Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 60 of 318
Found at i:17274140 original size:30 final size:30
Alignment explanation
Indices: 17274106--17274166 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17274096 TCCTTAACTC
*
17274106 AAACTTTGGCAAAATTATAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
17274136 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
17274166 A
1 A
17274167 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:17282336 original size:49 final size:49
Alignment explanation
Indices: 17282276--17282435 Score: 288
Period size: 49 Copynumber: 3.3 Consensus size: 49
17282266 GTATGAGATA
*
17282276 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
17282325 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
17282374 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
17282421 TATAAATGTGATAAG
1 TATATATGTGATAAG
17282436 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.16
49 92 0.84
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:17284168 original size:39 final size:39
Alignment explanation
Indices: 17284114--17284191 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
17284104 GTAAATAAAG
17284114 TGTTAGTAACATCCTAATCAAAATAATAGTTGAAAAAAA
1 TGTTAGTAACATCCTAATCAAAATAATAGTTGAAAAAAA
17284153 TGTTAGTAACATCCTAATCAAAATAATAGTTGAAAAAAA
1 TGTTAGTAACATCCTAATCAAAATAATAGTTGAAAAAAA
17284192 GTCATGAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (39 bp):
TGTTAGTAACATCCTAATCAAAATAATAGTTGAAAAAAA
Found at i:17285287 original size:14 final size:15
Alignment explanation
Indices: 17285248--17285288 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
17285238 TGTGAGAATG
17285248 ATGAATTGTTGACAT
1 ATGAATTGTTGACAT
* *
17285263 GTGAATGGTTGAC-T
1 ATGAATTGTTGACAT
17285277 ATGAATTGTTGA
1 ATGAATTGTTGA
17285289 ATTGAGGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39
Consensus pattern (15 bp):
ATGAATTGTTGACAT
Found at i:17298618 original size:12 final size:13
Alignment explanation
Indices: 17298601--17298632 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17298591 AGCTCAACTA
17298601 TATTAAAAAA-AT
1 TATTAAAAAATAT
17298613 TATTAAAAAATAT
1 TATTAAAAAATAT
17298626 T-TTAAAA
1 TATTAAAA
17298633 TACTTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAAAAAATAT
Found at i:17303399 original size:43 final size:43
Alignment explanation
Indices: 17303344--17303471 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
17303334 ATAATGTACA
*
17303344 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
17303387 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATTACATATACG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACACGAATCACATAT-CG
* * *
17303430 ATGCCGA-TGTCCCAGACATGGTCTTACACACAATCACATATC
1 ATGCCAACTGTCCCAGACGTGGTCTTACAC-GAATCACATATC
17303472 ATAAATCCTA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
42 11 0.15
43 52 0.70
44 11 0.15
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:17308556 original size:40 final size:39
Alignment explanation
Indices: 17308499--17308683 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
17308489 ATTAAATGAT
* * *
17308499 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
17308539 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
17308579 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
17308619 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
17308659 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
17308684 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:17308635 original size:80 final size:80
Alignment explanation
Indices: 17308498--17308704 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
17308488 AATTAAATGA
* * ** * *
17308498 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
17308563 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
17308576 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
17308641 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
17308658 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
17308705 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:17308689 original size:40 final size:39
Alignment explanation
Indices: 17308497--17308704 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
17308487 CAATTAAATG
* * ** *
17308497 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
17308537 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
17308577 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
17308617 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
17308657 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
17308697 ATATCCGG
1 ATATCCGG
17308705 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:17311429 original size:2 final size:2
Alignment explanation
Indices: 17311422--17311446 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17311412 AAGAGAATTA
17311422 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17311447 AAGATCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17313130 original size:86 final size:87
Alignment explanation
Indices: 17312881--17313576 Score: 1017
Period size: 86 Copynumber: 8.0 Consensus size: 87
17312871 ATTTCCAGCT
* * *
17312881 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCCGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
17312946 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
*
17312968 TGTTTCCCTACTGCTTGGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
17313033 TTAAGGCCCTTCGCCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* *
17313055 TGTTTCCCTACTGCTT-GGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGAG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
17313119 TTAAGGCCCTTCGTATTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
*
17313141 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
17313206 TTAAGGCCCTTCGTATTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
17313228 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
17313293 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * * * *
17313315 TGTTTCCCTACTTCTTAGGGAGATAAGATCTGT-AATTCAACCTGTTACCCTACTGCTTAGGGGT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
**
17313379 TTAAGGTTCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * * * * *
17313401 TG-CTCCACTACTACTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* **
17313464 TTTAAGGTTCTTCGTCTTCGATC
65 GTTAAGGCCCTTCGTCTTCGATC
* * * * * * *
17313487 TG-CTCTACTACTGCTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCTACTGCTTAGGGG
1 TGTTTC-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* *
17313550 TTTAAGACCCTTCGTCTTCGATC
65 GTTAAGGCCCTTCGTCTTCGATC
17313573 TGTT
1 TGTT
17313577 ACACCATTCT
Statistics
Matches: 574, Mismatches: 30, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
85 3 0.01
86 289 0.50
87 282 0.49
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (87 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTCTTCGATC
Found at i:17313361 original size:260 final size:260
Alignment explanation
Indices: 17312881--17313576 Score: 1026
Period size: 260 Copynumber: 2.7 Consensus size: 260
17312871 ATTTCCAGCT
* *
17312881 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCCGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
17312946 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTGGGGGGTTAAGATCTGTAAATTCAGCC
66 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCC
* *
17313011 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCGATCTGTTTCCCTACTGCTTGGGGG
131 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTGGGAG
* * *
17313076 TTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGAG-TTAAGGCCCTTCGTATTCGAT
196 ATAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGG-GTTTAAGGCCCTTCGTATTCGAT
17313140 C
260 C
* *
17313141 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
17313206 TTAAGGCCCTTCGTATTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCC
66 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCC
*
17313271 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTTCTTAGGGA
131 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTT-GGGA
** *
17313336 GATAAGATCTGT-AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGAT
195 GATAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTATTCGAT
17313400 C
260 C
* * * * *
17313401 TG-CTCCACTACTACTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTTCC-CTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* ** * * * * * *
17313464 TTTAAGGTTCTTCGTCTTCGATCTG-CTCTACTACTGCTTAGGGAGATAAGATCTG-CAATTCGG
65 GTTAAGGCCCTTCGTCTTCGATCTGTTTC-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * *
17313527 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTT
129 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTT
17313577 ACACCATTCT
Statistics
Matches: 397, Mismatches: 35, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
258 55 0.14
259 76 0.19
260 252 0.63
