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 187 0.99
218 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (217 bp):
CTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAA
GACATACTTACTTAGTCTACTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTC
TGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
TCATTGGCTCTAATCTACTCCA
Found at i:13645881 original size:19 final size:19
Alignment explanation
Indices: 13645840--13645882 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13645830 ATGCTACATT
* *
13645840 AAATATACAATGTGATAAT
1 AAATATACAATGTCATAAG
13645859 AAATATTACAATGTCAT-AG
1 AAATA-TACAATGTCATAAG
13645878 AAATA
1 AAATA
13645883 ATGCATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (19 bp):
AAATATACAATGTCATAAG
Found at i:13654599 original size:68 final size:67
Alignment explanation
Indices: 13654440--13654810 Score: 408
Period size: 67 Copynumber: 5.5 Consensus size: 67
13654430 ACCTTAAAAG
* * * * **
13654440 GGGTTACAAGGTGTAAAACCATAGCTCAACTTTGACGAA-CAATAGATTCCATTAGGACATTAAA
1 GGGTTACAAGGTGTAAGACCATAGCTCGACTATGAC-AACCAATAGAGTCCACCAGGACATTAAA
13654504 CAT
65 CAT
* * * * *
13654507 GGGTTATAAGGTGTAAGACCATAGCTTGACTATGGCAACCAATAAAGTCCGCCAGGACATTAAAC
1 GGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAAC
13654572 AT
66 AT
* * * *
13654574 AAGGTTACAAGGTGTAAAACCATAGCTC-AGCTATGACAACCAATAGAGTCCTCTAGGACATTAA
1 -GGGTTACAAGGTGTAAGACCATAGCTCGA-CTATGACAACCAATAGAGTCCACCAGGACATTAA
13654638 ACAT
64 ACAT
* * * * *
13654642 GAGGTTACAAGGTGTAAGACCATAGCACGATTATGAC-ACCAATAGAGTTCACCAAGAAATTAAA
1 G-GGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAA
13654706 CAT
65 CAT
* * * * *
13654709 GGGTTTACATGGTGTAAGACCATAACCCAACTATGACAACCAATAGAGTCTACCAGGACATTAAA
1 GGG-TTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAA
*
13654774 CTT
65 CAT
* *
13654777 GGGGTTAC-ATGTGTAAGACTATAGCTCGACTATG
1 -GGGTTACAAGGTGTAAGACCATAGCTCGACTATG
13654811 GCAGCATATG
Statistics
Matches: 252, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
66 4 0.02
67 128 0.51
68 116 0.46
69 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (67 bp):
GGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAAC
AT
Found at i:13654683 original size:135 final size:134
Alignment explanation
Indices: 13654441--13654810 Score: 444
Period size: 135 Copynumber: 2.7 Consensus size: 134
13654431 CCTTAAAAGG
* *
13654441 GGTTACAAGGTGTAAAACCATAGCTCAACTTTGACGAA-CAATAGATTCCAT-TAGGACATTAAA
1 GGTTACAAGGTGTAAAACCATAGCTCAACTATGAC-AACCAATAGAGTCC-TCTAGGACATTAAA
* * * * * *
13654504 CATGGGTTATAAGGTGTAAGACCATAGCTTGACTATGGCAACCAATAAAGTCCGCCAGGACATTA
64 CATGGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAAAGTCCACCAAGAAATTA
13654569 AACATAA
129 AACAT-A
*
13654576 GGTTACAAGGTGTAAAACCATAGCTCAGCTATGACAACCAATAGAGTCCTCTAGGACATTAAACA
1 GGTTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCTCTAGGACATTAAACA
* * * *
13654641 TGAGGTTACAAGGTGTAAGACCATAGCACGATTATGAC-ACCAATAGAGTTCACCAAGAAATTAA
66 TG-GGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAAAGTCCACCAAGAAATTAA
*
13654705 ACATG
130 ACATA
* * * * *
13654710 GGTTTACATGGTGTAAGACCATAACCCAACTATGACAACCAATAGAGT-CTACCAGGACATTAAA
1 GG-TTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCT-CTAGGACATTAAA
* * *
13654774 CTTGGGGTTAC-ATGTGTAAGACTATAGCTCGACTATG
64 CAT-GGGTTACAAGGTGTAAGACCATAGCTCGACTATG
13654811 GCAGCATATG
Statistics
Matches: 204, Mismatches: 25, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
134 29 0.14
135 144 0.71
136 31 0.15
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (134 bp):
GGTTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCTCTAGGACATTAAACA
TGGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAAAGTCCACCAAGAAATTAAA
CATA
Found at i:13657625 original size:180 final size:180
Alignment explanation
Indices: 13657317--13657669 Score: 553
Period size: 180 Copynumber: 2.0 Consensus size: 180
13657307 ATTTGCATGT
*
13657317 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTAAAATCAATCTACCGTACGTTAA
1 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTAAAATCAATCTACCATACGTTAA
* * * **
13657382 TCCGCAATGAAAGCAATTACTAAGGTAATTGGCATATGTTCTACTGGAAAAAGAGTTAATAATCC
66 TCCGCAATGAAAACAATTACTAAGGTAATTCGCATATGTTCTACTAGAAAAAGAGGCAATAATCC
* **
13657447 ATCTTGTATGAAATTAGTGCAAATGGTTAAGCGAAATCATTCCGCTTGTA
131 ATCTTGTATGAAATTAGTACAAATGGGCAAGCGAAATCATTCCGCTTGTA
* ***
13657497 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTAGAATCAATCTGTTATACGTTAA
1 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTAAAATCAATCTACCATACGTTAA
* * *
13657562 TTCGCAATGAAAATAATTGCTAAGGTAATTCGCATATGTTCTACTAGAAAAAGAGGCAATAATCC
66 TCCGCAATGAAAACAATTACTAAGGTAATTCGCATATGTTCTACTAGAAAAAGAGGCAATAATCC
*
13657627 ATCTTGTATGAAATTAGTACAAATGGGCAAGTGAAATCATTCC
131 ATCTTGTATGAAATTAGTACAAATGGGCAAGCGAAATCATTCC
13657670 ACATTATAGC
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
180 156 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (180 bp):
AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTAAAATCAATCTACCATACGTTAA
TCCGCAATGAAAACAATTACTAAGGTAATTCGCATATGTTCTACTAGAAAAAGAGGCAATAATCC
ATCTTGTATGAAATTAGTACAAATGGGCAAGCGAAATCATTCCGCTTGTA
Found at i:13664093 original size:12 final size:12
Alignment explanation
Indices: 13664076--13664100 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13664066 TATAGGGCGG
13664076 CTTTTTATGTAT
1 CTTTTTATGTAT
13664088 CTTTTTATGTAT
1 CTTTTTATGTAT
13664100 C
1 C
13664101 CATTCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (12 bp):
CTTTTTATGTAT
Found at i:13670481 original size:79 final size:76
Alignment explanation
Indices: 13670366--13670516 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 76
13670356 TTATAGATAT
*
13670366 CATTCAACAATTCATTTCAAACAAACAACATTTAAATAA-TACCATCTAGAAAAAAAAATAGAAA
1 CATTCAACAATTCATTTCAAACAAACAACATCTAAATAACT-CCAT-T-GAAAAAAAAATAGAAA
13670430 TTATTTTATTATTG
63 TTATTTTATTATTG
* * * * * *
