Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 311 of 378
Found at i:94596907 original size:40 final size:40
Alignment explanation
Indices: 94596833--94597010 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
94596823 GAGTCACGTA
** *
94596833 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
94596872 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
94596912 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
94596952 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
94596992 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
94597011 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:94608332 original size:21 final size:21
Alignment explanation
Indices: 94608306--94608347 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
94608296 ACATTAGATA
94608306 ACCCATCCAGTTTATCAAATT
1 ACCCATCCAGTTTATCAAATT
*
94608327 ACCCATCTAGTTTATCAAATT
1 ACCCATCCAGTTTATCAAATT
94608348 CAATATGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (21 bp):
ACCCATCCAGTTTATCAAATT
Found at i:94613086 original size:28 final size:28
Alignment explanation
Indices: 94613046--94613102 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
94613036 AATAAGTTCA
94613046 AACACTATGAATGAATTATTTGATTTAC
1 AACACTATGAATGAATTATTTGATTTAC
*
94613074 AACACTATTAATGAATTATTTGATTTAC
1 AACACTATGAATGAATTATTTGATTTAC
94613102 A
1 A
94613103 TGATTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (28 bp):
AACACTATGAATGAATTATTTGATTTAC
Found at i:94622158 original size:2 final size:2
Alignment explanation
Indices: 94622151--94622180 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94622141 TTATTATTTA
94622151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94622181 GAGGTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94628906 original size:20 final size:20
Alignment explanation
Indices: 94628881--94628921 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
94628871 TGTTGTTCTT
94628881 GATTTAATTAAAATGGCTTA
1 GATTTAATTAAAATGGCTTA
* *
94628901 GATTTAATTCAAATGGTTTA
1 GATTTAATTAAAATGGCTTA
94628921 G
1 G
94628922 TTAACAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (20 bp):
GATTTAATTAAAATGGCTTA
Found at i:94629394 original size:17 final size:17
Alignment explanation
Indices: 94629360--94629410 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
94629350 CAATAGTGCG
* *
94629360 AACTGCGAGGTCATCAA
1 AACTGCGAGCTCACCAA
94629377 AACTGCGAGCTCACC-A
1 AACTGCGAGCTCACCAA
94629393 AACATGCGAGCTCACCAA
1 AAC-TGCGAGCTCACCAA
94629411 GCTTGAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 4 0.13
17 25 0.83
18 1 0.03
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.14
Consensus pattern (17 bp):
AACTGCGAGCTCACCAA
Found at i:94638396 original size:19 final size:18
Alignment explanation
Indices: 94638352--94638388 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
94638342 TTAGACCTAG
94638352 TCGTTCTTAAATTTCTTT
1 TCGTTCTTAAATTTCTTT
*
94638370 TCGTTCTTAAATTTATTT
1 TCGTTCTTAAATTTCTTT
94638388 T
1 T
94638389 TTTTTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (18 bp):
TCGTTCTTAAATTTCTTT
Found at i:94639712 original size:4 final size:4
Alignment explanation
Indices: 94639703--94639730 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
94639693 ACATATGCAC
94639703 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
94639731 TCTAAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:94644168 original size:28 final size:30
Alignment explanation
Indices: 94644134--94644192 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94644124 AATATTTGAA
94644134 ATATATAC-A-TGAAATAGTCAAAATATAT
1 ATATATACTACTGAAATAGTCAAAATATAT
* * *
94644162 ATATATACTACTTATATTGTCAAAATATAT
1 ATATATACTACTGAAATAGTCAAAATATAT
94644192 A
1 A
94644193 CATAATCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 1 0.04
30 17 0.65
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (30 bp):
ATATATACTACTGAAATAGTCAAAATATAT
Found at i:94644261 original size:15 final size:16
Alignment explanation
Indices: 94644236--94644265 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
94644226 TATGTACATA
94644236 ACATAAAAAATATAAT
1 ACATAAAAAATATAAT
94644252 ACAT-AAAAATATAA
1 ACATAAAAAATATAA
94644266 CATGGCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATAAAAAATATAAT
Found at i:94645179 original size:2 final size:2
Alignment explanation
Indices: 94645172--94645203 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94645162 ATTCGTAGAA
94645172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94645204 GTTTACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94646989 original size:19 final size:19
Alignment explanation
Indices: 94646965--94647003 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
94646955 TCAACTCATT
94646965 TCTCGCAATATGAATTGAC
1 TCTCGCAATATGAATTGAC
*
94646984 TCTCGCAATATGAGTTGAC
1 TCTCGCAATATGAATTGAC
94647003 T
1 T
94647004 TTTGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (19 bp):
TCTCGCAATATGAATTGAC
Found at i:94647224 original size:74 final size:74
Alignment explanation
Indices: 94647100--94647243 Score: 200
Period size: 74 Copynumber: 1.9 Consensus size: 74
94647090 AAAAGAAGAT
* *
94647100 TTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 TTTGAAAATACCTCGACA-GTAACCCGAGGCTCAACTCACATCTCACAATATGAGTGGA-TTTTT
94647165 GAAAAACAGAA
64 GAAAAACAGAA
* ** * *
94647176 TTTGAAAATACCTCTAC-GTGCCCCGAGGTTCAACTCACATCTCGCAATATGAGTGGATTTTTGA
1 TTTGAAAATACCTCGACAGTAACCCGAGGCTCAACTCACATCTCACAATATGAGTGGATTTTTGA
94647240 AAAA
66 AAAA
94647244 TATAAATTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 11 0.18
74 34 0.56
76 16 0.26
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (74 bp):
TTTGAAAATACCTCGACAGTAACCCGAGGCTCAACTCACATCTCACAATATGAGTGGATTTTTGA
AAAACAGAA
Found at i:94647259 original size:15 final size:15
Alignment explanation
Indices: 94647239--94647271 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
94647229 TGGATTTTTG
*
94647239 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
94647254 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
94647269 AAA
1 AAA
94647272 TACCTCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:94647314 original size:90 final size:88
Alignment explanation
Indices: 94647166--94647349 Score: 251
Period size: 90 Copynumber: 2.1 Consensus size: 88
94647156 TGATTTTTTG
* ** * * *
94647166 AAAAACAGAATTTGAAAATACCTCTACGTGCCCCGAGGTTCAACTCACATCTCGCAATATGAGTG
1 AAAAACAGAAATTGAAAATACCTCTACGTGAACCAAGGTTCAACTCACATCTCACAATATGAATG
*
94647231 GATTTTTGAAAAATATAAATTGA
66 GATTTTTGAAAAATAGAAATTGA
* *
94647254 AAAAATAGAAATTGAAAATACCTCAGTACGTGAACCAAGGTTCAACTCACCTCTCACAATATGAA
1 AAAAACAGAAATTGAAAATACCTC--TACGTGAACCAAGGTTCAACTCACATCTCACAATATGAA
* *
94647319 TTGATTTTTGAAAAATAGAATTTGA
64 TGGATTTTTGAAAAATAGAAATTGA
94647344 AAAAAC
1 AAAAAC
94647350 CTCAGGGTGC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
88 22 0.27
90 60 0.73
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCTACGTGAACCAAGGTTCAACTCACATCTCACAATATGAATG
GATTTTTGAAAAATAGAAATTGA
Found at i:94647384 original size:163 final size:164
Alignment explanation
Indices: 94647101--94647418 Score: 464
Period size: 163 Copynumber: 1.9 Consensus size: 164
94647091 AAAGAAGATT
* *
94647101 TTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTG
1 TTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACCTCTCACAATATGAATTGATTTTTTG
* **
94647166 AAAAACAGAATTTGAAAATACCTCTACGTGCCCCGAGGTTCAACTCACATCTCGCAATATGAGTG
66 AAAAACAGAATTTGAAAAAACCTCTACGTGCCCCGAGGCCCAACTCACATCTCGCAATATGAGTG
*
94647231 GATTTTTGAAAAATATAAATTGAAAAAATAGAAA
131 GATTTTTGAAAAATAGAAATTGAAAAAATAGAAA
* *
94647265 TTGAAAATACCTCAGTACGTG-AA-CCAAGGTTCAACTCACCTCTCACAATATGAATTGA-TTTT
1 TTGAAAATACCTC-G-ACATGTAACCCAAGGCTCAACTCACCTCTCACAATATGAATTGATTTTT
* * *
94647327 TGAAAAATAGAATTTGAAAAAACCTC-AGGGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGA
64 TGAAAAACAGAATTTGAAAAAACCTCTA-CGTGCCCCGAGGCCCAACTCACATCTCGCAATATGA
* *
94647391 GTTGATTTTTGAAACATAGAAATTGAAA
128 GTGGATTTTTGAAAAATAGAAATTGAAA
94647419 TTACCTCAGC
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
162 1 0.01
163 85 0.62
164 45 0.33
165 3 0.02
166 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (164 bp):
TTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACCTCTCACAATATGAATTGATTTTTTG