261 14 0.04
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (260 bp):
TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCC
TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTGGGAG
ATAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTATTCGATC
Found at i:17319998 original size:35 final size:34
Alignment explanation
Indices: 17319948--17320017 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 34
17319938 CAATGGAGTT
17319948 TTTACCTCGAGACATCTATCTTAGTTTTCTTTCC
1 TTTACCTCGAGACATCTATCTTAGTTTTCTTTCC
17319982 TTTACCTCTGAGACATCTATCTTAGTTTTCTTTCC
1 TTTACCTC-GAGACATCTATCTTAGTTTTCTTTCC
17320017 T
1 T
17320018 CCACTTTCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.17, C:0.26, G:0.09, T:0.49
Consensus pattern (34 bp):
TTTACCTCGAGACATCTATCTTAGTTTTCTTTCC
Found at i:17325705 original size:49 final size:48
Alignment explanation
Indices: 17325652--17325748 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
17325642 ATAAAGAGGG
* * *
17325652 TTTAAAATAAATAATATATAAAATAGTTT-AACTACATAATGTATTTAAA
1 TTTAAAATAAATAATATAT-AAA-AGTTTAAAATAAATAATGTATATAAA
* *
17325701 TTTAAGATAAATAATATGTAAAAGTTTAAAATAAATAATGTATATAAA
1 TTTAAAATAAATAATATATAAAAGTTTAAAATAAATAATGTATATAAA
17325749 AAGAAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 5 0.12
48 20 0.48
49 17 0.40
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (48 bp):
TTTAAAATAAATAATATATAAAAGTTTAAAATAAATAATGTATATAAA
Found at i:17325715 original size:24 final size:25
Alignment explanation
Indices: 17325651--17325748 Score: 78
Period size: 24 Copynumber: 4.0 Consensus size: 25
17325641 AATAAAGAGG
* **
17325651 GTTTAAAATAAATAATATATAAAATA
1 GTTTAAAATAAATAATGTATTTAA-A
* *
17325677 GTTT-AACTACATAATGTATTTAAA
1 GTTTAAAATAAATAATGTATTTAAA
* *
17325701 -TTTAAGATAAATAA--TATGTAAAA
1 GTTTAAAATAAATAATGTAT-TTAAA
*
17325724 GTTTAAAATAAATAATGTATATAAA
1 GTTTAAAATAAATAATGTATTTAAA
17325749 AAGAAAATCA
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
22 3 0.05
23 7 0.13
24 21 0.38
25 17 0.31
26 7 0.13
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (25 bp):
GTTTAAAATAAATAATGTATTTAAA
Found at i:17325932 original size:2 final size:2
Alignment explanation
Indices: 17325925--17325993 Score: 77
Period size: 2 Copynumber: 34.5 Consensus size: 2
17325915 AAGAGAATTA
* * * * *
17325925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AG AT CT AA AGC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
17325968 A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17325994 ATTGTTTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:17326391 original size:19 final size:19
Alignment explanation
Indices: 17326365--17326403 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
17326355 TTAAGGCCAA
17326365 TTTTCATT-TTTTTTATTT
1 TTTTCATTCTTTTTTATTT
17326383 TTTTGCATTCTTTTTTATTT
1 TTTT-CATTCTTTTTTATTT
17326403 T
1 T
17326404 AGAAAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 11 0.58
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTCATTCTTTTTTATTT
Found at i:17329355 original size:31 final size:32
Alignment explanation
Indices: 17329319--17329379 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
17329309 TTTAAGGTCT
* *
17329319 TTAGCGATGCTTTT-AAGCGCCGCTAAAACTA
1 TTAGCGACGCTTTTAAAGCGCCGCAAAAACTA
*
17329350 TTAGCGGCGCTTTTACAAGCGCCGCAAAAA
1 TTAGCGACGCTTTTA-AAGCGCCGCAAAAA
17329380 AAGCCTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 12 0.48
33 13 0.52
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (32 bp):
TTAGCGACGCTTTTAAAGCGCCGCAAAAACTA
Found at i:17329477 original size:43 final size:41
Alignment explanation
Indices: 17329418--17329575 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 41
17329408 TTGCGGCACT
*
17329418 TTTTCCACAAACGCCGCTAAAGATCATGACCTTTAGTGACGC
1 TTTTCCACAAACGCCGCTAAAGATCATGACCTTTAGTG-TGC
* * *
17329460 TTTTTCCACAAACGCCGCTAAAAATCAAGACCTATAGCTGTGC
1 -TTTTCCACAAACGCCGCTAAAGATCATGACCTTTAG-TGTGC
* *
17329503 TTTTCCTACAAACGCCGCTAAAGATCACGACCTTTAGCGGTGC
1 TTTTCC-ACAAACGCCGCTAAAGATCATGACCTTTAG-TGTGC
*
17329546 TTTTCTCAAAAACGCCGCTAAA-AGTCATGA
1 TTTTC-CACAAACGCCGCTAAAGA-TCATGA
17329576 AATTCAAAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
42 7 0.07
43 91 0.90
44 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
TTTTCCACAAACGCCGCTAAAGATCATGACCTTTAGTGTGC
Found at i:17333780 original size:19 final size:19
Alignment explanation
Indices: 17333753--17333797 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
17333743 CTAATCTCTA
*
17333753 TTTTATATTTTATTTTTAT
1 TTTTATATTTCATTTTTAT
*
17333772 TTTTGTATTTCATTTTTAT
1 TTTTATATTTCATTTTTAT
17333791 TTGTTAT
1 TT-TTAT
17333798 CAATGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTATATTTCATTTTTAT
Found at i:17334116 original size:22 final size:21
Alignment explanation
Indices: 17334091--17334186 Score: 61
Period size: 22 Copynumber: 4.4 Consensus size: 21
17334081 CACTAATTAA
17334091 TCTAAACCCTTAATCCCTAAAC
1 TCTAAACCCTTAA-CCCTAAAC
* * * *
17334113 TCTAAACTCTAAAATCCTAAAA
1 TCTAAACCCT-TAACCCTAAAC
* *
17334135 TATAAACCATTAACCC-ATAAC
1 TCTAAACCCTTAACCCTA-AAC
*
17334156 -CCATAACCCTTAACCCTTAAAC
1 TCTA-AACCCTTAACCC-TAAAC
*
17334178 TTTAAACCC
1 TCTAAACCC
17334187 GTTGCCTTAA
Statistics
Matches: 53, Mismatches: 15, Indels: 12
0.66 0.19 0.15
Matches are distributed among these distances:
20 2 0.04
21 17 0.32
22 30 0.57
23 4 0.08
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (21 bp):
TCTAAACCCTTAACCCTAAAC
Found at i:17334477 original size:49 final size:49
Alignment explanation
Indices: 17334385--17334478 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 49
17334375 CTAAACCCTA
* **
17334385 AACTCTTAATCCTTAATCCCTAGACCCTAAATTATAAATCCTAAAATAT
1 AACTCTTAATCCTTAACCCCTAGACCCTAAACCATAAATCCTAAAATAT
17334434 AACTCTTAATCC-TAGACCCCTA-ACCCTTAAACCAT-AATCCCTAAA
1 AACTCTTAATCCTTA-ACCCCTAGACCC-TAAACCATAAAT-CCTAAA
17334479 CCCATAATCC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
48 9 0.23
49 30 0.77
ACGTcount: A:0.39, C:0.30, G:0.02, T:0.29
Consensus pattern (49 bp):
AACTCTTAATCCTTAACCCCTAGACCCTAAACCATAAATCCTAAAATAT
Found at i:17334483 original size:15 final size:15
Alignment explanation
Indices: 17334440--17334493 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
17334430 ATATAACTCT
* *
17334440 TAAT-CCTAGACCCC
1 TAATCCCTAAACCCA
17334454 TAA-CCCTTAAA-CCA
1 TAATCCC-TAAACCCA
17334468 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
17334483 TAATCCATAAA
1 TAATCCCTAAA
17334494 ACTTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:17334490 original size:22 final size:21
Alignment explanation
Indices: 17334451--17334492 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17334441 AATCCTAGAC
*
17334451 CCCTAACCCTTAAACCATAAT
1 CCCTAACCCATAAACCATAAT
*
17334472 CCCTAAACCCATAATCCATAA
1 CCCT-AACCCATAAACCATAA
17334493 AACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCATAAACCATAAT
Found at i:17334852 original size:40 final size:40
Alignment explanation
Indices: 17334797--17334891 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
17334787 GTTATATGAC
* * * * *
17334797 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTTCTCTAT
1 TTTTAGCGACGTTTTACCAAAAACGCCACTATTGCTCTAT
* *
17334837 TTTTAGCGATGTTTTACCAAAAACGCCACTATTGCTCTGT
1 TTTTAGCGACGTTTTACCAAAAACGCCACTATTGCTCTAT
* *
17334877 TTTTAGAGGCGTTTT
1 TTTTAGCGACGTTTT
17334892 TGGTAAAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (40 bp):
TTTTAGCGACGTTTTACCAAAAACGCCACTATTGCTCTAT
Found at i:17334911 original size:12 final size:12
Alignment explanation
Indices: 17334896--17334921 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17334886 CGTTTTTGGT
17334896 AAAATGCCGCTA
1 AAAATGCCGCTA
17334908 AAAATGCCGCTA
1 AAAATGCCGCTA
17334920 AA
1 AA
17334922 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAATGCCGCTA
Found at i:17335928 original size:46 final size:46
Alignment explanation
Indices: 17335790--17335961 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
17335780 AGGTTATTGT
* * *
17335790 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCAC-ATTATC-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GA-CGA
* * *
17335836 GAGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* *
17335884 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * *
17335931 -AGCCAATGTAAGACATGTCTGGGATATGCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
17335962 AGACTACGAG
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 54 0.51
47 29 0.28
48 21 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:17335972 original size:46 final size:44
Alignment explanation
Indices: 17335891--17336008 Score: 112
Period size: 46 Copynumber: 2.6 Consensus size: 44
17335881 CGAGTGCTAG
* * * *
17335891 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAAGCCAA
1 TGTAAGACATGTCTGGGATATGCATCAGACTCGAGACGT--GCCAA
* * *
17335937 TGTAAGACATGTCTGGGATATGCAT-AGACTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGATATGCATCAGACT-CGAGACGTGCCAA