13670444 CATTCAACACTTCATATTCAAACAAACATCATCTAAATAACTTCATTGATAAAATAATGGAAATT
1 CATTCAACAATTCAT-TTCAAACAAACAACATCTAAATAACTCCATTGAAAAAAAAATAGAAATT
13670509 ATTTTATT
65 ATTTTATT
13670517 GGCATTGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
77 23 0.36
78 15 0.23
79 25 0.39
80 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (76 bp):
CATTCAACAATTCATTTCAAACAAACAACATCTAAATAACTCCATTGAAAAAAAAATAGAAATTA
TTTTATTATTG
Found at i:13676383 original size:61 final size:62
Alignment explanation
Indices: 13676266--13676385 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 62
13676256 TTTGACCTAA
* *
13676266 TAACAAATTTAGCCCTCCAATGTTTACAGATTCTATCAATTTAGTTTTAAATCTAAAAAATT
1 TAACAAATTTAGCCCTCCAATATTTACAGATTCTATCAATTTAGTTATAAATCTAAAAAATT
* * * * *
13676328 TAACAAATTTAG-CCTTCAGTATTTACAAGATT-TGTCACTTTAGTTATAATTCTAAAAA
1 TAACAAATTTAGCCCTCCAATATTTAC-AGATTCTATCAATTTAGTTATAAATCTAAAAA
13676386 TTCTGAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 33 0.66
62 17 0.34
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.39
Consensus pattern (62 bp):
TAACAAATTTAGCCCTCCAATATTTACAGATTCTATCAATTTAGTTATAAATCTAAAAAATT
Found at i:13680996 original size:17 final size:18
Alignment explanation
Indices: 13680962--13681007 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
13680952 CCGTTATGTC
13680962 CGCGACTGCGA-C--AAA
1 CGCGACTGCGACCGAAAA
13680977 CGCGAC-GCGACCGAAAA
1 CGCGACTGCGACCGAAAA
13680994 CGCGACTGCGACCG
1 CGCGACTGCGACCG
13681008 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.15
15 7 0.26
17 9 0.33
18 7 0.26
ACGTcount: A:0.28, C:0.37, G:0.30, T:0.04
Consensus pattern (18 bp):
CGCGACTGCGACCGAAAA
Found at i:13683384 original size:18 final size:19
Alignment explanation
Indices: 13683361--13683396 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13683351 ATCTTCCACT
*
13683361 TTTATTTTTTTA-TGTTTA
1 TTTATTTATTTATTGTTTA
13683379 TTTATTTATTTATTGTTT
1 TTTATTTATTTATTGTTT
13683397 TAATATTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTATTTATTTATTGTTTA
Found at i:13683802 original size:15 final size:16
Alignment explanation
Indices: 13683782--13683812 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13683772 ATCAACTAAG
13683782 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
13683797 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
13683813 GTTCCAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:13683809 original size:6 final size:5
Alignment explanation
Indices: 13683782--13683812 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
13683772 ATCAACTAAG
13683782 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
13683813 GTTCCAACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:13688004 original size:13 final size:13
Alignment explanation
Indices: 13687986--13688011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13687976 TAGTTTACTG
13687986 AAATTATTATAAT
1 AAATTATTATAAT
13687999 AAATTATTATAAT
1 AAATTATTATAAT
13688012 TATGATTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:13689104 original size:27 final size:21
Alignment explanation
Indices: 13689047--13689098 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
13689037 ATGAGATCAT
13689047 TTCAAAATGATTATGATTTTC
1 TTCAAAATGATTATGATTTTC
13689068 TTCAAAATGATTATGATTTTC
1 TTCAAAATGATTATGATTTTC
13689089 TTCAAAATGA
1 TTCAAAATGA
13689099 AAATGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
TTCAAAATGATTATGATTTTC
Found at i:13703523 original size:22 final size:22
Alignment explanation
Indices: 13703484--13703526 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13703474 GTTTACTTTC
*
13703484 AATTAAAATTATAAATTAAAAA
1 AATTAAAAATATAAATTAAAAA
**
13703506 AATTAAAAATATCGATTAAAA
1 AATTAAAAATATAAATTAAAA
13703527 TTTATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AATTAAAAATATAAATTAAAAA
Found at i:13704798 original size:6 final size:6
Alignment explanation
Indices: 13704789--13704822 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
13704779 AAACATTGTT
13704789 GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GGTT
1 GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GGTT
13704823 TTTGTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (6 bp):
GGTTGA
Found at i:13709455 original size:13 final size:13
Alignment explanation
Indices: 13709437--13709481 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
13709427 GATAGGATTT
13709437 TGTATATCTGTTC
1 TGTATATCTGTTC
13709450 TGTATATCTGATTC
1 TGTATATCTG-TTC
13709464 TGT-TATCTGTATC
1 TGTATATCTGT-TC
13709477 TGTAT
1 TGTAT
13709482 CTGTATCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 21 0.72
14 7 0.24
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (13 bp):
TGTATATCTGTTC
Found at i:13709476 original size:6 final size:6
Alignment explanation
Indices: 13709441--13709492 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
13709431 GGATTTTGTA
13709441 TATCTG T-TCTG TATATCTG -ATTCTG TTATCTG TATCTG TATCTG TATCTG
1 TATCTG TATCTG --TATCTG TA-TCTG -TATCTG TATCTG TATCTG TATCTG
13709491 TA
1 TA
13709493 AAGGACCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.12
6 25 0.62
7 5 0.12
8 5 0.12
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TATCTG
Found at i:13710226 original size:15 final size:17
Alignment explanation
Indices: 13710206--13710245 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
13710196 TAAATCGTAT
13710206 AAATTAATAATTA-A-A
1 AAATTAATAATTATATA
13710221 AAATTAAT-ATTATATA
1 AAATTAATAATTATATA
13710237 AAATTAATA
1 AAATTAATA
13710246 TAGTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAATAATTATATA
Found at i:13710241 original size:16 final size:14
Alignment explanation
Indices: 13710206--13710246 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
13710196 TAAATCGTAT
13710206 AAATTAATAATTAAA
1 AAATTAAT-ATTAAA
13710221 AAATTAATATTATATA
1 AAATTAATATTA-A-A
13710237 AAATTAATAT
1 AAATTAATAT
13710247 AGTTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTAATATTAAA
Found at i:13711314 original size:19 final size:18
Alignment explanation
Indices: 13711292--13711335 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
13711282 AAATAGTGAA
13711292 AAAATAACAAGAAAATAAT
1 AAAA-AACAAGAAAATAAT
*
13711311 AAAAAAGCAAGAAAATAGT
1 AAAAAA-CAAGAAAATAAT
13711330 AAAAAA
1 AAAAAA
13711336 ACAACAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAAAACAAGAAAATAAT
Found at i:13717279 original size:18 final size:18
Alignment explanation
Indices: 13717231--13717279 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
13717221 GTTGAAAACA
13717231 AAGAGGGAGT-TGAGAATG
1 AAGAGGGA-TCTGAGAATG
* * *
13717249 AAGTGGAAGCTGAGAATG
1 AAGAGGGATCTGAGAATG
13717267 AAGAGGGATCTGA
1 AAGAGGGATCTGA
13717280 ATCTGGTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.41, T:0.16
Consensus pattern (18 bp):
AAGAGGGATCTGAGAATG
Found at i:13724082 original size:20 final size:19
Alignment explanation
Indices: 13724045--13724083 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
13724035 ACCTTTTATT
*
13724045 ATTATGTGTAGTGCTAGTG
1 ATTATGTGTAGGGCTAGTG
*
13724064 ATTATGCTGTAGGGGTAGTG
1 ATTATG-TGTAGGGCTAGTG
13724084 TTAGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.05, G:0.36, T:0.38
Consensus pattern (19 bp):
ATTATGTGTAGGGCTAGTG
Found at i:13734255 original size:25 final size:27
Alignment explanation
Indices: 13734227--13734279 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13734217 ACAGCCATAC
*
13734227 ATAACATA-GAGCAT-ATAGTCATTTT
1 ATAACATAGGAGAATAATAGTCATTTT
*
13734252 ATAACATAGGGGAATAATAGTCATTTT
1 ATAACATAGGAGAATAATAGTCATTTT
13734279 A
1 A
13734280 CCACGTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 4 0.17
27 12 0.50
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (27 bp):
ATAACATAGGAGAATAATAGTCATTTT
Found at i:13734295 original size:27 final size:27
Alignment explanation
Indices: 13734241--13734304 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
13734231 CATAGAGCAT
*
13734241 ATAGTCATTTTATAACATAGGGGAATA
1 ATAGTCATTTTACAACATAGGGGAATA
* *
13734268 ATAGTCATTTTACCACGT-GGGGACATA
1 ATAGTCATTTTACAACATAGGGGA-ATA
*
13734295 ACAGTCATTT
1 ATAGTCATTT
13734305 CATATCAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (27 bp):
ATAGTCATTTTACAACATAGGGGAATA
Found at i:13738027 original size:38 final size:38
Alignment explanation
Indices: 13737974--13738322 Score: 245
Period size: 38 Copynumber: 8.9 Consensus size: 38
13737964 AAGGTAACGT
* *
13737974 TATTCGGGCTCCGTGCTTAGCAGGCTTTGTGCCGGTGA
1 TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
13738012 TATTCGGGCTTCGTGCTTAGCAGGCTTTGTGCCAGTGA
1 TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
13738050 TATTCGGGCTCCGTGCCTAGTAGGATTTGTGCCAGTGA
1 TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
13738088 TATTCGGGC-TCTGTGCCTAGAAGGCTTTGTGTCGGTGA
1 TATTCGGGCTTC-GTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
13738126 TATTCAGGC-TCTGTGCCTAGCAGGCTTCGTGCCGATGTA
1 TATTCGGGCTTC-GTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * * * *
13738165 TTATATCAGGC-TCTGTGTCTAGTAGACTTCGTGCCGCTGTA
1 -TAT-TCGGGCTTC-GTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * *
13738206 GTATATCAGGCTTTGTACCTAGCAGGCTTTGTGCCGATGTA
1 -TAT-TCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * * *
13738247 TTATATCAGACTTTGTACCTAGTAGGCTTTGTGCCGGTGTA
1 -TAT-TCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTG-A
* * * * *
13738288 TTATATCAGGCTTCGAGCATGGCAGTCTTTGTGCC
1 -TAT-TCGGGCTTCGTGCCTAGCAGGCTTTGTGCC
13738323 AATGTATTGT
Statistics
Matches: 266, Mismatches: 40, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
37 1 0.00
38 133 0.50
39 1 0.00
40 3 0.01
41 127 0.48
42 1 0.00
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (38 bp):
TATTCGGGCTTCGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:13738318 original size:41 final size:41
Alignment explanation
Indices: 13737991--13738338 Score: 231
Period size: 41 Copynumber: 8.8 Consensus size: 41
13737981 GCTCCGTGCT
* * * * *
13737991 TAGCAGGCTTTGTGCCGGTG-A-TAT-TCGGGCTTCGTGCT
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* ** *
13738029 TAGCAGGCTTTGTGCC-A-GTGA-TAT-TCGGGCTCCGTGCC
1 TAGCAGGCTTTGTGCCGATGT-ATTATATCAGGCTTTGTACC
* * * * *
13738067 TAGTAGGATTTGTGCC-A-GTGA-TAT-TCGGGCTCTGTGCC
1 TAGCAGGCTTTGTGCCGATGT-ATTATATCAGGCTTTGTACC
* * * * *
13738105 TAGAAGGCTTTGTGTCGGTG-A-TAT-TCAGGCTCTGTGCC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* * **
13738143 TAGCAGGCTTCGTGCCGATGTATTATATCAGGCTCTGTGTC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* * * * *
13738184 TAGTAGACTTCGTGCCGCTGTAGTATATCAGGCTTTGTACC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
*
13738225 TAGCAGGCTTTGTGCCGATGTATTATATCAGACTTTGTACC
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
* * * *
13738266 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTCG-AGCA
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTA-CC
* * * *
13738307 TGGCAGTCTTTGTGCCAATGTATTGTATCAGG
1 TAGCAGGCTTTGTGCCGATGTATTATATCAGG
13738339 TAAGTTGTAC
Statistics
Matches: 262, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.00
38 113 0.43
39 1 0.00
40 5 0.02
41 142 0.54
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCCGATGTATTATATCAGGCTTTGTACC
Found at i:13738318 original size:82 final size:81
Alignment explanation
Indices: 13738033--13738337 Score: 261
Period size: 82 Copynumber: 3.8 Consensus size: 81
13738023 CGTGCTTAGC
* * * * * *
13738033 AGGCTTTGTGCCAGTG-ATAT-TCGGGCTCCGTGCCTAGTAGGATTTGTGCC-A-GTGA-TAT-T
1 AGGCTTTGTGCCGGTGTATATATCAGGCTTCGAGCCTAGCAGGCTTTGTGCCGATGT-ATTATAT
* * * *
13738092 CGGGCTCTGTGCCTAGA
65 CAGACTCTGTACCTAGT
* * *
13738109 AGGCTTTGTGTCGGTG-ATAT-TCAGGC-TCTGTGCCTAGCAGGCTTCGTGCCGATGTATTATAT
1 AGGCTTTGTGCCGGTGTATATATCAGGCTTC-GAGCCTAGCAGGCTTTGTGCCGATGTATTATAT
* **
13738171 CAGGCTCTGTGTCTAGT
65 CAGACTCTGTACCTAGT
* * * *
13738188 AGACTTCGTGCCGCTGTAGTATATCAGGCTTTGTA-CCTAGCAGGCTTTGTGCCGATGTATTATA