AAAAACAGAATTTGAAAAAACCTCTACGTGCCCCGAGGCCCAACTCACATCTCGCAATATGAGTG
GATTTTTGAAAAATAGAAATTGAAAAAATAGAAA
Found at i:94647396 original size:73 final size:73
Alignment explanation
Indices: 94647254--94647493 Score: 300
Period size: 73 Copynumber: 3.3 Consensus size: 73
94647244 TATAAATTGA
* ** * ** * *
94647254 AAAAATAGAAATTGAAAATACCTCAGTACGTGAACCAAGGTTCAACTCACCTCTCACAATATGAA
1 AAAAATAGAAATTGAAAAAACCTCAG--CGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAG
94647319 TTGATTTTTG
64 TTGATTTTTG
* *
94647329 AAAAATAGAATTTGAAAAAACCTCAGGGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAAAACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAGTT
94647394 GATTTTTG
66 GATTTTTG
* ** ** * *
94647402 AAACATAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAAAACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAGTT
94647467 GATTTTTG
66 GATTTTTG
*
94647475 AAAAGTAGAAATTGAAAAA
1 AAAAATAGAAATTGAAAAA
94647494 TAGAAATTGA
Statistics
Matches: 142, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
73 118 0.83
75 24 0.17
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (73 bp):
AAAAATAGAAATTGAAAAAACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:94647491 original size:14 final size:14
Alignment explanation
Indices: 94647472--94647505 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
94647462 GAGTTGATTT
*
94647472 TTGAAAAGTAGAAA
1 TTGAAAAATAGAAA
94647486 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
94647500 TTGAAA
1 TTGAAA
94647506 TTATCTCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:94647545 original size:87 final size:87
Alignment explanation
Indices: 94647399--94647590 Score: 298
Period size: 87 Copynumber: 2.2 Consensus size: 87
94647389 GAGTTGATTT
*
94647399 TTGAAACATAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAATAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGA
*
94647464 GTTGATTTTTGAAAAGTAGAAA
66 GTTGATTTTGGAAAAGTAGAAA
* * *
94647486 TTGAAAAATAGAAATTGAAATTATCTCAGTGTG-TCTTGAGGCTCAACTTACCTCTCGCAATATG
1 TTGAAAAATAGAAATTGAAATTACCTCAGCGTGTTC-TGAGGCTCAACTCACCTCTCGCAATATG
*
94647550 AGTTGATTTTGGAAAAGTAGGAA
65 AGTTGATTTTGGAAAAGTAGAAA
*
94647573 TT-AAAAATAGAATTTGAA
1 TTGAAAAATAGAAATTGAA
94647591 CAATAGAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
86 17 0.18
87 80 0.82
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (87 bp):
TTGAAAAATAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGGAAAAGTAGAAA
Found at i:94647595 original size:14 final size:13
Alignment explanation
Indices: 94647576--94647608 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
94647566 GTAGGAATTA
94647576 AAAATAGAATTTG
1 AAAATAGAATTTG
94647589 AACAATAGAATTTG
1 AA-AATAGAATTTG
94647603 AAAATA
1 AAAATA
94647609 CCTCAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (13 bp):
AAAATAGAATTTG
Found at i:94647654 original size:102 final size:97
Alignment explanation
Indices: 94647475--94647787 Score: 283
Period size: 96 Copynumber: 3.2 Consensus size: 97
94647465 TTGATTTTTG
* * * * * * * * * *
94647475 AAAAGTAGAAATTGAAAAATAGAAATTGAAATTATCTCAGTGTGTCTTGAGGCTCAACTTACCTC
1 AAAAATAGAAATTAAAAAACAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
94647540 TCGCAATATGAGTTGATTTTGGAAAAGTAGGAATT
66 TCGCAATATGAGTTGATTTT-GAAAA-TA-GAATT
* * * *
94647575 AAAAATAGAATTTGAACAATAGAATTTGAAAATACCTCAGCATGTGACCC-GAGGCTCAACTCAC
1 AAAAATAGAAATTAAAAAACAGAATTTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCAC
***** *
94647639 CTCTCGCAATATGAGTTG-TTTTTTTTTTA-AA-A
63 CTCTCGCAATATGAGTTGATTTTGAAAATAGAATT
* * * *
94647671 AAAAATATAAATTAAAAAACAGAATTTGAAGATACCTCAGCGTGCCCTGAGGTTCAACTCACTTC
1 AAAAATAGAAATTAAAAAACAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
94647736 TCGCAATATGAGTTGATTTTTGAAAATAGAATT
66 TCGCAATATGAGTTGA-TTTTGAAAATAGAATT
* * *
94647769 GAGAAACAGAAATTGAAAA
1 -AAAAATAGAAATTAAAAA
94647788 TACCTCGGCA
Statistics
Matches: 170, Mismatches: 34, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
93 3 0.02
94 33 0.19
96 41 0.24
97 4 0.02
99 16 0.09
100 34 0.20
101 4 0.02
102 34 0.20
103 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (97 bp):
AAAAATAGAAATTAAAAAACAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTGAAAATAGAATT
Found at i:94648706 original size:40 final size:39
Alignment explanation
Indices: 94648655--94648733 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
94648645 TGTGTTAATC
*
94648655 AAGACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTGAT-TTTCTTTTT
* * *
94648695 AAGATGCCCTTTTTGGGTTTTCATCTTGATTTTCTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTGATTTTCTTTTT
94648734 CTTCAAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 8 0.23
40 27 0.77
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.53
Consensus pattern (39 bp):
AAGACGCCCTTTTCGGGTTTTCACCTTGATTTTCTTTTT
Found at i:94659946 original size:26 final size:26
Alignment explanation
Indices: 94659897--94659946 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
94659887 ACATGAAATA
* *
94659897 GTCAAAATATATATACTACTTATATT
1 GTCAAAATATATACACTAATTATATT
94659923 GTCAAAATATATACA-TAATGTATA
1 GTCAAAATATATACACTAAT-TATA
94659947 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (26 bp):
GTCAAAATATATACACTAATTATATT
Found at i:94660004 original size:15 final size:16
Alignment explanation
Indices: 94659979--94660008 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
94659969 TATGTACATA
94659979 ACATAAAAAATATAAT
1 ACATAAAAAATATAAT
94659995 ACAT-AAAAATATAA
1 ACATAAAAAATATAA
94660009 CATGGCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATAAAAAATATAAT
Found at i:94670914 original size:48 final size:47
Alignment explanation
Indices: 94670889--94671112 Score: 193
Period size: 48 Copynumber: 4.7 Consensus size: 47
94670879 TCATGTCAGT
*
94670889 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCACA-ATATCAAC
* **
94670937 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCTTAC-ATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGC--ACAATATCAAC
* * ** *
94670985 GTCGATGCTC-TATCCCAGACATGGTCTTACACTGGCTCACATATCAAC
1 GCCGATGC-CATGTCCCAGACATGGTCTTACACAAGCACA-ATATCAAC
* * * *** * *
94671033 GCTGATGCCATGTCCCAAACATGGTCTTATATTGGCTTAC-GTATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGC--ACAATATCAAC
* *
94671081 ACCGATTCCATGTCCCAGACATGGTCTTACAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC
94671113 GGGATCTCAT
Statistics
Matches: 147, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 141 0.96
49 1 0.01
50 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCACAATATCAAC
Found at i:94671001 original size:96 final size:96
Alignment explanation
Indices: 94670890--94671112 Score: 297
Period size: 96 Copynumber: 2.3 Consensus size: 96
94670880 CATGTCAGTG
* * *
94670890 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCAACGCCGATGCCATGTCCCAG
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAA
*
94670955 ACATGGTCTTACT-CTGGCTTACATATCAACG
66 ACATGGTCTTA-TACTGGCTTACATATCAACA
* * * *
94670986 TCGATGCTC-TATCCCAGACATGGTCTTACACTGGCTCACATATCAACGCTGATGCCATGTCCCA
1 CCGATGC-CATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCA
* * *
94671050 AACATGGTCTTATATTGGCTTACGTATCAATA
65 AACATGGTCTTATACTGGCTTACATATCAACA
* *
94671082 CCGATTCCATGTCCCAGACATGGTCTTACAC
1 CCGATGCCATATCCCAGACATGGTCTTACAC
94671113 GGGATCTCAT
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
95 2 0.02
96 107 0.97
97 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (96 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAA
ACATGGTCTTATACTGGCTTACATATCAACA
Found at i:94671692 original size:57 final size:57
Alignment explanation
Indices: 94671626--94671740 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
94671616 CACATTTACA
*
94671626 CATAGTTTTTACAACTTTTACAATTAAGTTCTTTTTATCAATTTCACCAAAAACCAC
1 CATAGTTTTTACAACTTTTACAATTAAGTCCTTTTTATCAATTTCACCAAAAACCAC
94671683 CATAGTTTTTACAACTTTTACAATTAAGTCCTTTTTATCAATTTCACCAAAAACCAC
1 CATAGTTTTTACAACTTTTACAATTAAGTCCTTTTTATCAATTTCACCAAAAACCAC
94671740 C
1 C
94671741 TAATAAAAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (57 bp):
CATAGTTTTTACAACTTTTACAATTAAGTCCTTTTTATCAATTTCACCAAAAACCAC
Found at i:94678835 original size:48 final size:48
Alignment explanation
Indices: 94678774--94679136 Score: 483
Period size: 48 Copynumber: 7.6 Consensus size: 48
94678764 CACGTCAGTA
* * * *