*
17335981 TGCAAGACCATGTCTGGGATATGGCATC
1 TGTAAGA-CATGTCTGGGATAT-GCATC
17336009 GGCACAGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 9 0.15
45 17 0.28
46 34 0.57
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGATATGCATCAGACTCGAGACGTGCCAA
Found at i:17343396 original size:79 final size:80
Alignment explanation
Indices: 17343220--17343401 Score: 276
Period size: 79 Copynumber: 2.3 Consensus size: 80
17343210 TAGTGATTAT
*
17343220 ATCCGAGCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
* *** *
17343285 CGTGCGAGTTGTTAT
66 CGTGCAAGTTACCAA
*
17343300 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCC-GGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
*
17343364 TGTGCAAGTTACCAA
66 CGTGCAAGTTACCAA
*
17343379 ATCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
17343402 ATTGTGCTTG
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 51 0.55
80 42 0.45
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTACCAA
Found at i:17343408 original size:40 final size:40
Alignment explanation
Indices: 17343183--17343401 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
17343173 GAATGGTACT
* * ** *
17343183 CGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
* *
17343223 CGAGCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
17343263 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
17343303 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* * *** *
17343343 C-GGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
*
17343382 CGGGTTAAGACCCGAAGGCA
1 CGGGCTAAGACCCGAAGGCA
17343402 ATTGTGCTTG
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.20
40 126 0.78
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
Found at i:17343418 original size:79 final size:79
Alignment explanation
Indices: 17343220--17343428 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 79
17343210 TAGTGATTAT
* * **
17343220 ATCCGAGCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGCGGTTATATCC-GGCTAAGACCCGAAGGCATT
* *** *
17343285 CGTGCGAGTTGTTAT
65 CGTGCAAGTTACCAA
** *
17343300 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGCTAAGACCCGAAGGCATTT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGCGGTTATATCCGGCTAAGACCCGAAGGCATTC
17343365 GTGCAAGTTACCAA
66 GTGCAAGTTACCAA
* ** *
17343379 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTTGCGGTTATATCTGGCTAA
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGCGGTTATATCCGGCTAA
17343429 ATTCTGAAGA
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 69 0.61
80 45 0.39
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGCGGTTATATCCGGCTAAGACCCGAAGGCATTC
GTGCAAGTTACCAA
Found at i:17346290 original size:27 final size:28
Alignment explanation
Indices: 17346260--17346329 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
17346250 ATAGTGAATC
*
17346260 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
17346287 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
17346315 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17346330 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:17346401 original size:42 final size:42
Alignment explanation
Indices: 17346337--17346443 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
17346327 GCTGTACAAT
* *
17346337 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
17346379 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
17346421 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
17346444 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:17359148 original size:15 final size:15
Alignment explanation
Indices: 17359123--17359165 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
17359113 AAAACAAAAT
*
17359123 AAAGAAGTCCAAGAC
1 AAAGAAATCCAAGAC
* *
17359138 AGAGAAATCCAAGAT
1 AAAGAAATCCAAGAC
17359153 AAAGAAACTCCAA
1 AAAGAAA-TCCAA
17359166 AATTCAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (15 bp):
AAAGAAATCCAAGAC
Found at i:17362013 original size:28 final size:28
Alignment explanation
Indices: 17361981--17362049 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
17361971 GCGTAGATCA
17361981 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
17362009 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
17362037 CGATA-TACCCCTA
1 CGAAATTACCCCTA
17362050 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:17368349 original size:20 final size:20
Alignment explanation
Indices: 17368324--17368361 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17368314 GTTTATTCGC
*
17368324 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
17368344 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
17368362 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:17370022 original size:28 final size:28
Alignment explanation
Indices: 17369990--17370058 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
17369980 GCGTAGATCA
17369990 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
17370018 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
17370046 CGATA-TACCCCTA
1 CGAAATTACCCCTA
17370059 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:17372622 original size:12 final size:12
Alignment explanation
Indices: 17372601--17372627 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17372591 GTTTATAAAA
17372601 CAAATTATATAT
1 CAAATTATATAT
17372613 CAAATTATATAT
1 CAAATTATATAT
17372625 CAA
1 CAA
17372628 TAATAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (12 bp):
CAAATTATATAT
Found at i:17374675 original size:2 final size:2
Alignment explanation
Indices: 17374668--17374715 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
17374658 AGACATTCGA
* *
17374668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT -T AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17374709 AT AT AT A
1 AT AT AT A
17374716 GTTAAATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17375446 original size:40 final size:40
Alignment explanation
Indices: 17375391--17375617 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
17375381 TAATTGAGGA
* *
17375391 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
17375431 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
17375471 TTATATCCAGGTTAAGTCCTGAAGGCATTCGTG-TGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
17375510 TTATATCTGGGCTAAGTCCTGAAGGAATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * *
17375550 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
17375589 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
17375618 TGTGTTTGGA
Statistics
Matches: 167, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 63 0.38
40 104 0.62
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:17375544 original size:79 final size:78
Alignment explanation
Indices: 17375391--17375613 Score: 295
Period size: 79 Copynumber: 2.8 Consensus size: 78
17375381 TAATTGAGGA
* *
17375391 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTGTTATATCCGGGTTAAGTCCCGAAGG
1 TTATATCCGGGTTAAGT-CCGAAGGCATTCGTG-TGGTTGTTATATCCGGGCTAAGTCCCGAAGG
* *
17375456 CATTTGTGCTGGTTG
64 AATTCGTGCTGGTTG
* * *
17375471 TTATATCCAGGTTAAGTCCTGAAGGCATTCGTGTGGTTGTTATATCTGGGCTAAGTCCTGAAGGA
1 TTATATCCGGGTTAAGTCC-GAAGGCATTCGTGTGGTTGTTATATCCGGGCTAAGTCCCGAAGGA
17375536 ATTCGTGCTGGTTG
65 ATTCGTGCTGGTTG
** * *
17375550 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACTGG-TGTTATATCCGGGCTAAGTCCCGAAGG
1 TTATATCCGGGTTAAG-TCCGAAGGCATTCGT-GTGGTTGTTATATCCGGGCTAAGTCCCGAAGG
17375614 CATTTGTGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
79 92 0.73
80 34 0.27
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (78 bp):
TTATATCCGGGTTAAGTCCGAAGGCATTCGTGTGGTTGTTATATCCGGGCTAAGTCCCGAAGGAA
TTCGTGCTGGTTG
Found at i:17383323 original size:40 final size:40
Alignment explanation
Indices: 17383268--17383455 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
17383258 TAATTGAGGA
*
17383268 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
17383308 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
17383348 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** ** * * *
17383388 TTATATCCGGGCCAAGTTTCTAAGGCACTCGTACTGG-TG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
17383427 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGTTAAGTCCCGAAGGCATT
17383456 TGTGTTTGGA
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 26 0.19
40 109 0.81
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:17384938 original size:56 final size:55
Alignment explanation
Indices: 17384838--17385002 Score: 246
Period size: 56 Copynumber: 3.0 Consensus size: 55
17384828 TTACATGTAA
*
17384838 TCACATATCGATGCC-ACTATCCAAACAG-GGTCTTACTCGCACACATATATCTG-AG
1 TCACATATCGATGCCAACTAT-AAAAC-GTGGTCTTACTCGCACACATATATC-GAAG
*
17384893 TCACATATCGATGCCAACATATAAAACGTGGTCTTAATCGCACACATATATCGAAG
1 TCACATATCGATGCCAAC-TATAAAACGTGGTCTTACTCGCACACATATATCGAAG
17384949 TCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCACACATATATCGA
1 TCACATATCGATGCCAAC-TATAAAACGTGGTCTTACTCGCACACATATATCGA
17385003 TGCCATGGTC
Statistics
Matches: 102, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
55 17 0.17
56 82 0.80
57 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (55 bp):
TCACATATCGATGCCAACTATAAAACGTGGTCTTACTCGCACACATATATCGAAG
Found at i:17386151 original size:14 final size:15
Alignment explanation
Indices: 17386134--17386162 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17386124 GCACGAAAAT
17386134 TTCACACA-AATAAA
1 TTCACACATAATAAA
17386148 TTCACACATAATAAA
1 TTCACACATAATAAA
17386163 CATGTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:17389930 original size:47 final size:47
Alignment explanation
Indices: 17389852--17390105 Score: 355
Period size: 47 Copynumber: 5.3 Consensus size: 47
17389842 CCCTTCGGGA
* * * * * * *
17389852 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
17389899 CCTATCACATATATACACTTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17389946 CTTATCACATATATACACCTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17389993 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
17390042 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
17390091 CTTATCACATATATA
1 CTTATCACATATATA
17390106 TATCTCATAC
Statistics
Matches: 190, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 96 0.51
49 94 0.49
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17390026 original size:49 final size:49
Alignment explanation
Indices: 17389852--17390105 Score: 358
Period size: 49 Copynumber: 5.3 Consensus size: 49
17389842 CCCTTCGGGA
* * * * * * *
17389852 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
17389899 CCTATCACATATAT--ACACTTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
17389946 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
17389993 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
17390042 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
17390091 CTTATCACATATATA
1 CTTATCACATATATA
17390106 TATCTCATAC
Statistics
Matches: 189, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
47 92 0.49
48 3 0.02
49 94 0.50
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17404480 original size:27 final size:27
Alignment explanation
Indices: 17404442--17404510 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
17404432 AAATTTGTAC
17404442 AGCACTAAGTGTGCGAGTTGATCATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
17404469 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
17404496 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17404511 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:17404521 original size:27 final size:27
Alignment explanation
Indices: 17404442--17404522 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
17404432 AAATTTGTAC
* *
17404442 AGCACTAAGTGTGCGAGTTGA-TCATAT
1 AGCACTAAGTGTGCGAGCTCACT-ATAT
* * *
17404469 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
17404496 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
17404523 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:17412382 original size:27 final size:27
Alignment explanation
Indices: 17412344--17412412 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
17412334 AAATTTGTAC
17412344 AGCACTAAGTGTGCGAGTTGATCATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
17412371 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
17412398 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17412413 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:17412423 original size:27 final size:27
Alignment explanation
Indices: 17412344--17412424 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
17412334 AAATTTGTAC
* *
17412344 AGCACTAAGTGTGCGAGTTGA-TCATAT
1 AGCACTAAGTGTGCGAGCTCACT-ATAT
* * *
17412371 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
17412398 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
17412425 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:17420225 original size:13 final size:13
Alignment explanation
Indices: 17420207--17420231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17420197 TGTAGTCGGT
17420207 ACTTTGGGGGAAC
1 ACTTTGGGGGAAC
17420220 ACTTTGGGGGAA
1 ACTTTGGGGGAA
17420232 TTTCTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (13 bp):
ACTTTGGGGGAAC
Found at i:17421913 original size:28 final size:29
Alignment explanation
Indices: 17421881--17421948 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
17421871 TTGGAGGAAG
*
17421881 TACTG-TATTATTGGCTTTGACACTTAAT
1 TACTGCTATTAGTGGCTTTGACACTTAAT
* * *
17421909 TACTGCT-CTGGTGGCTTTGCCACTTAAT
1 TACTGCTATTAGTGGCTTTGACACTTAAT
*
17421937 TACTGTTATTAG
1 TACTGCTATTAG
17421949 CAGCTTTGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 28 0.90
29 3 0.10
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (29 bp):
TACTGCTATTAGTGGCTTTGACACTTAAT
Found at i:17421990 original size:20 final size:21
Alignment explanation
Indices: 17421943--17421991 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
17421933 TAATTACTGT
*
17421943 TATTAGCAGCTTTGCTGCGTTAA
1 TATTAGCAGCTTCGCTGCG-T-A
17421966 TATTAGCAGCTTCGCTGCG-A
1 TATTAGCAGCTTCGCTGCGTA
17421986 TATTAG
1 TATTAG
17421992 TGTGTTGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
23 18 0.72
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (21 bp):
TATTAGCAGCTTCGCTGCGTA
Found at i:17422084 original size:14 final size:14
Alignment explanation
Indices: 17422065--17422091 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17422055 TGGTTGGATT
17422065 GGGGTGGGGTGGGG
1 GGGGTGGGGTGGGG
17422079 GGGGTGGGGTGGG
1 GGGGTGGGGTGGG
17422092 TTACATGACC
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:0.00, C:0.00, G:0.85, T:0.15
Consensus pattern (14 bp):
GGGGTGGGGTGGGG
Found at i:17422444 original size:18 final size:18
Alignment explanation
Indices: 17422421--17422457 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17422411 AGGTCGTTTG
17422421 TGGGTTTTAAGTTT-TAAT
1 TGGGTTTTAA-TTTCTAAT
17422439 TGGGTTTTAATTTCTAAT
1 TGGGTTTTAATTTCTAAT
17422457 T
1 T
17422458 TTAAACTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.57
Consensus pattern (18 bp):
TGGGTTTTAATTTCTAAT
Found at i:17423158 original size:12 final size:12
Alignment explanation
Indices: 17423141--17423171 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17423131 AGGCGTACAC
17423141 GAGGCCGCGGTA
1 GAGGCCGCGGTA
17423153 GAGGCCGCGGTA
1 GAGGCCGCGGTA
17423165 GAGGCCG
1 GAGGCCG
17423172 GGGAAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.52, T:0.06
Consensus pattern (12 bp):
GAGGCCGCGGTA
Found at i:17423497 original size:16 final size:18
Alignment explanation
Indices: 17423478--17423510 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17423468 CATACGAATT
17423478 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
17423494 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
17423511 GTGACGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:17424035 original size:40 final size:40
Alignment explanation
Indices: 17423987--17424092 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
17423977 CTGTTATCAA
*
17423987 ATCACCGGCAATTAGCCTGCTAGGTTTTAAACCCAAATTC
1 ATCACCGGCAATTAGCCTGCTAGGCTTTAAACCCAAATTC
*** * ** **
17424027 ATCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAATTC
1 ATCACCGGCAATTAGCCTGCTAGGCTTTAAACCCAAATTC
*
17424067 ATTCACCGGC-ATTTGCCTGCTAGGCT
1 A-TCACCGGCAATTAGCCTGCTAGGCT
17424093 CGAAGCCCGA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
40 43 0.84
41 8 0.16
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (40 bp):
ATCACCGGCAATTAGCCTGCTAGGCTTTAAACCCAAATTC
Found at i:17431602 original size:43 final size:43
Alignment explanation
Indices: 17431554--17431663 Score: 166
Period size: 43 Copynumber: 2.6 Consensus size: 43
17431544 TCACCGCTTT
* * * *
17431554 TAGCCTACTAGGCTCAAAGCCCGATATTATTTCACTGGTATTA
1 TAGCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGCATTA
* *
17431597 TAGCCTGCTAGGCTCGAGGCCTGATATTATTTCACCGGCATTA
1 TAGCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGCATTA
17431640 TAGCCTGCTAGGCTCGAAGCCCGA
1 TAGCCTGCTAGGCTCGAAGCCCGA
17431664 ATTCATCATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (43 bp):
TAGCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGCATTA
Found at i:17432857 original size:28 final size:27
Alignment explanation
Indices: 17432809--17432893 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 27
17432799 AGCATGGCTG
* *
17432809 CCAGAACAGAT-ATTGTAGCAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
17432835 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
* *
17432863 CCAGAAACAGATATTTGTGGTAGAGCCA
1 CCAG-AACAGATAATTGTGGCAGAGCCA
17432891 CCA
1 CCA
17432894 AAACGTTTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.10
27 6 0.12
28 40 0.77
29 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:17435139 original size:12 final size:12