1 AGGCTTTGTGCCGGTGTA-TATATCAGGCTTCG-AGCCTAGCAGGCTTTGTGCCGATGTATTATA
*
13738252 TCAGACTTTGTACCTAGT
64 TCAGACTCTGTACCTAGT
* * * * *
13738270 AGGCTTTGTGCCGGTGTATTATATCAGGCTTCGAGCATGGCAGTCTTTGTGCCAATGTATTGTAT
1 AGGCTTTGTGCCGGTGTA-TATATCAGGCTTCGAGCCTAGCAGGCTTTGTGCCGATGTATTATAT
13738335 CAG
65 CAG
13738338 GTAAGTTGTA
Statistics
Matches: 187, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.01
76 41 0.22
77 2 0.01
78 5 0.03
79 27 0.14
80 1 0.01
81 4 0.02
82 105 0.56
83 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (81 bp):
AGGCTTTGTGCCGGTGTATATATCAGGCTTCGAGCCTAGCAGGCTTTGTGCCGATGTATTATATC
AGACTCTGTACCTAGT
Found at i:13745158 original size:24 final size:24
Alignment explanation
Indices: 13745104--13745151 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13745094 CCTGTAGTCC
*
13745104 ATCGGGACTGTAAACACAAGGTCT
1 ATCGGGACTGTAAACACAACGTCT
*
13745128 ATCGGGACTGTAAACACGACGTCT
1 ATCGGGACTGTAAACACAACGTCT
13745152 GTTGGGATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (24 bp):
ATCGGGACTGTAAACACAACGTCT
Found at i:13745458 original size:25 final size:25
Alignment explanation
Indices: 13745429--13745490 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
13745419 AAAAAGCTTT
*
13745429 TGTGGCGAATTATCTAAAAATCCT-
1 TGTGGCGAATTATCCAAAAATCCTG
*
13745453 TGGTGGCTAATTATCCAAAAATCCTG
1 T-GTGGCGAATTATCCAAAAATCCTG
*
13745479 TGTGGCGTATTA
1 TGTGGCGAATTA
13745491 CCTGGAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (25 bp):
TGTGGCGAATTATCCAAAAATCCTG
Found at i:13751862 original size:25 final size:25
Alignment explanation
Indices: 13751832--13751905 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
13751822 ATTTCGACCC
13751832 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
13751857 ACAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
*
13751882 ATAGCTCGTGTGAGCATACCGATT
1 ACAGCTCGTGTGAGCATACCGATT
13751906 CATATCTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:13755927 original size:24 final size:24
Alignment explanation
Indices: 13755879--13755925 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13755869 ACTGGTCATA
*
13755879 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
13755903 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
13755926 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:13757070 original size:54 final size:54
Alignment explanation
Indices: 13756982--13757261 Score: 320
Period size: 54 Copynumber: 5.2 Consensus size: 54
13756972 CCCTAAAAGA
*
13756982 GGTAAAATGATCGAAATA-CCTCCATAGGATAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGATCAAAATACCCT-CATAGGATAAAATGACTGAAATACCCCCATAG
* * *
13757036 GATAACATGATCAAAATACCCTCATAGGATAAAATGA-TCAAAATACCCCCATAG
1 GGTAAAATGATCAAAATACCCTCATAGGATAAAATGACT-GAAATACCCCCATAG
* * * * * * *
13757090 GGCAAAACGATCGAAATACCCTTATAGGGTAAAATGA-TCGAAATACCCTCATAT
1 GGTAAAATGATCAAAATACCCTCATAGGATAAAATGACT-GAAATACCCCCATAG
* * * *
13757144 GGTAAAATGACCAAAATACCC-CTATAGGGTAAAATGACTCAAATACCCTCATAG
1 GGTAAAATGATCAAAATACCCTC-ATAGGATAAAATGACTGAAATACCCCCATAG
*
13757198 GGTAAAATGACCAAAATACCACT-ATAAGG-TAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGATCAAAATACC-CTCAT-AGGATAAAATGACTGAAATACCCCCATAG
13757252 GGTAAAATGA
1 GGTAAAATGA
13757262 CTATTATACC
Statistics
Matches: 196, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
53 1 0.01
54 187 0.95
55 8 0.04
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (54 bp):
GGTAAAATGATCAAAATACCCTCATAGGATAAAATGACTGAAATACCCCCATAG
Found at i:13757272 original size:27 final size:27
Alignment explanation
Indices: 13756982--13757263 Score: 281
Period size: 27 Copynumber: 10.4 Consensus size: 27
13756972 CCCTAAAAGA
*
13756982 GGTAAAATGA-TCGAAATACCTCCATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
* *
13757009 GATAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACTCAAATACCCCCATAG
* * *
13757036 GATAACATGA-TCAAAATACCCTCATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
*
13757063 GATAAAATGA-TCAAAATACCCCCATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
* * **
13757090 GGCAAAACGA-TCGAAATACCCTTATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
* *
13757117 GGTAAAATGA-TCGAAATACCCTCATAT
1 GGTAAAATGACTC-AAATACCCCCATAG
*
13757144 GGTAAAATGAC-CAAAATACCCCTATAG
1 GGTAAAATGACTC-AAATACCCCCATAG
*
13757171 GGTAAAATGACTCAAATACCCTCATAG
1 GGTAAAATGACTCAAATACCCCCATAG
* * *
13757198 GGTAAAATGAC-CAAAATACCACTATAA
1 GGTAAAATGACTC-AAATACCCCCATAG
*
13757225 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACTCAAATACCCCCATAG
13757252 GGTAAAATGACT
1 GGTAAAATGACT
13757264 ATTATACCCT
Statistics
Matches: 217, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 213 0.98
28 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTCAAATACCCCCATAG
Found at i:13757273 original size:81 final size:81
Alignment explanation
Indices: 13756981--13757263 Score: 358
Period size: 81 Copynumber: 3.5 Consensus size: 81
13756971 ACCCTAAAAG
* * * * * * *
13756981 AGGTAAAATGATCGAAATACCTCCATAGGATAAAATGACTGAAATACCCCCATAGGATAACATGA
1 AGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
13757046 TCAAAATACCCTCAT-
66 TCAAAATACCCTCATA
* * *
13757061 AGGATAAAATGATCAAAATACCCCCATAGGGCAAAACGA-TCGAAATACCCTTATAGGGTAAAAT
1 AGG-TAAAATGATCAAAATACCCCCATAGGGTAAAATGACTC-AAATACCCTCATAGGGTAAAAT
*
13757125 GATCGAAATACCCTCATA
64 GATCAAAATACCCTCATA
* * *
13757143 TGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
1 AGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
*
13757208 CCAAAATACCACT-ATA
66 TCAAAATACC-CTCATA
*
13757224 AGGTAAAATGA-CTGAAATACCCCCATAGGGTAAAATGACT
1 AGGTAAAATGATC-AAAATACCCCCATAGGGTAAAATGACT
13757264 ATTATACCCT
Statistics
Matches: 175, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.03
81 164 0.94
82 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (81 bp):
AGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACTCAAATACCCTCATAGGGTAAAATGA
TCAAAATACCCTCATA