94678774 CCGATGCCATGTCCCAGACATGGTCTTGCACTAGCACACATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
* * * * *
94678822 CCAATGCAATGTCCCAAACATGGTCTTACTCTGGCTCACATATAAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
* *
94678870 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
* * *
94678918 TCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
** * *
94678966 TTGATGCCATGTCCCAGACATGGTCCTACACTGTCTCACATATCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
* * * *
94679014 CCGATGCCATGTCCCAGACATGGTCTTACATTGTCTCACATATTAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
* * * *
94679062 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
*
94679110 CCAATGCCATGTCCCAGACATGGTCTT
1 CCGATGCCATGTCCCAGACATGGTCTT
94679137 GCACGGGATC
Statistics
Matches: 275, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 275 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
Found at i:94679417 original size:18 final size:18
Alignment explanation
Indices: 94679394--94679436 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
94679384 ACCTTGCCTT
94679394 TTCCTCGGTCAAACTCGA
1 TTCCTCGGTCAAACTCGA
* **
94679412 TTCCTCAGTCAAGGTCGA
1 TTCCTCGGTCAAACTCGA
94679430 TTCCTCG
1 TTCCTCG
94679437 TCCCTCTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.30
Consensus pattern (18 bp):
TTCCTCGGTCAAACTCGA
Found at i:94689049 original size:40 final size:40
Alignment explanation
Indices: 94688991--94689158 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
94688981 CAATTGAATG
* *
94688991 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
94689032 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
94689071 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
94689111 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
94689151 ATATCCGG
1 ATATCCGG
94689159 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:94689129 original size:80 final size:79
Alignment explanation
Indices: 94688991--94689158 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
94688981 CAATTGAATG
* * *
94688991 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
94689056 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
94689071 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
94689135 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
94689151 ATATCCGG
1 ATATCCGG
94689159 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:94697058 original size:40 final size:40
Alignment explanation
Indices: 94697000--94697167 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
94696990 CAATTGAATG
* *
94697000 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
94697041 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
94697080 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
94697120 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
94697160 ATATCCGG
1 ATATCCGG
94697168 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:94697138 original size:80 final size:79
Alignment explanation
Indices: 94697000--94697167 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
94696990 CAATTGAATG
* * *
94697000 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
94697065 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
94697080 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
94697144 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
94697160 ATATCCGG
1 ATATCCGG
94697168 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:94703643 original size:96 final size:92
Alignment explanation
Indices: 94703479--94703837 Score: 463
Period size: 92 Copynumber: 3.8 Consensus size: 92
94703469 TTTGACATGA
* *
94703479 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTGCCATGGTATCTT
1 TGCCATAGTATCTTTCAACTATGGTCTTA--CA--CA-TTTCATATCATGTTGCCATGGTATCTT
94703543 TCAACCATGGTCTTATTCTTTTCATGTCACGT
61 TCAACCATGGTCTTATTCTTTTCATGTCACGT
*
94703575 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TATCATGTTGCCATGGTATCTT
1 TGCCATAGTATCTTTCAACTATGGTCTTA--CA--CA-TTTCATATCATGTTGCCATGGTATCTT
94703639 TCAACCATGGTCTTATTCTTTTCATGTCACGT
61 TCAACCATGGTCTTATTCTTTTCATGTCACGT
* *
94703671 TGCCATGGTATCTTTCAAGC-ATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAA-CTATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAA
** * * *
94703735 CCATGGTCTTACACATTTCATATCAGGT
65 CCATGGTCTTATTCTTTTCATGTCACGT
* * * * *
94703763 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTTCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
94703828 CATGGTCTTA
66 CATGGTCTTA
94703838 CACATTTCAT
Statistics
Matches: 248, Mismatches: 12, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
91 5 0.02
92 120 0.48
94 2 0.01
96 120 0.48
97 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCTTTTCATGTCACGT
Found at i:94703852 original size:46 final size:46
Alignment explanation
Indices: 94703527--94703849 Score: 441
Period size: 46 Copynumber: 6.9 Consensus size: 46
94703517 TTTCTGTCAT
** * *
94703527 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * * *
94703573 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TATCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAC
** * *
94703623 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
94703669 GTTGCCATGGTATCTTTCAAGCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
94703715 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
94703761 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
94703807 GTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
94703850 TAGAGAGCAC
Statistics
Matches: 246, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
45 4 0.02
46 205 0.83
50 33 0.13
51 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:94704584 original size:32 final size:32
Alignment explanation
Indices: 94704543--94704607 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
94704533 AATTCTTGCA
94704543 ATTTAATCCTTATTTCTAGATATTAGTCTCAT
1 ATTTAATCCTTATTTCTAGATATTAGTCTCAT
*
94704575 ATTTAATCCTTATTTCTAGATATTATTCTCAT
1 ATTTAATCCTTATTTCTAGATATTAGTCTCAT
94704607 A
1 A
94704608 CATATTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTAATCCTTATTTCTAGATATTAGTCTCAT
Found at i:94708131 original size:143 final size:143
Alignment explanation
Indices: 94707931--94708218 Score: 436
Period size: 143 Copynumber: 2.0 Consensus size: 143
94707921 TTTCTGTGTC
* * *
94707931 AAGGCACAATTTCAGGTTAATCTTATCCCCCCACGTCACTGCTATATTTTCTCTCACATTTTACC
1 AAGGCACAATTTCAGGTTAATCTTATCCCCCCACATCACTGCTATATTTCCCCTCACATTTTACC
* * * *
94707996 CTAGTCGATTCACTTCTTTTCTAACTTATTTTTTGTTTCATCTTCTTCACCTTTTTATGTTTTTA
66 CTAGTCGATTCACTTCTTTTCTAACTTACTTTCTGTTTCATCTT-TTCACATTCTTATGTTTTTA
94708061 ACT-TCAGAAATTGT
130 ACTCT-AGAAATTGT
* *
94708075 AAGGCACAATTTTAGGTTAATCTTCT-CCCCCACATCACTGCTATATTTCCCCTCACATTTTACC
1 AAGGCACAATTTCAGGTTAATCTTATCCCCCCACATCACTGCTATATTTCCCCTCACATTTTACC
* * *
94708139 CTAGTCGATTCACTTCTTTTCTAGCTTACTTTCTGTTTCATCTTTTTACATTCTTATGTTTTTTA
66 CTAGTCGATTCACTTCTTTTCTAACTTACTTTCTGTTTCATCTTTTCACATTCTTATGTTTTTAA
94708204 CTCTAGAAATTGT
131 CTCTAGAAATTGT
94708217 AA
1 AA
94708219 AGATCTCACT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
142 30 0.23
143 77 0.59
144 24 0.18
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.45
Consensus pattern (143 bp):
AAGGCACAATTTCAGGTTAATCTTATCCCCCCACATCACTGCTATATTTCCCCTCACATTTTACC
CTAGTCGATTCACTTCTTTTCTAACTTACTTTCTGTTTCATCTTTTCACATTCTTATGTTTTTAA
CTCTAGAAATTGT
Found at i:94720266 original size:22 final size:22
Alignment explanation
Indices: 94720226--94720285 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
94720216 CACTAGACAC
* *
94720226 AGGGGC-ACACGCCCATGTGGA
1 AGGGGCAACACCCCCGTGTGGA
94720247 AGGGGCAACACCCCCGTGTGGA
1 AGGGGCAACACCCCCGTGTGGA
94720269 AGGGGCAACACCCCCGT
1 AGGGGCAACACCCCCGT
94720286 TTGACCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 6 0.17
22 30 0.83
ACGTcount: A:0.23, C:0.33, G:0.35, T:0.08
Consensus pattern (22 bp):
AGGGGCAACACCCCCGTGTGGA
Found at i:94720478 original size:40 final size:40
Alignment explanation
Indices: 94720423--94720517 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
94720413 AGGCCTGGCT
* *
94720423 CACGCCCATGTCCTTGGCTGTGCCCCTCACACGGCCATGA
1 CACGCCCGTGTCCTTGGCAGTGCCCCTCACACGGCCATGA
*
94720463 CACGCCCGCGTCCTTGGCAGTGCCCCTCACACGGCCATGA
1 CACGCCCGTGTCCTTGGCAGTGCCCCTCACACGGCCATGA
94720503 CACGCCCGTGTCCTT
1 CACGCCCGTGTCCTT