Alignment explanation
Indices: 17435122--17435151 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17435112 TAAACGTACG
17435122 AAATAATAATAA
1 AAATAATAATAA
17435134 AAATAATAATAA
1 AAATAATAATAA
*
17435146 TAATAA
1 AAATAA
17435152 CATCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:17437868 original size:40 final size:39
Alignment explanation
Indices: 17437741--17437870 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
17437731 ATGCTGGAAA
* *
17437741 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
17437781 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
17437821 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
17437861 TTATATCCGG
1 TTATATCCGG
17437871 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:17439425 original size:40 final size:40
Alignment explanation
Indices: 17439405--17439590 Score: 372
Period size: 40 Copynumber: 4.7 Consensus size: 40
17439395 TTGCACAAAG
17439405 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
17439445 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
17439485 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
17439525 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
17439565 GCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
17439591 TTCCAATGTT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
Found at i:17449156 original size:40 final size:40
Alignment explanation
Indices: 17449064--17449193 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
17449054 ATGCTGGAAA
* * *
17449064 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGG
1 TTATATCTGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTC-G
* * *
17449104 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
* * *
17449144 TTCTATCTGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
17449184 TTATATCTGG
1 TTATATCTGG
17449194 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.95
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
Found at i:17451678 original size:28 final size:28
Alignment explanation
Indices: 17451622--17451732 Score: 138
Period size: 28 Copynumber: 4.1 Consensus size: 28
17451612 CAACATGGCT
* * *
17451622 ACCAGA-ACAGAT-TTTATGACAGAGTC
1 ACCAGATACAGATATTTGTGGCAGAGCC
*
17451648 ACCAGATACAGATAATTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
*
17451676 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
* *
17451704 ACTATAT-CAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
17451731 AC
1 AC
17451733 TAGAACACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 6 0.08
27 28 0.38
28 40 0.54
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (28 bp):
ACCAGATACAGATATTTGTGGCAGAGCC
Found at i:17451715 original size:55 final size:55
Alignment explanation
Indices: 17451622--17451737 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 55
17451612 CAACATGGCT
*
17451622 ACCAG-AACAGATTTTATGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCC
1 ACCAGAAACAGATTTTATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCC
* * * * *
17451676 ACCAGAAACAGATATTTGTGGCAGAGCCACTATAT-CAGATATTTGTGGCAGAGCC
1 ACCAGAAACAGAT-TTTATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCC
*
17451731 ACTAGAA
1 ACCAGAA
17451738 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 5 0.09
55 32 0.60
56 16 0.30
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (55 bp):
ACCAGAAACAGATTTTATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCC
Found at i:17451887 original size:26 final size:27
Alignment explanation
Indices: 17451838--17451888 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
17451828 GTTAGAATTA
* * *
17451838 ACCCTAGGGGTATAATGGTCATTTTGC
1 ACCCTAGGGGTAAAATGATAATTTTGC
17451865 ACCC-AGGGGTAAAATGATAATTTT
1 ACCCTAGGGGTAAAATGATAATTTT
17451889 CATACTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (27 bp):
ACCCTAGGGGTAAAATGATAATTTTGC
Found at i:17470060 original size:27 final size:27
Alignment explanation
Indices: 17470030--17470227 Score: 222
Period size: 27 Copynumber: 7.3 Consensus size: 27
17470020 TACTGAAATG
*
17470030 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
17470057 CCCTCCATTTATAGAATTA-CAGTTTCA
1 CCCTCGATTTATAGAATTACCA-TTTTA
* * *
17470084 CCCTCGATTTACAAAATTA-TAGTTTTA
1 CCCTCGATTTATAGAATTACCA-TTTTA
17470111 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
17470138 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
17470165 CCTTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
17470192 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
17470219 CCCTCGATT
1 CCCTCGATT
17470228 GTGAAATTAC
Statistics
Matches: 148, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 3 0.02
27 143 0.97
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:17470148 original size:81 final size:81
Alignment explanation
Indices: 17470030--17470227 Score: 301
Period size: 81 Copynumber: 2.4 Consensus size: 81
17470020 TACTGAAATG
* *
17470030 CCCTCGATTTGTAGAATTACCATTTTACCCTCCATTTATAGAATTACAGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACAGTTTCACCCTCGATTTA
17470095 CAAAATTA-TAGTTTTA
66 CAAAATTACTA-TTTTA
* * *
17470111 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCTTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACAGTTTCACCCTCGATTTA
17470176 CAAAATTACTATTTTA
66 CAAAATTACTATTTTA
* *
17470192 CCCTC-AGTTTACAAAATTACCATTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
17470228 GTGAAATTAC
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.01
81 105 0.97
82 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACAGTTTCACCCTCGATTTA
CAAAATTACTATTTTA
Found at i:17470249 original size:27 final size:27
Alignment explanation
Indices: 17470226--17470381 Score: 145
Period size: 27 Copynumber: 5.8 Consensus size: 27
17470216 TTACCCTCGA
*
17470226 TTGTGAAATTACTGAAATACCCCTA-T
1 TTGTGAAATTACCGAAATACCCCTAGT
** *
17470252 AGGAT-AGAATTACCAAAATACCCCTAGT
1 TTG-TGA-AATTACCGAAATACCCCTAGT
* *
17470280 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGT
* * * *
17470307 TTCTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGT
* * *
17470334 TTGTGAAATTACTGAAATACCCTTAAT
1 TTGTGAAATTACCGAAATACCCCTAGT
* *
17470361 TTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACC
17470382 TGTAAGACCC
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.02
27 101 0.95
28 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTGAAATTACCGAAATACCCCTAGT
Found at i:17470317 original size:54 final size:54
Alignment explanation
Indices: 17470259--17470381 Score: 165
Period size: 54 Copynumber: 2.3 Consensus size: 54
17470249 TATAGGATAG
* *
17470259 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTCTAA
1 AATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATTTCTAA
* * * ** * *
17470313 AATTACCGAAATACCACTGGTTTGTGAAATTACTGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATTTCTAA
17470367 AATTACCAAAATACC
1 AATTACCAAAATACC
17470382 TGTAAGACCC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATTTCTAA
Found at i:17471654 original size:40 final size:40
Alignment explanation
Indices: 17471602--17471709 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
17471592 TATCACGATT
** *
17471602 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * * *
17471642 GCACGAATGCCTTCGGATCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
17471682 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
17471710 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:17479443 original size:79 final size:79
Alignment explanation
Indices: 17479324--17479471 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
17479314 GCTACTCGTT
*
17479324 CAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCACCAAGGCCTACGGGACTTAACCCGG
1 CAAACGCCTTCGGGACATAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCGG
17479389 ATATCACTATTGCA
66 ATATCACTATTGCA
* * * * * * * * * *
17479403 CAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 CAAACGCCTTCGGGACATAGCCCGGATATG-ATAACCCGCACCAAGGCCTACGGGACTTAACCCG
17479467 GATAT
65 GATAT
17479472 AGCCACTAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
78 1 0.02
79 56 0.98
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (79 bp):
CAAACGCCTTCGGGACATAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCGG
ATATCACTATTGCA
Found at i:17479491 original size:40 final size:40
Alignment explanation
Indices: 17479405--17479513 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
17479395 CTATTGCACA
* ** * * *
17479405 AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACCACTAGAACC
*
17479445 AATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGAACC
1 AATGCCTTCGGGTCTTAGCCCGGATATAACCACTAGAACC
* * *
17479485 ATTGCCTTCGGGTCTTAACCCGGTTATAA
1 AATGCCTTCGGGTCTTAGCCCGGATATAA
17479514 TTTCCAGCAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACCACTAGAACC
Found at i:17481321 original size:27 final size:27
Alignment explanation