Found at i:13762637 original size:27 final size:27
Alignment explanation
Indices: 13762605--13762853 Score: 256
Period size: 27 Copynumber: 9.2 Consensus size: 27
13762595 ATTCATGGGC
*
13762605 AAATGATCGAAATACCCTCGAATGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
13762632 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* * *
13762659 AAATGA-CTAAAATACCTTTGAAGGGTA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* *
13762686 AAATGACCAAAATA-CCTCCGAAGGGTA
1 AAATGATCGAAATACCCT-CGAAGGGTA
** *
13762713 AAATGA-CTGAAATACTTTCGAAGGATA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* * *
13762740 AAATGATCAAAATACCCCCAAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
13762767 AAATGA-CTGAAATACCCTCGAAGGGTA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* * ***
13762794 AAATGATCAAAATACCCTCAAATTTTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
13762821 AAATGATCGAAATACCC-CCATAGGGTA
1 AAATGATCGAAATACCCTCGA-AGGGTA
13762848 AAATGA
1 AAATGA
13762854 CTGTTATACC
Statistics
Matches: 184, Mismatches: 29, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
26 7 0.04
27 173 0.94
28 4 0.02
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATGATCGAAATACCCTCGAAGGGTA
Found at i:13762687 original size:54 final size:54
Alignment explanation
Indices: 13762605--13762853 Score: 290
Period size: 54 Copynumber: 4.6 Consensus size: 54
13762595 ATTCATGGGC
* *
13762605 AAATGA-TCGAAATACCCTCGAATGGTAAAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
* * * *
13762659 AAATGACTAAAATACCTTTGAAGGGTAAAATGACCAAAATA-CCTCCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCT-CGAAGGGTA
** * * *
13762713 AAATGACTGAAATACTTTCGAAGGATAAAATGATCAAAATACCCCCAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
* ***
13762767 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCAAATTTTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
*
13762821 AAATGA-TCGAAATACCC-CCATAGGGTAAAATGA
1 AAATGACT-GAAATACCCTCGA-AGGGTAAAATGA
13762854 CTGTTATACC
Statistics
Matches: 169, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
53 6 0.04
54 160 0.95
55 3 0.02
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTA
Found at i:13762742 original size:81 final size:81
Alignment explanation
Indices: 13762605--13762854 Score: 290
Period size: 81 Copynumber: 3.1 Consensus size: 81
13762595 ATTCATGGGC
* * *
13762605 AAATGATCGAAATACCCTCGAATGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGA-CTAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAATGATC-AA
****
13762669 AATACCTTTGAAGGGTA
65 AATACCCCCAAAGGGTA
* **
13762686 AAATGACCAAAATA-CCTCCGAAGGGTAAAATGA-CTGAAATACTTTCGAAGGATAAAATGATCA
1 AAATGACCGAAATACCCT-CGAAGGGTAAAATGATC-GAAATACCCTCGAAGGATAAAATGATCA
13762749 AAATACCCCCAAAGGGTA
64 AAATACCCCCAAAGGGTA
* * * *** *
13762767 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCAAATTTTAAAATGATCGAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAATGATCAAA
*
13762832 ATACCCCCATAGGGTA
66 ATACCCCCAAAGGGTA
13762848 AAATGAC
1 AAATGAC
13762855 TGTTATACCC
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
80 4 0.03
81 134 0.94
82 5 0.03
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGATAAAATGATCAAA
ATACCCCCAAAGGGTA
Found at i:13778697 original size:10 final size:9
Alignment explanation
Indices: 13778672--13778793 Score: 66
Period size: 9 Copynumber: 12.7 Consensus size: 9
13778662 ACAGATAAAA
*
13778672 ATAAAAATCA
1 ATAAAAAT-T
*
13778682 ATAAAAGTT
1 ATAAAAATT
13778691 ATAAAAATT
1 ATAAAAATT
13778700 ATAAAAATT
1 ATAAAAATT
**
13778709 ATGAAATTTT
1 AT-AAAAATT
13778719 AATAAAAA-T
1 -ATAAAAATT
*
13778728 ATAAAAAAAT
1 AT-AAAAATT
**
13778738 ATTAAATTTTT
1 A-TAAA-AATT
13778749 ATTAAAAATT
1 A-TAAAAATT
*
13778759 AGAAAAATATT
1 A-TAAAA-ATT
*
13778770 ATAAAAAAT
1 ATAAAAATT
*
13778779 GTAAAAATT
1 ATAAAAATT
13778788 ATAAAA
1 ATAAAA
13778794 TATATAGAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
8 2 0.02
9 39 0.45
10 31 0.36
11 14 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13778703 original size:18 final size:19
Alignment explanation
Indices: 13778672--13778734 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
13778662 ACAGATAAAA
*
13778672 ATAAAAATCAATAAAAGTT
1 ATAAAAATCAATAAAAATT
*
13778691 ATAAAAAT-TATAAAAATT
1 ATAAAAATCAATAAAAATT
** *
13778709 ATGAAATTTTAATAAAAA-T
1 AT-AAAAATCAATAAAAATT
13778728 ATAAAAA
1 ATAAAAA
13778735 AATATTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 13 0.37
19 15 0.43
20 7 0.20
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAATCAATAAAAATT
Found at i:13778767 original size:29 final size:28
Alignment explanation
Indices: 13778691--13778770 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
13778681 AATAAAAGTT
* *
13778691 ATAAAAATTATAAAAATTATGAAATTTTA
1 ATAAAAATTA-AAAAAATATTAAATTTTA
13778720 ATAAAAATATAAAAAAATATTAAATTTTTA
1 ATAAAAAT-TAAAAAAATATTAAA-TTTTA
* *
13778750 TTAAAAATTAGAAAAATATTA
1 ATAAAAATTAAAAAAATATTA
13778771 TAAAAAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 31 0.69
30 14 0.31
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
ATAAAAATTAAAAAAATATTAAATTTTA
Found at i:13778804 original size:10 final size:9
Alignment explanation
Indices: 13778762--13778823 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
13778752 AAAAATTAGA
13778762 AAAATATTAT
1 AAAATA-TAT
* *
13778772 AAAAAATGT
1 AAAATATAT
13778781 AAAA-ATTAT
1 AAAATA-TAT
13778790 AAAATATAT
1 AAAATATAT
*
13778799 AGAAATATAG
1 A-AAATATAT
13778809 AAAGATATAT
1 AAA-ATATAT
13778819 AAAAT
1 AAAAT
13778824 TTTATAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 1 0.02
9 20 0.47
10 22 0.51
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAATATAT
Found at i:13778804 original size:18 final size:17
Alignment explanation
Indices: 13778767--13778824 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
13778757 TTAGAAAAAT
* *
13778767 ATTATAAAAAATGTAAAA
1 ATTATAAAATATAT-AAA
13778785 ATTATAAAATATATAGAA