94720518 ACCCGTATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.14, C:0.44, G:0.23, T:0.19
Consensus pattern (40 bp):
CACGCCCGTGTCCTTGGCAGTGCCCCTCACACGGCCATGA
Found at i:94749203 original size:46 final size:43
Alignment explanation
Indices: 94749118--94749240 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 43
94749108 TTTGTGTGCT
*
94749118 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTTGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCATGATGT-A-CC
**
94749164 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGATGTATT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CATGATGTACC
* *
94749208 AGTATAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
94749241 ACGGATACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 8 0.12
45 16 0.23
46 45 0.65
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCATGATGTACC
Found at i:94749325 original size:47 final size:49
Alignment explanation
Indices: 94749207--94749334 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 49
94749197 CATGATGTAT
* *
94749207 TAGTATAAGACCATGTTTGGGACATGGCATCGGCACGGATACATGGGAG
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATACATGAGAG
* * * ** *
94749256 TCATTGTAAGACCATGTCTGGGACATAGCATC-G-ACTTA-ACGTGAGAG
1 T-AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATACATGAGAG
94749303 CTAGTGTAAGACCATGTTTGGGACATGGCATC
1 -TAGTGTAAGACCATGTTTGGGACATGGCATC
94749335 AAAATTATAC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 34 0.52
48 4 0.06
49 2 0.03
50 26 0.39
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATACATGAGAG
Found at i:94750538 original size:21 final size:22
Alignment explanation
Indices: 94750499--94750539 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
94750489 TTGAATTGGT
*
94750499 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
94750521 CACACGGGCATG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
94750540 ACGTCTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:94762178 original size:17 final size:18
Alignment explanation
Indices: 94762146--94762181 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
94762136 GTGTTTTACA
*
94762146 CGTGTGGGCCCACACGCC
1 CGTGTGGGCACACACGCC
94762164 CGTGT-GGCACACACGCC
1 CGTGTGGGCACACACGCC
94762181 C
1 C
94762182 AGATTAGTCT
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:0.14, C:0.44, G:0.31, T:0.11
Consensus pattern (18 bp):
CGTGTGGGCACACACGCC
Found at i:94772740 original size:18 final size:17
Alignment explanation
Indices: 94772702--94772740 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
94772692 TGCTTTTAGG
*
94772702 AAAATCATTGTTTGCAT
1 AAAATCATTGTTTCCAT
*
94772719 AAAATCGTTGTTTCCAAT
1 AAAATCATTGTTTCC-AT
94772737 AAAA
1 AAAA
94772741 CTTTTTACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (17 bp):
AAAATCATTGTTTCCAT
Found at i:94773857 original size:136 final size:136
Alignment explanation
Indices: 94773613--94773873 Score: 321
Period size: 136 Copynumber: 1.9 Consensus size: 136
94773603 ATTCCACACA
* * * *
94773613 CCCGTGTGGCCTACACAGCCACACTCGAGCCACCACATGGTCGTATGCCGCGGACGGCCATGCCT
1 CCCGTGTGGCCCACACAGCCACACTCGAGCCACCACATGCTCGTATGCCGCGCACGACCATGCCT
* * * * * * *
94773678 TCGTTGACCATATGACCGTGTTCTCACACATGGCCTACCACACGGGTGACCACACACCCAGATTG
66 TCGTCGACCACACGACCATGTTCTCACACACGGCCTACCACACGGGCGACAACACACCCAGATTG
94773743 GTCTTG
131 GTCTTG
*
94773749 CCCGTGTGGCCCACA-AGGCCACACTCGAGCCACCATACA-GCT-GTATGCCGTGCACGACCATG
1 CCCGTGTGGCCCACACA-GCCACACTCGAGCCACC--ACATGCTCGTATGCCGCGCACGACCATG
* * ** *
94773811 CCTTTGTCGACCACACGGCCATGTTCTTGCACACGGCCTACCACACGGGCGACAACACGCCCA
63 CCTTCGTCGACCACACGACCATGTTCTCACACACGGCCTACCACACGGGCGACAACACACCCA
94773874 TGTAGTGTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
135 1 0.01
136 99 0.94
137 2 0.02
138 3 0.03
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.18
Consensus pattern (136 bp):
CCCGTGTGGCCCACACAGCCACACTCGAGCCACCACATGCTCGTATGCCGCGCACGACCATGCCT
TCGTCGACCACACGACCATGTTCTCACACACGGCCTACCACACGGGCGACAACACACCCAGATTG
GTCTTG
Found at i:94784479 original size:47 final size:44
Alignment explanation
Indices: 94784410--94784721 Score: 220
Period size: 47 Copynumber: 6.7 Consensus size: 44
94784400 AATGCTGATG
* *
94784410 CCATGTCACAGACATGGTCTTACACTGGCTCCTCCATCAA-GTCGAT
1 CCATGTCCCAGACATGGTCTTACACTAGCT-CT-CAT-AATGTCGAT
* * *
94784456 CCCATGTCCCAGACATGGTCTTACACTATCTCTCACATATACGTGCCAAT
1 -CCATGTCCCAGACATGGTCTTACACTAGCTCT--CATA-A--TGTCGAT
* * * * *
94784506 GCCATGTCCCAGACATGGTCTTATACTAACACCTCTATACGTGCCGATT
1 -CCATGTCCCAGACATGGTCTTACACTAGC-TCTC-ATA-ATGTCGA-T
* * * * *
94784555 CCATGTCCCAGACATGGTCTTACATTGACACATCTCGT-A-GCCAAT
1 CCATGTCCCAGACATGGTCTTACACT-A-GC-TCTCATAATGTCGAT
*
94784600 GCATGTCCCAGACAT-GTCTTACACTAGCTCTCATTTCAATGTCGAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATGTCGAT
94784646 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGTCGAT
1 -CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA--T-GTCGAT
*
94784694 GCATGTCCCAGACAT-GTCTTACACTAGC
1 CCATGTCCCAGACATGGTCTTACACTAGC
94784722 ACACAAATAA
Statistics
Matches: 218, Mismatches: 27, Indels: 41
0.76 0.09 0.14
Matches are distributed among these distances:
41 4 0.02
42 1 0.00
43 2 0.01
44 9 0.04
45 18 0.08
46 25 0.11
47 60 0.28
48 53 0.24
49 4 0.02
50 40 0.18
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (44 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTCGAT
Found at i:94784564 original size:48 final size:50
Alignment explanation
Indices: 94784452--94784719 Score: 183
Period size: 48 Copynumber: 5.6 Consensus size: 50
94784442 TCCATCAAGT
* *
94784452 CGATCCCATGTCCCAGACATGGTCTTACACTATCTCTCACATATACGTGC
1 CGATCCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGTGC
* * * *
94784502 CAATGCCATGTCCCAGACATGGTCTTATACTAACAC-CTC-TATACGTGC
1 CGATCCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGTGC
* ** *
94784550 CGATTCCATGTCCCAGACATGGTCTTACA-T-TGA--CACATCT-CGTAGC
1 CGATCCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGT-GC
* * * * * * *
94784596 CAAT-GCATGTCCCAGACAT-GTCTTACACT-A-GCTCTCAT-TTCAATGT
1 CGATCCCATGTCCCAGACATGGTCTTACACTAACACTCACATATAC-GTGC
* * * * *
94784642 CGATGCCATGTCCCAGACATGGTCTTACACT-A-GCTCTCATA-ATGTGGT
1 CGATCCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGT-GC
*
94784690 CGAT-GCATGTCCCAGACAT-GTCTTACACTA
1 CGATCCCATGTCCCAGACATGGTCTTACACTA
94784720 GCACACAAAT
Statistics
Matches: 180, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 8 0.04
45 21 0.12
46 27 0.15
47 31 0.17
48 60 0.33
49 2 0.01
50 31 0.17
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (50 bp):
CGATCCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGTGC
Found at i:94789080 original size:65 final size:66
Alignment explanation
Indices: 94788964--94789090 Score: 159
Period size: 65 Copynumber: 1.9 Consensus size: 66
94788954 CCAAAATAAC
* * * *
94788964 ATATAACTTATGAAGAAACTAAAACTTAGACTATAAATATATACGTGT-AAAATATTTAAAGGTG
1 ATATAACTTATCAAGAAACTAAAACTTAAACTATAAATATATACATATAAAAATATTTAAAGGTG
94789028 T
66 T
* * *
94789029 ATATAATTTATCAAGAAACTAAAAAC-TAAACTATAAATATGTATATATAAAAAATATTTAAA
1 ATATAACTTATCAAGAAACT-AAAACTTAAACTATAAATATATACATAT-AAAAATATTTAAA
94789091 AATGCCAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 35 0.67
66 5 0.10
67 12 0.23
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (66 bp):
ATATAACTTATCAAGAAACTAAAACTTAAACTATAAATATATACATATAAAAATATTTAAAGGTG
T
Found at i:94791149 original size:32 final size:32
Alignment explanation
Indices: 94791113--94791176 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
94791103 TTTTGGGTGC
*
94791113 AAATGTTTTCTTTTAAATAATGGAAATGACAA
1 AAATGTTTTCTTTTAAATAATAGAAATGACAA
94791145 AAATGTTTTCTTTTAAATAATAGAAATGACAA
1 AAATGTTTTCTTTTAAATAATAGAAATGACAA
94791177 CCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (32 bp):
AAATGTTTTCTTTTAAATAATAGAAATGACAA
Found at i:94791219 original size:16 final size:16
Alignment explanation
Indices: 94791198--94791229 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94791188 TTGATCAAAA
94791198 AGTGATGAAAGAATTT
1 AGTGATGAAAGAATTT
*
94791214 AGTGATGAAGGAATTT
1 AGTGATGAAAGAATTT
94791230 TTCTTGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (16 bp):
AGTGATGAAAGAATTT
Found at i:94797137 original size:11 final size:10
Alignment explanation
Indices: 94797078--94797136 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