Indices: 17481282--17481333 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
17481272 TGACTTTCTA
17481282 AAAATTATAAAAATACCATTGGTTTAC
1 AAAATTATAAAAATACCATTGGTTTAC
*
17481309 AAAATTACT-AAAATACCCTTGGTTT
1 AAAATTA-TAAAAATACCATTGGTTT
17481334 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTATAAAAATACCATTGGTTTAC
Found at i:17483737 original size:27 final size:27
Alignment explanation
Indices: 17483707--17483786 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 27
17483697 TGAAATGCCA
*
17483707 TCGATTTGTAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
17483734 TCGATTTATAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
*
17483761 TCGATTTATAGAATTACCGTTTTACC
1 TCGATTTATAGAATTACCATTTTACC
17483787 ATTTTACCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TCGATTTATAGAATTACCATTTTACCC
Found at i:17488987 original size:29 final size:29
Alignment explanation
Indices: 17488953--17489026 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
17488943 TAATCAGCCG
*
17488953 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
17488982 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
17489011 CACACACTTAGTGCCA
1 CGCACACTTAGTGCCA
17489027 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:17501081 original size:40 final size:39
Alignment explanation
Indices: 17501036--17501243 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
17501026 CGGAATACAA
*
17501036 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
17501076 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
17501116 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
17501156 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
17501196 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
17501236 CCGGATAT
1 CCGGATAT
17501244 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:17501176 original size:80 final size:81
Alignment explanation
Indices: 17501036--17501241 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
17501026 CGGAATACAA
* * *
17501036 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
17501100 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
17501116 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
17501179 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
17501196 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
17501242 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:17509234 original size:40 final size:39
Alignment explanation
Indices: 17509189--17509396 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
17509179 CGGAATACAA
*
17509189 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
17509229 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
17509269 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
17509309 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
17509349 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
17509389 CCGGATAT
1 CCGGATAT
17509397 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:17509329 original size:80 final size:81
Alignment explanation
Indices: 17509189--17509394 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
17509179 CGGAATACAA
* * *
17509189 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
17509253 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
17509269 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
17509332 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
17509349 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
17509395 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:17515356 original size:26 final size:26
Alignment explanation
Indices: 17515326--17515378 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
17515316 ATCCCTTGAC
*
17515326 ATAGTCAATTGTGCATCATACCCTTA
1 ATAGTCAATTATGCATCATACCCTTA
17515352 ATAGTCAATTATGCATCATACCCTTA
1 ATAGTCAATTATGCATCATACCCTTA
17515378 A
1 A
17515379 ATTAATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (26 bp):
ATAGTCAATTATGCATCATACCCTTA
Found at i:17528889 original size:93 final size:93
Alignment explanation
Indices: 17528776--17528947 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17528766 CGCCCATAAG
* *
17528776 CGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
17528841 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
17528869 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17528934 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17528948 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17528944 original size:46 final size:46
Alignment explanation
Indices: 17528769--17528944 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
17528759 TGTAACCCGC
* * *
17528769 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
17528815 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
17528865 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17528908 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17528945 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17532453 original size:31 final size:31
Alignment explanation
Indices: 17532395--17532463 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
17532385 CCAAATTGTA
* *
17532395 TAATAAAATATATATATATATCGATTCATTT
1 TAATAAAATATATATATATAACGATTCAATT
*
17532426 TCAATAAAATTTCATATA-ATAAC-ATTCAATT
1 T-AATAAAATAT-ATATATATAACGATTCAATT
17532457 TAATAAA
1 TAATAAA
17532464 CAATATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 6 0.18
31 9 0.27
32 13 0.39
33 5 0.15
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (31 bp):
TAATAAAATATATATATATAACGATTCAATT
Found at i:17539576 original size:17 final size:18
Alignment explanation
Indices: 17539556--17539591 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17539546 TAATCTTGTT
17539556 TTAATAAATTAAT-AGCA
1 TTAATAAATTAATAAGCA
*
17539573 TTAATAATTTAATAAGCA
1 TTAATAAATTAATAAGCA
17539591 T
1 T
17539592 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTAATAAATTAATAAGCA
Found at i:17542762 original size:40 final size:40
Alignment explanation
Indices: 17542573--17542779 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
17542563 CAGATGATAA
* *
17542573 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
17542613 CCGGGCTAAG-CCCGAAGGCATTCGTGAGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
17542652 CCAGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
17542692 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
17542732 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
17542772 CC-GGCTAA
1 CCGGGCTAA
17542780 ACTCCGAAGG
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.27
40 108 0.73
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:17544971 original size:40 final size:39
Alignment explanation
Indices: 17544888--17545079 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
17544878 TTGAATGATG
* * * * *
17544888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
17544928 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
17544968 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
17545007 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
17545048 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
17545080 CGTTATATCC
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.26
40 86 0.67
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:17545033 original size:79 final size:81
Alignment explanation
Indices: 17544888--17545079 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 81
17544878 TTGAATGATG
* * * *
17544888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
17544952 CGTGCGAGTTAATA-AA
65 CGTGCGAGTTAATATAA
* **
17544968 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
17545031 CGTGCGAGTTACTATAA
65 CGTGCGAGTTAATATAA
** *
17545048 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17545080 CGTTATATCC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.58
80 40 0.41
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:17545094 original size:79 final size:77
Alignment explanation
Indices: 17544888--17545105 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 77
17544878 TTGAATGATG
* * * * *
17544888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTATATCCGG-TTAAG-TCCGAAGGCATT
17544952 CGTGCGAGTTAATAAA
62 CGTGCGAGTTAATAAA
* * * *
17544968 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCC-GGTTAAGT-CCGAAGGCATTCG
*
17545033 TGCGAGTTACTATAA
64 TGCGAGTTAATA-AA
** ** *
17545048 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTT-AAGTCCGAAGG
17545106 TACGTGATTC
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 65 0.56
80 50 0.43
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGTCCGAAGGCATTCGTG
CGAGTTAATAAA
Found at i:17554685 original size:39 final size:38
Alignment explanation
Indices: 17554563--17554691 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 38
17554553 CGGAATATAA
*
17554563 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCA-CTGCAC-AATGCCTTCGGGTCTTAGC
* **