1 ATTATAAAATATATA-AA
*
13778803 ATATAGAAAGATATATAAA
1 AT-TATAAA-ATATATAAA
13778822 ATT
1 ATT
13778825 TTATAAAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.50
19 9 0.26
20 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (17 bp):
ATTATAAAATATATAAA
Found at i:13778832 original size:20 final size:20
Alignment explanation
Indices: 13778786--13778832 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13778776 AATGTAAAAA
13778786 TTATAAA-ATATATAGAAAT
1 TTATAAAGATATATAGAAAT
* *
13778805 ATAGAAAGATATATA-AAATT
1 TTATAAAGATATATAGAAA-T
13778825 TTATAAAG
1 TTATAAAG
13778833 TCGTTAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (20 bp):
TTATAAAGATATATAGAAAT
Found at i:13779089 original size:19 final size:19
Alignment explanation
Indices: 13779061--13779097 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13779051 TTAAAGGGTC
13779061 TTTTTGATTCATTTTATAA
1 TTTTTGATTCATTTTATAA
* *
13779080 TTTTTTATTCTTTTTATA
1 TTTTTGATTCATTTTATA
13779098 CAATTTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTGATTCATTTTATAA
Found at i:13779108 original size:9 final size:9
Alignment explanation
Indices: 13779091--13779123 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
13779081 TTTTTATTCT
13779091 TTTTATACAA
1 TTTT-TACAA
13779101 TTTTTACAA
1 TTTTTACAA
13779110 TTTTTACAA
1 TTTTTACAA
13779119 TTTTT
1 TTTTT
13779124 TACGATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTACAA
Found at i:13779126 original size:10 final size:10
Alignment explanation
Indices: 13779090--13779131 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
13779080 TTTTTTATTC
13779090 TTTTTATACAA
1 TTTTT-TACAA
13779101 -TTTTTACAA
1 TTTTTTACAA
13779110 -TTTTTACAA
1 TTTTTTACAA
*
13779119 TTTTTTACGA
1 TTTTTTACAA
13779129 TTT
1 TTT
13779132 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:13779208 original size:19 final size:20
Alignment explanation
Indices: 13779154--13779191 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13779144 ATTTTTGGTA
*
13779154 AAATTTAAAT-ATTTTTATT
1 AAATTTTAATAATTTTTATT
13779173 AAATTTTAATAATTTTTAT
1 AAATTTTAATAATTTTTAT
13779192 AACTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTTTAATAATTTTTATT
Found at i:13779443 original size:89 final size:88
Alignment explanation
Indices: 13779348--13779565 Score: 233
Period size: 88 Copynumber: 2.5 Consensus size: 88
13779338 TGCATTTTGG
* * * *
13779348 AATTGAGTGGAAAAAAAATTAGGGGATTAATTGCTTTTTTTGAAAAACTTTAAGGGTC-TTTTTG
1 AATTGAGTGCAAAAAAAAGTA-GGGATTAATTGTTTTTTTTGAAAAACTTTAAGGG-CAATTTTG
* *
13779412 ATACATTTTGATAGTTTAAATACCC
64 ATACATTTTGAAAGTTCAAATACCC
* * * * * * **
13779437 AGTTGAGTTCAAAAAGAAGCAATGGCTTAATT-TTTTTTTTGAAAATGTTTAAGGGCAATTTTGA
1 AATTGAGTGCAAAAAAAAG-TAGGGATTAATTGTTTTTTTTGAAAAACTTTAAGGGCAATTTTGA
* *
13779501 TGCATTTTGAAAGTTCAAGTACCC
65 TACATTTTGAAAGTTCAAATACCC
*
13779525 AATTGAGTGCAAATAAAAGTAGGGACTTAATTGTTTTTTTT
1 AATTGAGTGCAAAAAAAAGTAGGGA-TTAATTGTTTTTTTT
13779566 TTTAAGTTTG
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
87 4 0.04
88 67 0.66
89 30 0.29
90 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (88 bp):
AATTGAGTGCAAAAAAAAGTAGGGATTAATTGTTTTTTTTGAAAAACTTTAAGGGCAATTTTGAT
ACATTTTGAAAGTTCAAATACCC
Found at i:13779674 original size:20 final size:19
Alignment explanation
Indices: 13779646--13779697 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
13779636 GAAAATTTTA
*
13779646 TAATT-TTTTTGAACT-TT
1 TAATTATTTTTGAAATCTT
*
13779663 TAAATTTATTTTTAAAATCTT
1 T-AA-TTATTTTTGAAATCTT
13779684 TAATTATTTTTGAA
1 TAATTATTTTTGAA
13779698 GCTTGTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 2 0.07
19 12 0.43
20 10 0.36
21 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
TAATTATTTTTGAAATCTT
Found at i:13780227 original size:58 final size:59
Alignment explanation
Indices: 13780134--13780303 Score: 188
Period size: 58 Copynumber: 2.9 Consensus size: 59
13780124 AATATCAAGG
**
13780134 ACTAACTTGGACAAAAAAAAGTTCAAGTCTCAATGTGAGAACAATTGTCAAGTTTAGGA
1 ACTAACTTGGACAAAAAAAAGTTCAACCCTCAATGTGAGAACAATTGTCAAGTTTAGGA
* * * *
13780193 ATTAACTTGGA-AAAAAAAAGTTTAGACCCT-AATGTGGGAACAATTGTCAAGTTTAGGG
1 ACTAACTTGGACAAAAAAAAGTTCA-ACCCTCAATGTGAGAACAATTGTCAAGTTTAGGA
* ** *
13780251 ACTAACTTAGACTCAAAAAA-TTCAAACCC-CAATATGAGAA-AACTTGTCAAGTT
1 ACTAACTTGGACAAAAAAAAGTTC-AACCCTCAATGTGAGAACAA-TTGTCAAGTT
13780304 GAAAACCCAA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
57 2 0.02
58 71 0.76
59 20 0.22
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (59 bp):
ACTAACTTGGACAAAAAAAAGTTCAACCCTCAATGTGAGAACAATTGTCAAGTTTAGGA
Found at i:13781795 original size:29 final size:29
Alignment explanation
Indices: 13781753--13781827 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
13781743 GATATTAGGA
*
13781753 ATTATCAAGCACTATGTGCTAGTGTTTAT
1 ATTATCAGGCACTATGTGCTAGTGTTTAT
13781782 ATTATCAGGCACTATGTGCTAGTGTTTAT
1 ATTATCAGGCACTATGTGCTAGTGTTTAT
* *
13781811 ATTATTAGGTACTATGT
1 ATTATCAGGCACTATGT
13781828 ACCAATACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (29 bp):
ATTATCAGGCACTATGTGCTAGTGTTTAT
Found at i:13785653 original size:12 final size:12
Alignment explanation
Indices: 13785636--13785666 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
13785626 ATGAAAAAAG
13785636 AAAAAATTGAGA
1 AAAAAATTGAGA
13785648 AAAAAATTGAGA
1 AAAAAATTGAGA
13785660 AACAAAA
1 AA-AAAA
13785667 AGAGAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.71, C:0.03, G:0.13, T:0.13
Consensus pattern (12 bp):
AAAAAATTGAGA
Found at i:13790159 original size:13 final size:13
Alignment explanation
Indices: 13790141--13790166 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13790131 GTTAAGTATC
13790141 ATTTTAAATCATA
1 ATTTTAAATCATA
13790154 ATTTTAAATCATA
1 ATTTTAAATCATA
13790167 TTTAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAATCATA
Found at i:13801738 original size:17 final size:18
Alignment explanation