94797068 GTTATATATA
*
94797078 ATAATATAAT
1 ATAATAAAAT
94797088 ATGAATAAAAT
1 AT-AATAAAAT
**
94797099 ATAAGGAAAT
1 ATAATAAAAT
94797109 ATAATATAAA-
1 ATAATA-AAAT
94797119 ATAATAAGAAT
1 ATAATAA-AAT
94797130 ATAATAA
1 ATAATAA
94797137 GTATTTTGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:94797196 original size:21 final size:21
Alignment explanation
Indices: 94797172--94797213 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
94797162 AAATGATTAG
94797172 TATA-AAAAACAAAATAAATAA
1 TATATAAAAA-AAAATAAATAA
* *
94797193 TATATAATAAAAAATATATAA
1 TATATAAAAAAAAATAAATAA
94797214 GAAAGATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
TATATAAAAAAAAATAAATAA
Found at i:94797203 original size:14 final size:14
Alignment explanation
Indices: 94797184--94797213 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94797174 TAAAAAACAA
*
94797184 AATAAATAATATAT
1 AATAAAAAATATAT
94797198 AATAAAAAATATAT
1 AATAAAAAATATAT
94797212 AA
1 AA
94797214 GAAAGATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAAATATAT
Found at i:94797501 original size:17 final size:18
Alignment explanation
Indices: 94797472--94797513 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
94797462 GAATATTATA
*
94797472 AAAT-AAATAATATACAT
1 AAATAAAATAATATAAAT
*
94797489 ATATAAAAT-ATATAAAT
1 AAATAAAATAATATAAAT
94797506 AAATAAAA
1 AAATAAAA
94797514 GGTGTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAAATAATATAAAT
Found at i:94797907 original size:22 final size:21
Alignment explanation
Indices: 94797881--94797921 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
94797871 ATTAGGGCTA
94797881 AATTAGAAATAAATAAAAATAG
1 AATTAGAAAT-AATAAAAATAG
* *
94797903 AATTATAAATATTAAAAAT
1 AATTAGAAATAATAAAAAT
94797922 GCAAGAGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AATTAGAAATAATAAAAATAG
Found at i:94799698 original size:186 final size:182
Alignment explanation
Indices: 94799386--94799741 Score: 516
Period size: 186 Copynumber: 1.9 Consensus size: 182
94799376 CGCGAAAACC
* **
94799386 AAATCAGTTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATAACCATCTTGGATCTGCTTCGG
1 AAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATAACCATCTTGGATCTGCTTCAA
* * ** * *
94799451 TCTAATCATCTGAAGGTTAGATCTGCTATGTGTCAGCCCTCCGTCAAATATGGAGACGCCAAACA
66 TATAAACATCTGAAGGCCAGATCTGCTATGTATCAGCCCTCCGTCAAATATGGAAACGCCAAACA
94799516 TCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTCACATGAAAGCT
131 TCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTCACATGAAAGCT
*
94799568 AAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGC
1 AAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGAT----AACCATCTTGGATCTGC
* * * *
94799632 TTCAATATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTTCGTCGAATATGGAAACGCC
61 TTCAATATAAACATCTGAAGGCCAGATCTGCTATGTATCAGCCCTCCGTCAAATATGGAAACGCC
* *
94799697 AAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCT
126 AAACATCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCT
94799742 TAGATTTGCT
Statistics
Matches: 153, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
182 40 0.26
183 1 0.01
186 112 0.73
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (182 bp):
AAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATAACCATCTTGGATCTGCTTCAA
TATAAACATCTGAAGGCCAGATCTGCTATGTATCAGCCCTCCGTCAAATATGGAAACGCCAAACA
TCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTCACATGAAAGCT
Found at i:94799942 original size:207 final size:207
Alignment explanation
Indices: 94799560--94800039 Score: 829
Period size: 207 Copynumber: 2.3 Consensus size: 207
94799550 TCATCTCACA
* * *
94799560 TGAAAGCTAAATCAGCTATGAT-TTCGA-TTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
1 TGAAAGCCAAATCAGCTATG-TCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * *
94799623 TGGATCTGCTTCAATATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTTCGTCGAATAT
65 TGGATATGCTTCAATATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCGAATAT
94799688 GGAAACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTT
130 GGAAACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTT
94799753 CATCGTAAGCACG
195 CATCGTAAGCACG
* *
94799766 TGAAAGCCAAATCAGCTATGTCTTCAATTTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTT
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
94799831 GGATATGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCGAATATG
66 GGATATGCTTCAATATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCGAATATG
* *
94799896 GAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
131 GAAACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
94799961 ATCGTAAGCACG
196 ATCGTAAGCACG
*
94799973 TGAAAGCCAAATCAGCTATGTCTTCGGTTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
94800038 GG
66 GG
94800040 TTCTTGCTTC
Statistics
Matches: 258, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 23 0.09
207 234 0.91
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (207 bp):
TGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATATGCTTCAATATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCGAATATG
GAAACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
ATCGTAAGCACG
Found at i:94809723 original size:40 final size:39
Alignment explanation
Indices: 94809668--94809806 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 39
94809658 GATTTGGTAT
* * **
94809668 CCTTCGGGTCTTAGCCCGGATATGA-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATAT-ATC-ACTAGCATAAATG
*
94809708 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATAT-ATCACTAGCATAAATG
94809748 CCTTCGGGACTTAGCCCGGATATATTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATA-TCACTAGCATAAATG
94809788 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94809807 GTATCATTCA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 90 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATATCACTAGCATAAATG
Found at i:94810567 original size:2 final size:2
Alignment explanation
Indices: 94810560--94810592 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94810550 ATGTGCAAAC
94810560 AT AT AT AT 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 AT AT AT A
94810593 CATGCAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94815133 original size:11 final size:10
Alignment explanation
Indices: 94815074--94815132 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
94815064 AGTATATATA
*
94815074 ATAATATAAT
1 ATAATAAAAT
94815084 ATGAATAAAAT
1 AT-AATAAAAT
**
94815095 ATAAGGAAAT
1 ATAATAAAAT
94815105 ATAATATAAA-
1 ATAATA-AAAT
94815115 ATAATAAGAAT
1 ATAATAA-AAT
94815126 ATAATAA
1 ATAATAA
94815133 GTATTTTGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:94816017 original size:22 final size:21
Alignment explanation
Indices: 94815991--94816032 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94815981 ATTAGGGCTA
94815991 AATTAGAAATAAATAAAAATGG
1 AATTAGAAAT-AATAAAAATGG
* *
94816013 AATTATAAATATTAAAAATG
1 AATTAGAAATAATAAAAATG
94816033 CAAGAGGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTAGAAATAATAAAAATGG
Found at i:94818365 original size:18 final size:18
Alignment explanation
Indices: 94818339--94818377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
94818329 TATACAGTAC
94818339 TTTTCTTTTTCTTT-TCTT
1 TTTTCTTTTT-TTTGTCTT
*
94818357 TTTTTTTTTTTTTGTCTT
1 TTTTCTTTTTTTTGTCTT
94818375 TTT
1 TTT
94818378 AAGGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (18 bp):
TTTTCTTTTTTTTGTCTT
Found at i:94818377 original size:11 final size:11
Alignment explanation
Indices: 94818338--94818376 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
94818328 GTATACAGTA
94818338 CTTTTCTTTTT
1 CTTTTCTTTTT
94818349 CTTTTCTTTTT
1 CTTTTCTTTTT
* *
94818360 TTTTTTTTTTGT
1 CTTTTCTTTT-T
94818372 CTTTT
1 CTTTT
94818377 TAAGGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:94818886 original size:19 final size:19
Alignment explanation
Indices: 94818844--94818889 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
94818834 AAAAATTAAA
* * *
94818844 AAAAAATCAAAATATTTTT
1 AAAAATTCAAAATATGTAT
*
94818863 TAAAATTCAAAATATGTAT
1 AAAAATTCAAAATATGTAT
94818882 AAAAATTC
1 AAAAATTC
94818890 CAATTTTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATGTAT
Found at i:94822133 original size:19 final size:19
Alignment explanation