17554603 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTCTTAGC
* *
17554643 CCGGATATAGCCACTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTGCACAA-TGCCTTCGGGTCTTAGC
17554682 CCGGATATAA
1 CCGGATATAA
17554692 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 30 0.39
40 44 0.58
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTTAGC
Found at i:17554712 original size:79 final size:79
Alignment explanation
Indices: 17554563--17554728 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
17554553 CGGAATATAA
* *
17554563 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
17554628 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
17554643 CCGGATATAGCCA-CTGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
17554705 TGTCTTCGGGCTTAGC
64 TGCCTTCGGGCTTAGC
17554721 CCGGATAT
1 CCGGATAT
17554729 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 17 0.23
79 46 0.61
80 12 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:17554724 original size:39 final size:38
Alignment explanation
Indices: 17554579--17554728 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 38
17554569 ATAACCATGT
* * * *
17554579 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-TA-GCCAC
17554619 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCAC
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
* *
17554657 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA-
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A--GCCAC
* *
17554698 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
17554729 CATTCAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.05
39 42 0.44
40 44 0.46
41 2 0.02
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
Found at i:17561588 original size:40 final size:40
Alignment explanation
Indices: 17561544--17561738 Score: 320
Period size: 40 Copynumber: 4.9 Consensus size: 40
17561534 GGATATAGCT
*
17561544 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
17561584 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
17561624 ACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
17561664 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
17561704 ACTCGTACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
17561739 CAATCCGAAT
Statistics
Matches: 145, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.09
40 132 0.91
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:17564880 original size:40 final size:40
Alignment explanation
Indices: 17564807--17564968 Score: 166
Period size: 40 Copynumber: 4.1 Consensus size: 40
17564797 ATAACCAGAT
* ** *
17564807 TAAGATCCGAAGGCATTCGTACGAGTTGCTATATCCAGGC
1 TAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCAGGC
* * * * * *
17564847 TATGTCCCGAAAGCATTTATGCTAG-TGATTATATCCGGGC
1 TAAGACCCGAAGGCATTTATGCGAGTTG-CTATATCCAGGC
* *
17564887 TAAGACCCGAAGGTATTTGTGCGAGTTGCTATATCCAGGC
1 TAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCAGGC
* * *
17564927 TAAGACCCGAAGGCATTTGTGCGAATTGTTATATCC-GGC
1 TAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCAGGC
17564966 TAA
1 TAA
17564969 ATCCCAAAGA
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 8 0.08
40 89 0.90
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCAGGC
Found at i:17564959 original size:80 final size:79
Alignment explanation
Indices: 17564807--17564968 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 79
17564797 ATAACCAGAT
* * * *
17564807 TAAGATCCGAAGGCATTCGTACGAGTTGCTATATCCAGGCTATGTCCCGAAAGCATTTATGCTAG
1 TAAGACCCGAAGGCATTCGTACGAGTTGCTATATCCAGGCTAAGACCCGAAAGCATTTATGCAAG
17564872 TGATTATATCCGGGC
66 TGATTATATCC-GGC
* * * * *
17564887 TAAGACCCGAAGGTATTTGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTCGTACGAGTTGCTATATCCAGGCTAAGACCCGAAAGCATTTATGC-AA
*
17564952 TTG-TTATATCCGGC
65 GTGATTATATCCGGC
17564966 TAA
1 TAA
17564969 ATCCCAAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
79 6 0.08
80 62 0.87
81 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (79 bp):
TAAGACCCGAAGGCATTCGTACGAGTTGCTATATCCAGGCTAAGACCCGAAAGCATTTATGCAAG
TGATTATATCCGGC
Found at i:17574268 original size:43 final size:43
Alignment explanation
Indices: 17574220--17574307 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
17574210 CATTTGGGGA
**
17574220 GTTTGATTTAATTCTGGGTATGGAATGGTTGGTAAAGCATCGT
1 GTTTGATTTAATTCTAAGTATGGAATGGTTGGTAAAGCATCGT
*
17574263 GTTTGATTTAATTCTAAGTATGGACTGGTTGGTAAAGCATCGT
1 GTTTGATTTAATTCTAAGTATGGAATGGTTGGTAAAGCATCGT
17574306 GT
1 GT
17574308 AAGACTGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (43 bp):
GTTTGATTTAATTCTAAGTATGGAATGGTTGGTAAAGCATCGT
Found at i:17576504 original size:27 final size:27
Alignment explanation
Indices: 17576168--17576503 Score: 417
Period size: 27 Copynumber: 12.5 Consensus size: 27
17576158 GTACTCCCGG
*
17576168 TTTACAAAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
17576194 GGTTATAGAATTACCGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
** *
17576222 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
17576249 TTTACAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
**
17576275 GTTTACA-AATTACTATTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* * *
17576302 TTTACAGAATTACCATTTTACCCCCAA
1 TTTACAGAATTACCGTTTTACCCTCGA
* * *
17576329 TTTACATAATTACCATTTTACCCCCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
17576356 TTTACATAATTATCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
17576383 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
17576410 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
* * *
17576437 TTTACAGAATTACTGTTTCACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
17576464 TTTACAGAATTACTGCTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
17576491 TTTACAAAATTAC
1 TTTACAGAATTAC
17576504 TAAAATACCC
Statistics
Matches: 275, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
26 23 0.08
27 251 0.91
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCGA
Found at i:17577845 original size:9 final size:9
Alignment explanation
Indices: 17577833--17577889 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17577823 TTTGATAAAC
17577833 ATGATATGT
1 ATGATATGT
*
17577842 ATGATATGCAC
1 ATGATATG--T
*
17577853 ATGACATGT
1 ATGATATGT
*
17577862 ATGATATGCAC
1 ATGATATG--T
17577873 ATGATATGT
1 ATGATATGT
17577882 ATGATATG
1 ATGATATG
17577890 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:17577856 original size:20 final size:20
Alignment explanation
Indices: 17577831--17577893 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
17577821 ATTTTGATAA
17577831 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17577851 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17577871 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17577891 ACA
1 ACA
17577894 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17578004 original size:24 final size:23
Alignment explanation
Indices: 17577948--17578114 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
17577938 GAGGAAGTGA
17577948 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
17577971 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
17577994 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
17578018 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
17578042 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
17578065 AAAAAAGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
17578090 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17578114 A
1 A
17578115 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 43 0.34
24 74 0.58
25 11 0.09
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:17578017 original size:47 final size:47
Alignment explanation
Indices: 17577948--17578114 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
17577938 GAGGAAGTGA
*
17577948 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
17577994 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
17578042 TAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
17578090 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
17578115 TGATAAAGCA
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 64 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:17578064 original size:71 final size:71
Alignment explanation
Indices: 17577948--17578113 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
17577938 GAGGAAGTGA
* * *
17577948 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
17578013 GTTATC
66 GTTATC
*
17578019 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
*
17578084 GTTATT
66 GTTATC
*
17578090 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
17578114 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.87
72 11 0.13
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
GTTATC
Found at i:17578341 original size:31 final size:31
Alignment explanation
Indices: 17578306--17578369 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17578296 CGTTTACCGT
*