Indices: 13801705--13801739 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13801695 GTGTGGTTCA
*
13801705 CCCGTGTGGGCCTACACG
1 CCCGTGTGGGCCCACACG
13801723 CCCGTGT-GGCCCACACG
1 CCCGTGTGGGCCCACACG
13801740 ATCCAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:13808582 original size:26 final size:28
Alignment explanation
Indices: 13808539--13808594 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
13808529 CATAATTTGG
*
13808539 TTTAACTAATTAGTTA-TTATTTTGTGA
1 TTTAACTAATTAGTTATTTATGTTGTGA
13808566 TTTAA-TAATTA-TCTATTTATGTTGTGA
1 TTTAACTAATTAGT-TATTTATGTTGTGA
13808593 TT
1 TT
13808595 GAGTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 1 0.04
26 8 0.31
27 17 0.65
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.57
Consensus pattern (28 bp):
TTTAACTAATTAGTTATTTATGTTGTGA
Found at i:13814055 original size:28 final size:27
Alignment explanation
Indices: 13814021--13814118 Score: 153
Period size: 28 Copynumber: 3.6 Consensus size: 27
13814011 GTACAATGTG
13814021 GGCCTTAGCCCAATACAGTAA-CAGTGT
1 GGCCTTAGCCCAATACAG-AATCAGTGT
*
13814048 AAGCCTTAGCCCAATACAGAATCAGTGT
1 -GGCCTTAGCCCAATACAGAATCAGTGT
13814076 GGGCCTTAGCCCAATACAGAATCAGTGT
1 -GGCCTTAGCCCAATACAGAATCAGTGT
13814104 GGCCTTAGCCCAATA
1 GGCCTTAGCCCAATA
13814119 TAGTAACAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 17 0.26
28 49 0.74
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (27 bp):
GGCCTTAGCCCAATACAGAATCAGTGT
Found at i:13814536 original size:27 final size:27
Alignment explanation
Indices: 13814488--13814850 Score: 304
Period size: 27 Copynumber: 13.4 Consensus size: 27
13814478 AAGGCCATAA
**
13814488 CAGTCATTTTATCTCCTA--GGGGTATAA
1 CAGTCATTTTA-C-CCTATGGGGGTATTT
*
13814515 CACTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
13814542 CGGTCATTTTACCCTATCGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * * *
13814569 TGGTCATTCTACCTTATGGGGGAATCT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
13814596 CAGTCATTTTACCCTATGCGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** *
13814623 TGGTCATTTTACCCTATGAGGGTA-TT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
13814649 CCGATCATTGTACCCTATGAGGGAATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
**
13814677 CAGTCATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
13814704 CAATCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
13814731 CGGTCATTTTACCCTATAGAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
13814758 CTA-TTATTTTATCTTATGGGGGTATTT
1 C-AGTCATTTTACCCTATGGGGGTATTT
* ** *
13814785 CAGTCATTTTATCCTATAAGGGTGTTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* **
13814812 C-GATCATTCTACCCTATAAGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
**
13814839 TGGTCATTTTAC
1 CAGTCATTTTAC
13814851 TCGATGGAGT
Statistics
Matches: 277, Mismatches: 51, Indels: 16
0.81 0.15 0.05
Matches are distributed among these distances:
25 4 0.01
26 6 0.02
27 262 0.95
28 5 0.02
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:13814576 original size:54 final size:53
Alignment explanation
Indices: 13814518--13814850 Score: 337
Period size: 54 Copynumber: 6.2 Consensus size: 53
13814508 GGTATAACAC
** * *
13814518 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATCGGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
* * ** * * *
13814572 TCATTCTACCTTATGGGGGAATCTC-AGTCATTTTACCCTATGCGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGA-TCATTTTACCCTATG-GGGTATTTCGG
* * * * *
13814626 TCATTTTACCCTATGAGGGTATTCCGATCATTGTACCCTATGAGGGAATTTCAG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATG-GGGTATTTCGG
*
13814680 TCATTTTACCCTATAAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
* * * * *
13814734 TCATTTTACCCTAT-AGAGGTATTTCTATTATTTTATCTTATGGGGGTATTTCAG
1 TCATTTTACCCTATAAG-GGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
* * * * *
13814788 TCATTTTATCCTATAAGGGTGTTTCGATCATTCTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTCGG
13814842 TCATTTTAC
1 TCATTTTAC
13814851 TCGATGGAGT
Statistics
Matches: 233, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.01
54 226 0.97
55 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGG
Found at i:13814836 original size:81 final size:81
Alignment explanation
Indices: 13814518--13814850 Score: 364
Period size: 81 Copynumber: 4.1 Consensus size: 81
13814508 GGTATAACAC
* ** * * *
13814518 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATCGGGGTATTTTGGTCATTCTACCT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
* *
13814583 TATGGGGGAATCTCAG
66 TATGAGGGAATTTCAG
* ** * * *
13814599 TCATTTTACCCTATGCGGGTATTTTGGTCATTTTACCCTATGAGGGTATTCCGATCATTGTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
13814664 TATGAGGGAATTTCAG
66 TATGAGGGAATTTCAG
** * * * *
13814680 TCATTTTACCCTATAAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
*
13814745 TAT-AGAGGTATTTCTA-
66 TATGAG-GGAATTTC-AG
* * * * *
13814761 TTATTTTATCTTATGGGGGTATTTCAGTCATTTTATCCTATAAGGGTGTTTCGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
* * **
13814826 TATAAGGGTATTTTGG
66 TATGAGGGAATTTCAG
13814842 TCATTTTAC
1 TCATTTTAC
13814851 TCGATGGAGT
Statistics
Matches: 211, Mismatches: 37, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 206 0.98
82 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATCATTCTACCC
TATGAGGGAATTTCAG
Found at i:13817355 original size:28 final size:28
Alignment explanation
Indices: 13817312--13817398 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
13817302 CAGCAACAGT
*
13817312 ACAGTGTGGGCTTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
13817340 ACAGTGTGGGCCTTAGCCCAATACAA-A
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
13817367 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAATA
13817396 ACA
1 ACA
13817399 ATGTAGTGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.04
28 51 0.93
29 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:13817527 original size:23 final size:25
Alignment explanation