Indices: 94822102--94822141 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
94822092 TTGGTGTGCA
94822102 TTTTGCTTTCTTGTGGCTT
1 TTTTGCTTTCTTGTGGCTT
*
94822121 TTTTG-TTTGCTTGTTGCTT
1 TTTTGCTTT-CTTGTGGCTT
94822140 TT
1 TT
94822142 CACTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.00, C:0.12, G:0.20, T:0.68
Consensus pattern (19 bp):
TTTTGCTTTCTTGTGGCTT
Found at i:94822700 original size:33 final size:33
Alignment explanation
Indices: 94822635--94822702 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
94822625 TAATGCTCTC
* * *
94822635 GAAGCTATGGTGATAGCTTTGAACGAGGAAATT
1 GAAGCCATGGTGATAGATTTGAACGAGAAAATT
*
94822668 GAAGCCATGGTGATGGATTTGAAC-ACGAAAATT
1 GAAGCCATGGTGATAGATTTGAACGA-GAAAATT
94822701 GA
1 GA
94822703 TTAGCTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.25
Consensus pattern (33 bp):
GAAGCCATGGTGATAGATTTGAACGAGAAAATT
Found at i:94824067 original size:14 final size:14
Alignment explanation
Indices: 94824050--94824079 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94824040 TTATTTATCA
94824050 AATTAATTTTAATT
1 AATTAATTTTAATT
*
94824064 AATTATTTTTAATT
1 AATTAATTTTAATT
94824078 AA
1 AA
94824080 ATAAGTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTAATTTTAATT
Found at i:94826446 original size:35 final size:35
Alignment explanation
Indices: 94826407--94826477 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
94826397 GGAGACACTT
*
94826407 CAAAAGAGGTTTAAAAGTGTAAAACTATAGCTCGA
1 CAAAAGAGGTTTAAAAGTGTAAAACTATAGCACGA
94826442 CAAAAGAGGTTTAAAAGTGTAAAACTATAGCACGA
1 CAAAAGAGGTTTAAAAGTGTAAAACTATAGCACGA
94826477 C
1 C
94826478 TATGACAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (35 bp):
CAAAAGAGGTTTAAAAGTGTAAAACTATAGCACGA
Found at i:94826741 original size:161 final size:159
Alignment explanation
Indices: 94826477--94826800 Score: 382
Period size: 161 Copynumber: 2.0 Consensus size: 159
94826467 TATAGCACGA
* * * * *
94826477 CTATGACAACCAATAGAGTCTGTTGGGAAATTAACATGAGGTTACATGTGTAAGATCATAGCTCA
1 CTATGACAACCAATAGAGTCCGTCGAGAAATAAACATGAGGTTACATGTGTAAGACCATAGCTCA
* * * * * *
94826542 GTTATAGTAGCATAAGGAGTCCATTAGGACAGTAAACACAAGGTAATCTGCTAGGATATCAAATA
66 GTTATAGCAGCATAAGAAGTCCATCAGGACAGTAAACACAAGGTAATCTACTAGGACATCAAACA
*
94826607 TGGGGTTACATGTGTAAGACCATAGATCAC
131 TGGGGTTA-ATATGTAAGACCATAGATCAC
*
94826637 CTATGACAACCAATAGAGTCCGTCGAGACATCAAACAT-AGGGTTACATGTGTAAGACCATAGCT
1 CTATGACAACCAATAGAGTCCGTCGAGAAAT-AAACATGA-GGTTACATGTGTAAGACCATAGCT
* * * * * * * *
94826701 -TGTTTGTGGCAGCATAAGAAGTCTATCGGGATAGTAAACACGAGGTAATCTACTAGGACATTAA
64 CAG-TTATAGCAGCATAAGAAGTCCATCAGGACAGTAAACACAAGGTAATCTACTAGGACATCAA
* * *
94826765 ACATGGGGTTAATATGTAAGATCATAGCTCAG
128 ACATGGGGTTAATATGTAAGACCATAGATCAC
94826797 CTAT
1 CTAT
94826801 TGCAGCATAA
Statistics
Matches: 137, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
160 50 0.36
161 87 0.64
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (159 bp):
CTATGACAACCAATAGAGTCCGTCGAGAAATAAACATGAGGTTACATGTGTAAGACCATAGCTCA
GTTATAGCAGCATAAGAAGTCCATCAGGACAGTAAACACAAGGTAATCTACTAGGACATCAAACA
TGGGGTTAATATGTAAGACCATAGATCAC
Found at i:94831791 original size:33 final size:33
Alignment explanation
Indices: 94831754--94831818 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
94831744 TTTGGTTAGA
94831754 TAGTTAAATGTTAGTAGTTTTATCTTCAAGTCG
1 TAGTTAAATGTTAGTAGTTTTATCTTCAAGTCG
94831787 TAGTTAAATGTTAGTAGTTTTATCTTCAAGTC
1 TAGTTAAATGTTAGTAGTTTTATCTTCAAGTC
94831819 TCAAGTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (33 bp):
TAGTTAAATGTTAGTAGTTTTATCTTCAAGTCG
Found at i:94835184 original size:40 final size:40
Alignment explanation
Indices: 94835057--94835186 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
94835047 ATGCTGGAAA
* *
94835057 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
94835097 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
94835137 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
94835177 TTATATCCGG
1 TTATATCCGG
94835187 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:94843136 original size:40 final size:40
Alignment explanation
Indices: 94843070--94843219 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
94843060 AAATTGAATG
* * *
94843070 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
94843109 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
94843149 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
94843189 CTATCCGGGCTAAGACCCGAAGGC-ATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
94843220 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.22
40 72 0.78
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:94846954 original size:16 final size:17
Alignment explanation
Indices: 94846908--94846994 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
94846898 TTATGTAATA
*
94846908 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
94846924 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
*
94846941 TAATTAT-A-TATTATTAC
1 T-ATTATAAGTATTATT-T
*
94846958 TACTTATTATGTATTATTT
1 TA-TTA-TAAGTATTATTT
*
94846977 T-TCT-TAAATATTATTT
1 TAT-TATAAGTATTATTT
94846993 TA
1 TA
94846995 CATCTCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 27 0.48
17 14 0.25
18 7 0.12
19 1 0.02
20 7 0.12
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:94847136 original size:24 final size:22
Alignment explanation
Indices: 94847080--94847152 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
94847070 ATATTATATC
*
94847080 TATTATTTTTCTTATATGTTTA
1 TATTATTTTTCTTATATATTTA
*
94847102 TATTACATTTTCTTATATAATCTT-
1 TATTA-TTTTTCTTATAT-AT-TTA
*
94847126 TATTATGTTT-TTAT-T-TTTA
1 TATTATTTTTCTTATATATTTA
94847145 TATTATTT
1 TATTATTT
94847153 ATTGTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.05
19 8 0.19
21 1 0.02
22 9 0.21
23 14 0.33
24 6 0.14
25 2 0.05
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (22 bp):
TATTATTTTTCTTATATATTTA
Found at i:94847150 original size:19 final size:20
Alignment explanation
Indices: 94847126--94847172 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
94847116 ATATAATCTT
94847126 TATTATGTT-TT-TATTTTTA
1 TATTATGTTATTGT-TTTTTA
94847145 TATTAT-TTATTGTTTTTTA
1 TATTATGTTATTGTTTTTTA
94847164 TATATATGT
1 TAT-TATGT
94847173 ATATCATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.08
19 17 0.71
20 4 0.17
21 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (20 bp):
TATTATGTTATTGTTTTTTA
Found at i:94847218 original size:2 final size:2
Alignment explanation
Indices: 94847207--94847235 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
94847197 ATTTATGTTA
94847207 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94847236 TATTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:94847749 original size:16 final size:17
Alignment explanation
Indices: 94847728--94847763 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
94847718 GCATTTTTTT
*
94847728 TTCTTTATAT-GTATTA
1 TTCTTTATATCGTAGTA
94847744 TTCTTTATATCGTAGTA
1 TTCTTTATATCGTAGTA
94847761 TTC
1 TTC
94847764 ATTTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (17 bp):
TTCTTTATATCGTAGTA
Found at i:94850118 original size:2 final size:2
Alignment explanation
Indices: 94850105--94850141 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
94850095 ACATGCATGC
*
94850105 AT AT AT AA AT AT 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 AT AT AT AT AT A
94850142 AGCTTACAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:94851727 original size:36 final size:36
Alignment explanation
Indices: 94851681--94851749 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
94851671 TTTAATGAAA
94851681 TGTTGTTGTTTCCTATTTATTTATTTTCTCTAACTT
1 TGTTGTTGTTTCCTATTTATTTATTTTCTCTAACTT
94851717 TGTTGTTGTTTCCTATTTATTTATTTTCTCTAA
1 TGTTGTTGTTTCCTATTTATTTATTTTCTCTAA
94851750 TTTTTCTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.14, C:0.13, G:0.09, T:0.64
Consensus pattern (36 bp):
TGTTGTTGTTTCCTATTTATTTATTTTCTCTAACTT
Found at i:94855353 original size:132 final size:132
Alignment explanation
Indices: 94855112--94855353 Score: 360
Period size: 132 Copynumber: 1.8 Consensus size: 132
94855102 ACAATTATTT
* *
94855112 AAAATTCTTTAAAATGAAGATGAGATTCGATATTTGGCAACTCACGGAATAGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGATAAGATTCGATATTTGGCAACTCACGGAATAGTGCCCTAACGTGT
* * * *
94855177 TGGGTTGCAATTTCGCGTTTGCTCGAAATAATCGAATATTCCTTCAAACTTTCACTCATGCCTTT