17578306 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
17578337 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17578368 AA
1 AA
17578370 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17581798 original size:40 final size:41
Alignment explanation
Indices: 17581742--17581988 Score: 300
Period size: 40 Copynumber: 6.3 Consensus size: 41
17581732 CTAACGGGGT
* * *
17581742 TAAGT-CCGAAGACATTTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
17581781 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
17581821 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
17581861 TAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
17581900 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * *
17581939 TAAGACCCGAAGGC-CTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
17581977 TAAATCCCGAAG
1 TAAGTCCCGAAG
17581989 ATAATTGGGT
Statistics
Matches: 190, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
38 31 0.16
39 57 0.30
40 102 0.54
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:17581880 original size:39 final size:40
Alignment explanation
Indices: 17581742--17581963 Score: 303
Period size: 40 Copynumber: 5.7 Consensus size: 40
17581732 CTAACGGGGT
* * * *
17581742 TAAGT-CCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17581781 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17581821 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17581861 TAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
17581900 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* *
17581939 TAAGACCCGAAGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
17581964 GGTTATATCC
Statistics
Matches: 170, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
38 11 0.06
39 57 0.34
40 102 0.60
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:17581885 original size:79 final size:80
Alignment explanation
Indices: 17581742--17581988 Score: 328
Period size: 79 Copynumber: 3.1 Consensus size: 80
17581732 CTAACGGGGT
* * *
17581742 TAAGT-CCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
17581806 TTACTA-ATTCCGGGC
66 TTACTATA-TCCGGGC
* *
17581821 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
17581885 TTACTATATCCGGGC
66 TTACTATATCCGGGC
* *
17581900 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCC-GGCTAAGACCCGAAGGC-CTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAGACCCGAAGGCATTTGTGCGA
***
17581962 GTGGTTATATCC-GGC
65 GTTACTATATCCGGGC
*
17581977 TAAATCCCGAAG
1 TAAGTCCCGAAG
17581989 ATAATTGGGT
Statistics
Matches: 152, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
77 14 0.09
78 26 0.17
79 77 0.51
80 35 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:17583647 original size:13 final size:13
Alignment explanation
Indices: 17583629--17583661 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17583619 TTGGTTCAAC
17583629 CAATACATTCGAA
1 CAATACATTCGAA
17583642 CAATACATTCGAA
1 CAATACATTCGAA
17583655 CTAATAC
1 C-AATAC
17583662 GGCTGTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (13 bp):
CAATACATTCGAA
Found at i:17589899 original size:40 final size:41
Alignment explanation
Indices: 17589842--17590091 Score: 273
Period size: 40 Copynumber: 6.3 Consensus size: 41
17589832 CTAACGGGGT
* * * *
17589842 TAAGTCTCGAAGACATTTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
17589882 TAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
17589922 TAGGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
17589962 TAAGCCCCAAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
17590002 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * *
17590042 TAAGACCCGAAGGC-CTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
17590080 TAAATCCCGAAG
1 TAAGTCCCGAAG
17590092 ATAATTGGGT
Statistics
Matches: 183, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
38 12 0.07
39 18 0.10
40 153 0.84
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:17599171 original size:28 final size:28
Alignment explanation
Indices: 17599102--17599202 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
17599092 GACAAGATTG
* * * *
17599102 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
17599132 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
17599160 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
17599189 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17599203 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:17606083 original size:16 final size:16
Alignment explanation
Indices: 17606053--17606089 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17606043 ACTGTTGATT
17606053 TATGAATGTTTATATA
1 TATGAATGTTTATATA
17606069 TATG-ATGTTTA-ATA
1 TATGAATGTTTATATA
*
17606083 TGTGAAT
1 TATGAAT
17606090 TGGAAATCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 9 0.47
16 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (16 bp):
TATGAATGTTTATATA
Found at i:17607867 original size:24 final size:24
Alignment explanation
Indices: 17607753--17607867 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
17607743 GGAAGCTCAT
* *
17607753 AAGAGCCATAATCGTGAAGTTCACA
1 AAGAACCAT-ATCGAGAAGTTCACA
**
17607778 AAGAACTTTATCGAGAAGTTCACA
1 AAGAACCATATCGAGAAGTTCACA
17607802 AAGAACCATATC-AGGAAGTTCACA
1 AAGAACCATATCGA-GAAGTTCACA
*
17607826 AAGAACCATATCGGGAAGTTCACA
1 AAGAACCATATCGAGAAGTTCACA
* *
17607850 AAAAACCATATTGAGAAG
1 AAGAACCATATCGAGAAG
17607868 CTCCAGATAG
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.01
24 71 0.91
25 6 0.08
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (24 bp):
AAGAACCATATCGAGAAGTTCACA
Found at i:17609249 original size:19 final size:18
Alignment explanation
Indices: 17609218--17609253 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17609208 ATTTGAAAAC
17609218 TATTGAATAATTATGAAA
1 TATTGAATAATTATGAAA
*
17609236 TATTGGAATGATTATGAA
1 TATT-GAATAATTATGAA
17609254 TTGTTATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
TATTGAATAATTATGAAA
Found at i:17609426 original size:20 final size:20
Alignment explanation
Indices: 17609398--17609484 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
17609388 TTGTACGGGA
17609398 TTTGCACTTCAATGCCCCTG
1 TTTGCACTTCAATGCCCCTG
* ** *
17609418 TTTGTACTTCGGTGCCCCTT
1 TTTGCACTTCAATGCCCCTG
** *
17609438 TTTGCACGTT-TGTGCCCCTA
1 TTTGCAC-TTCAATGCCCCTG
* **
17609458 TCTGCACTTCGGTGCCCCTG
1 TTTGCACTTCAATGCCCCTG
17609478 TTATGCA
1 TT-TGCA
17609485 TCTATGATGC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.04
20 45 0.85
21 6 0.11
ACGTcount: A:0.10, C:0.32, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTGCACTTCAATGCCCCTG
Found at i:17610159 original size:18 final size:18
Alignment explanation
Indices: 17610136--17610174 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
17610126 AATTGTCTTT
17610136 TTACCAACTTACTAAGCA
1 TTACCAACTTACTAAGCA
17610154 TTACCAACTTACTAAGCA
1 TTACCAACTTACTAAGCA
17610172 TTA
1 TTA
17610175 TTGCTTACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (18 bp):
TTACCAACTTACTAAGCA
Found at i:17614722 original size:5 final size:5
Alignment explanation
Indices: 17614712--17614743 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
17614702 ACATATAACT
17614712 AATTA AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AA
17614744 GAATCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:17615187 original size:13 final size:14
Alignment explanation
Indices: 17615159--17615194 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
17615149 TAAGATTATG
17615159 CATTTTTAACAATTT
1 CATTTTT-ACAATTT
17615174 CATTTTTA-AATTT
1 CATTTTTACAATTT
17615187 CATTTTTA
1 CATTTTTA
17615195 TTTTTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 1 0.05
15 7 0.33
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (14 bp):
CATTTTTACAATTT
Found at i:17616428 original size:7 final size:7
Alignment explanation
Indices: 17616416--17616442 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17616406 GTGTCAACAG
17616416 TTAAAAT
1 TTAAAAT
17616423 TTAAAAT
1 TTAAAAT
17616430 TTAAAAT
1 TTAAAAT
17616437 TTAAAA
1 TTAAAA
17616443 GATAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:17616456 original size:21 final size:22
Alignment explanation
Indices: 17616432--17616472 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17616422 TTTAAAATTT
*
17616432 AAAATTTA-AAAGATAAAAAAC
1 AAAATTTATAAAAATAAAAAAC
17616453 AAAATTTATAAAAATAAAAA
1 AAAATTTATAAAAATAAAAA
17616473 TATAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAATTTATAAAAATAAAAAAC
Found at i:17617004 original size:22 final size:22
Alignment explanation
Indices: 17616965--17617023 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
17616955 GTTTTAAGAA
*
17616965 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
17616986 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
17617008 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
17617024 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Done.