Indices: 13817503--13817551 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
13817493 AACACACCAA
*
13817503 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAACAAAGCTGCCAGTAA-AG
*
13817529 TATCGCAACAAAGCTGCTAGTAA
1 TATCGCAACAAAGCTGCCAGTAA
13817552 CAATATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (25 bp):
TATCGCAACAAAGCTGCCAGTAAAG
Found at i:13817978 original size:134 final size:134
Alignment explanation
Indices: 13817791--13818117 Score: 394
Period size: 134 Copynumber: 2.4 Consensus size: 134
13817781 GGGTATAACA
** * * *
13817791 GTCATTTTACCCTATAGAAGTATTTCAGTCATTTTA-CCTAATAGGGGTATTTCGGTCATTCTAC
1 GTCATTTTACCCTAT-GGGGTATTTCTGTAATTTTACCCT-ATGGGGGTATTTCGGTCATTCTAC
13817855 CCAATGGGGGTATTTCGGTCATTTCATCC-TATGG-GGGTATCTCAGTCATTCTACCCTATAAGG
64 CCAATGGGGGTATTTCGGTCATTTCA-CCATA-GGAGGGTATCTCAGTCATTCTACCCTAT-AGG
13817918 -GTATTTCG
126 AGTATTTCG
* *
13817926 GTCATTTTATCCTATGGGGTATTTC-GATAATTTTACCCTATGGGGGTATTTCGGTCATTCTATC
1 GTCATTTTACCCTATGGGGTATTTCTG-TAATTTTACCCTATGGGGGTATTTCGGTCATTCTACC
** * * * * * * *
13817990 CTGTGGGGGTATTTTGGTCATTTTACCATAGGAGGGTATTTCAGTCATTTTATCCTATGGGAGTG
65 CAATGGGGGTATTTCGGTCATTTCACCATAGGAGGGTATCTCAGTCATTCTACCCTATAGGAGTA
13818055 TTTCG
130 TTTCG
* * *
13818060 GTCATTTTACCCTATGGGGTATTTCTGTCATTTTACCCTATGGAGGTATTTTGGTCAT
1 GTCATTTTACCCTATGGGGTATTTCTGTAATTTTACCCTATGGGGGTATTTCGGTCAT
13818118 AATAGTGTAA
Statistics
Matches: 167, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
133 7 0.04
134 142 0.85
135 18 0.11
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (134 bp):
GTCATTTTACCCTATGGGGTATTTCTGTAATTTTACCCTATGGGGGTATTTCGGTCATTCTACCC
AATGGGGGTATTTCGGTCATTTCACCATAGGAGGGTATCTCAGTCATTCTACCCTATAGGAGTAT
TTCG
Found at i:13818109 original size:107 final size:107
Alignment explanation
Indices: 13817810--13818117 Score: 404
Period size: 107 Copynumber: 2.9 Consensus size: 107
13817800 CCCTATAGAA
* *
13817810 GTATTTCAGTCATTTTA-CCTAATAGGGGTATTTCGGTCATTCTACCCAATGGGGGTATTTCGGT
1 GTATTTCAGTCATTTTATCCT-AT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGT
* * ** * *
13817874 CATTTCATCCTATGGGGGTATCTCAGTCATTCTACCCTATAAGG
64 CATTTTATCCTATGGGGGTATTTTGGTCATTCTACCATAGAAGG
* * *
13817918 GTATTTCGGTCATTTTATCCTATGGGGTATTTCGATAATTTTACCCTATGGGGGTATTTCGGTCA
1 GTATTTCAGTCATTTTATCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCA
* * * *
13817983 TTCTATCCTGTGGGGGTATTTTGGTCATTTTACCATAGGAGG
66 TTTTATCCTATGGGGGTATTTTGGTCATTCTACCATAGAAGG
* *
13818025 GTATTTCAGTCATTTTATCCTATGGGAGTGTTTCGGTCATTTTACCCTAT-GGGGTATTTCTGTC
1 GTATTTCAGTCATTTTATCCTATGGG-GTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTC
* *
13818089 ATTTTACCCTATGGAGGTATTTTGGTCAT
65 ATTTTATCCTATGGGGGTATTTTGGTCAT
13818118 AATAGTGTAA
Statistics
Matches: 174, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
107 133 0.76
108 38 0.22
109 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (107 bp):
GTATTTCAGTCATTTTATCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCA
TTTTATCCTATGGGGGTATTTTGGTCATTCTACCATAGAAGG
Found at i:13818116 original size:27 final size:26
Alignment explanation
Indices: 13817791--13818117 Score: 323
Period size: 27 Copynumber: 12.2 Consensus size: 26
13817781 GGGTATAACA
** *
13817791 GTCATTTTACCCTATAGAAGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
13817818 GTCATTTTA-CCTAATAGGGGTATTTCG
1 GTCATTTTACCCT-AT-GGGGTATTTCG
* *
13817845 GTCATTCTACCCAATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * *
13817872 GTCATTTCATCCTATGGGGGTATCTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
13817899 GTCATTCTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
13817926 GTCATTTTATCCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
* *
13817952 ATAATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * *
13817979 GTCATTCTATCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
13818006 GTCATTTTACCATAGGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
13818033 GTCATTTTATCCTATGGGAGTGTTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
*
13818060 GTCATTTTACCCTATGGGGTATTTCT
1 GTCATTTTACCCTATGGGGTATTTCG
*
13818086 GTCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGG-GGTATTTCG
13818113 GTCAT
1 GTCAT
13818118 AATAGTGTAA
Statistics
Matches: 246, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
26 51 0.21
27 193 0.78
28 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:13825469 original size:26 final size:26
Alignment explanation
Indices: 13825439--13825489 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
13825429 TGGAGAACCA
13825439 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
13825465 TTAATCAGGAAGCTCACAAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
13825490 ATATAATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:13825506 original size:26 final size:26
Alignment explanation
Indices: 13825440--13825496 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
13825430 GGAGAACCAT
*
13825440 TAATCAGGAAGCTCACAAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAGCCTA
13825466 TAATCAGGAAGCTCACAAAGAGCCATA
1 TAATCAGGAAGCTCACAAAGAGCC-TA
13825493 TAAT
1 TAAT
13825497 GGGACGCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAGCCTA
Found at i:13826533 original size:16 final size:13
Alignment explanation
Indices: 13826499--13826526 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13826489 TTTTATTTTA
13826499 TTATTTATCATCT
1 TTATTTATCATCT
13826512 TTATTTATCATCT
1 TTATTTATCATCT
13826525 TT
1 TT
13826527 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:13834929 original size:18 final size:18
Alignment explanation
Indices: 13834902--13834943 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13834892 TTTTCAAGTT
*
13834902 GGTTATGTTAAAGGTTTC
1 GGTTACGTTAAAGGTTTC
13834920 GGTTACGTTAAAGGTTTC
1 GGTTACGTTAAAGGTTTC
*
13834938 AGTTAC
1 GGTTAC
13834944 ATGAGAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (18 bp):
GGTTACGTTAAAGGTTTC
Done.