66 TGGGTCGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGCCTTT
94855242 TA
131 TA
* * * * *
94855244 AAAATTCTTTAAAACGAAGGTAA-AGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAATTCTTTAAAACGAAGATAAGA-TTCGATATTTGGCAACTCACGGAATAGTGCCCTAACGTG
*
94855308 TTGGGTCGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTC
65 TTGGGTCGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTC
94855354 GAGATTCCAT
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 96 0.99
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (132 bp):
AAAATTCTTTAAAACGAAGATAAGATTCGATATTTGGCAACTCACGGAATAGTGCCCTAACGTGT
TGGGTCGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGCCTTT
TA
Found at i:94855389 original size:132 final size:132
Alignment explanation
Indices: 94855140--94855395 Score: 343
Period size: 132 Copynumber: 1.9 Consensus size: 132
94855130 GATGAGATTC
* *
94855140 GATATTTGGCAACTCACGGAATAGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCGAAA
1 GATATTTGGCAACTCACGGAATAGTGCCCTAACGTGTTGGGTCGCAATTTCGCGTTTGCTCAAAA
* * * * * * *
94855205 TAATCGAATATTCCTTCAAACTTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGGTAAAGT
66 TAATCAAATATCCCTTCAAACTTCCACTCAGGCCTTCTAAAAATCCTCTAAAACGAAGGTAAAGT
94855270 TT
131 TT
* * * *
94855272 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTCGCAATTTCTCGTTTGCTCAAAA
1 GATATTTGGCAACTCACGGAATAGTGCCCTAACGTGTTGGGTCGCAATTTCGCGTTTGCTCAAAA
* * * *
94855337 TAATCAAATATCCCTTCGAGA-TTCCATTCAGGTCTTCTAAGAATCCTCTAAAACGAAGG
66 TAATCAAATATCCCTTC-AAACTTCCACTCAGGCCTTCTAAAAATCCTCTAAAACGAAGG
94855396 CAATACTCGG
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
132 104 0.98
133 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
GATATTTGGCAACTCACGGAATAGTGCCCTAACGTGTTGGGTCGCAATTTCGCGTTTGCTCAAAA
TAATCAAATATCCCTTCAAACTTCCACTCAGGCCTTCTAAAAATCCTCTAAAACGAAGGTAAAGT
TT
Found at i:94886677 original size:18 final size:17
Alignment explanation
Indices: 94886643--94886716 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 17
94886633 ATTTGTTTCT
*
94886643 TTTATTTTATT-TAATTA
1 TTTATTATATTAT-ATTA
94886660 CTTTATTATATTATATTA
1 -TTTATTATATTATATTA
*
94886678 TATTATTATAATATATT-
1 T-TTATTATATTATATTA
* *
94886695 TTAATCATTATTATTATTA
1 TTTATTA-TATTA-TATTA
94886714 TTT
1 TTT
94886717 TATAATATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.09
17 6 0.13
18 32 0.71
19 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTATATTATATTA
Found at i:94886678 original size:13 final size:13
Alignment explanation
Indices: 94886668--94886720 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
94886658 TACTTTATTA
94886668 TATTATATTATAT
1 TATTATATTATAT
*
94886681 TATTATAATATAT
1 TATTATATTATAT
94886694 T-TTAATCATTATTAT
1 TATT-AT-ATTA-TAT
*
94886709 TATTATTTTATA
1 TATTATATTATA
94886721 ATATAAGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 2 0.06
13 17 0.52
14 6 0.18
15 6 0.18
16 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:94888002 original size:40 final size:40
Alignment explanation
Indices: 94887941--94888025 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
94887931 AAATGTCCCT
* *
94887941 TTTCACATATCCATATTCATATAAACACTTCATATAACCG
1 TTTCAAATATCCATATTCATATAAACACTTCATATAACCA
* * **
94887981 TTTCAAATATCTAT-TTCCATATAAACATTTTGTATAACCA
1 TTTCAAATATCCATATT-CATATAAACACTTCATATAACCA
94888021 TTTCA
1 TTTCA
94888026 TCTAAATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.40
Consensus pattern (40 bp):
TTTCAAATATCCATATTCATATAAACACTTCATATAACCA
Found at i:94889232 original size:27 final size:27
Alignment explanation
Indices: 94889194--94889250 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
94889184 TGTAACATAC
94889194 ACATGCAAGGACCGAAAGCTTCCATCA
1 ACATGCAAGGACCGAAAGCTTCCATCA
94889221 ACATGCAAGGACCGAAAGCTTCCATCA
1 ACATGCAAGGACCGAAAGCTTCCATCA
94889248 ACA
1 ACA
94889251 AAAATGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.14
Consensus pattern (27 bp):
ACATGCAAGGACCGAAAGCTTCCATCA
Found at i:94894542 original size:52 final size:52
Alignment explanation
Indices: 94894485--94894588 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
94894475 TAAAAAATTA
* *
94894485 GAGAAACGAGAAAAATTTT-GAAATGATTATGGTTTTCTCCAAAATGAAAATG
1 GAGAAACG-GAAAAATTTTGGAAATGAATATGGTTTTCTCCAAAATAAAAATG
* ** * *
94894537 GAGAAATGGAATCATTTTGGAAATGAATGTGGTTTTCTCCAAATTAAAAATG
1 GAGAAACGGAAAAATTTTGGAAATGAATATGGTTTTCTCCAAAATAAAAATG
94894589 AAAATGACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 8 0.18
52 36 0.82
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (52 bp):
GAGAAACGGAAAAATTTTGGAAATGAATATGGTTTTCTCCAAAATAAAAATG
Found at i:94900029 original size:22 final size:22
Alignment explanation
Indices: 94899995--94900057 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
94899985 CACTTGACAC
94899995 AAGGGC-ACACGCCCGTGTGGG
1 AAGGGCAACACGCCCGTGTGGG
94900016 AAGGGCAACACGCCCGTGTGGG
1 AAGGGCAACACGCCCGTGTGGG
* *
94900038 AAGGGCAATACGCCAGTGTG
1 AAGGGCAACACGCCCGTGTG
94900058 ACCAAATCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 6 0.15
22 33 0.85
ACGTcount: A:0.24, C:0.25, G:0.40, T:0.11
Consensus pattern (22 bp):
AAGGGCAACACGCCCGTGTGGG
Found at i:94900231 original size:13 final size:13
Alignment explanation
Indices: 94900195--94900232 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
94900185 CCTGGCACAC
*
94900195 GCCCGTGTCCCTG
1 GCCCGTGTCCTTG
*
94900208 GCCTGTGTCCTTG
1 GCCCGTGTCCTTG
94900221 GCCCGTGTCCTT
1 GCCCGTGTCCTT
94900233 CACATGGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.39, G:0.29, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:94901328 original size:47 final size:46
Alignment explanation
Indices: 94901222--94901478 Score: 218
Period size: 47 Copynumber: 5.5 Consensus size: 46
94901212 GGGGTAGGGT
* *
94901222 GCCGATGCCATATCCCAAACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-ATATCTCGAA
* * * * *
94901269 GTCGATACCATGTCCCAGACATGGTCTTACACTGACTATCATTTCGTA
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTGGCTAT-ATCTCGAA
*
94901317 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC-TATATCTCGAA
* * * ** *
94901363 GCCGATGCATGTCCTAGACAT-CTCTTACACTAGAACT-CGTCTCGAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT-G-GCTATATCTCGAA
* * * **
94901409 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAAT-GTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-ATAT-CTCGAA
94901457 GCCGATGCATGTCCCAGACATG
1 GCCGATGCATGTCCCAGACATG
94901479 TGTTTACTAG
Statistics
Matches: 171, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
46 64 0.37
47 81 0.47
48 25 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATATCTCGAA
Found at i:94901421 original size:93 final size:93
Alignment explanation
Indices: 94901220--94901446 Score: 275
Period size: 93 Copynumber: 2.4 Consensus size: 93
94901210 ATGGGGTAGG
* *
94901220 GTGCCGATGCCATATCCCAAACATGGTCTTACACTGGCTCATATCTCAAGTCGATACCATGTCCC
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGCCGATACCATGTCCC
* *
94901285 AGACATGGTCTTACACTGACTATCATTTC
66 AGACATGCTCTTACACTGAC-ATCATCTC
* * * *
94901314 GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAAGCCGAT-GCATGTC
1 GT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTC-AAGCCGATACCATGTC
* *
94901376 CTAGACAT-CTCTTACACTAGA-ACTCGTCTC
64 CCAGACATGCTCTTACACT-GACA-TCATCTC
94901406 GATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
1 G-TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
94901447 TTATAATGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
91 1 0.01
92 22 0.19
93 49 0.43
94 35 0.31
95 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGCCGATACCATGTCCC
AGACATGCTCTTACACTGACATCATCTC
Found at i:94912033 original size:28 final size:28
Alignment explanation
Indices: 94911990--94912086 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
94911980 ATTTAAACCC
*
94911990 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
*
94912017 TAAGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
94912045 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
94912073 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
94912087 TGATCTACGT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.13
28 55 0.87
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:94912737 original size:27 final size:27
Alignment explanation
Indices: 94912707--94912768 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
94912697 GGGCAAAATG
94912707 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
94912734 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
94912761 GTAATTTT
1 GTAATTTT
94912769 TCAAACCGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:94912783 original size:54 final size:54
Alignment explanation
Indices: 94912725--94912874 Score: 142
Period size: 54 Copynumber: 2.8 Consensus size: 54
94912715 ACCCCACAAG
** * *
94912725 GGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCGTT
1 GGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCGTT
** * *
94912779 GGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG-G
1 GGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACC-GTT
** * * * *
94912833 GGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
94912875 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 80 0.96
55 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCGTT
Found at i:94912840 original size:81 final size:81
Alignment explanation
Indices: 94912722--94912874 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
94912712 TTTACCCCAC
** ***
94912722 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCGTTGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
94912786 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
94912803 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
94912867 TGGTAATT
65 TGGTAATT
94912875 CTGTAAATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:94912881 original size:27 final size:27
Alignment explanation
Indices: 94912751--94912874 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
94912741 TACCCTACAG
* **
94912751 GGGTATTTTAGTAATTTT-TCAAACCGT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
* *
94912778 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
94912805 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
94912832 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
94912859 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
94912875 CTGTAAATTG
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 80 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:94912888 original size:27 final size:27
Alignment explanation
Indices: 94912858--94912928 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
94912848 TTATAAACCA
* *
94912858 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
94912885 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
94912912 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
94912929 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:94912890 original size:54 final size:54
Alignment explanation
Indices: 94912751--94912874 Score: 187
Period size: 54 Copynumber: 2.3 Consensus size: 54
94912741 TACCCTACAG
* *
94912751 GGGTATTTTAGTAATTTTTCAAACC-GTTGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTATAAACAAA
* *
94912805 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
94912859 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
94912875 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 63 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:94914094 original size:33 final size:34
Alignment explanation
Indices: 94914033--94914099 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
94914023 AATGAAGATG
94914033 ATTGATTATGCTAGTGGAGGGGAACATGACTTCT
1 ATTGATTATGCTAGTGGAGGGGAACATGACTTCT
94914067 ATTGATTATGCTAGTGGA-GGGAACATGACTTCT
1 ATTGATTATGCTAGTGGAGGGGAACATGACTTCT
94914100 CAGAGAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 15 0.45
34 18 0.55
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (34 bp):
ATTGATTATGCTAGTGGAGGGGAACATGACTTCT
Found at i:94917766 original size:41 final size:39
Alignment explanation
Indices: 94917691--94917767 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 39
94917681 ATAAAGCAAT
* * * *
94917691 AAATAAAAAATGAAAATAACTTTAAGTAATTAAAGATAA
1 AAATAAAAAATGAAAATAAATTAAAGCAACTAAAGATAA
*
94917730 AAATAATAAGAATGAAATTAAATTAAAGCAACTAAAGA
1 AAATAA-AA-AATGAAAATAAATTAAAGCAACTAAAGA
94917768 AAAGAAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 6 0.19
40 2 0.06
41 23 0.74
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (39 bp):
AAATAAAAAATGAAAATAAATTAAAGCAACTAAAGATAA
Found at i:94920245 original size:23 final size:23
Alignment explanation
Indices: 94920215--94920258 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
94920205 TATCTACTAG
94920215 TTTTTTTTCATAGTATTTGAAGT
1 TTTTTTTTCATAGTATTTGAAGT
94920238 TTTTTTTTCATAGTATTTGAA
1 TTTTTTTTCATAGTATTTGAA
94920259 AGGGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (23 bp):
TTTTTTTTCATAGTATTTGAAGT
Found at i:94920266 original size:24 final size:23
Alignment explanation
Indices: 94920216--94920269 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
94920206 ATCTACTAGT
**
94920216 TTTTTTTCATAGTATTTGAAGTT
1 TTTTTTTCATAGTATTTGAAGGG
94920239 TTTTTTTCATAGTATTTGAAAGGG
1 TTTTTTTCATAGTATTTG-AAGGG
94920263 TTTTTTT
1 TTTTTTT
94920270 TTAATAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (23 bp):
TTTTTTTCATAGTATTTGAAGGG
Found at i:94922074 original size:19 final size:19
Alignment explanation
Indices: 94922050--94922091 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
94922040 CAAAATTCTG
*
94922050 AATAAATAAGTAATAAA-AT
1 AATAAA-AACTAATAAATAT
94922069 AATAAAAACTAATAAATAT
1 AATAAAAACTAATAAATAT
94922088 AATA
1 AATA
94922092 TTGGGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAAAAACTAATAAATAT
Found at i:94924212 original size:19 final size:18
Alignment explanation
Indices: 94924190--94924242 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
94924180 AACTTGAAAG
94924190 AAATCTAAAATT-ATTCTTA
1 AAATCTAAAATTAATTC--A
94924209 AAATCT-AAATTAATTCA
1 AAATCTAAAATTAATTCA
94924226 AAATCCTAAAATCTAAT
1 AAAT-CTAAAAT-TAAT
94924243 ATCTAACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.17
18 7 0.23
19 14 0.47
20 4 0.13
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATCTAAAATTAATTCA
Found at i:94926180 original size:2 final size:2
Alignment explanation
Indices: 94926064--94926163 Score: 200
Period size: 2 Copynumber: 50.0 Consensus size: 2
94926054 GTTTGATTCC
94926064 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
94926106 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
94926148 CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT
94926164 TTTGAAATAG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 98 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:94929909 original size:16 final size:17
Alignment explanation
Indices: 94929888--94929925 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
94929878 CAATTCGTAT
*
94929888 TTTTAG-AAAATCTTTG
1 TTTTAGAAAAATCATTG
94929904 TTTTAGCAAAAATCATTG
1 TTTTAG-AAAAATCATTG
94929922 TTTT
1 TTTT
94929926 TAGATATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
18 13 0.68
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTTAGAAAAATCATTG
Found at i:94931999 original size:23 final size:23
Alignment explanation
Indices: 94931913--94932032 Score: 84
Period size: 23 Copynumber: 5.1 Consensus size: 23
94931903 GGACTCACCA
* *
94931913 CAGCTCATTTGAGCTTACTGATATAT
1 CAGCTCGTTAGAGCTTACTG--AT-T
*
94931939 CAGCTCGTAAGAGCTTACTG-TT
1 CAGCTCGTTAGAGCTTACTGATT
*
94931961 CTTTGCTCG-TATGAGCTTACTGATT
1 C--AGCTCGTTA-GAGCTTACTGATT
* * *
94931986 CTGCTCGTTAGAGCTTTCTGTTT
1 CAGCTCGTTAGAGCTTACTGATT
**
94932009 CAGCTCAATAGAGCTTACTG-TT
1 CAGCTCGTTAGAGCTTACTGATT
94932031 CA
1 CA
94932033 TCAACTTAGG
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
22 6 0.08
23 35 0.45
24 17 0.22
25 3 0.04
26 17 0.22
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (23 bp):
CAGCTCGTTAGAGCTTACTGATT
Found at i:94936759 original size:16 final size:16
Alignment explanation
Indices: 94936738--94936768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94936728 TAATCAAATT
*
94936738 AACTAATTAATTTTCC
1 AACTAAATAATTTTCC
94936754 AACTAAATAATTTTC
1 AACTAAATAATTTTC
94936769 TCGACCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
AACTAAATAATTTTCC
Found at i:94943952 original size:42 final size:42
Alignment explanation
Indices: 94943890--94944098 Score: 132
Period size: 42 Copynumber: 4.8 Consensus size: 42
94943880 AGATGCCAAC
* * *
94943890 GCCATGTCCTAGATGTGGTCTTACATGAGATCTCACATCGAT
1 GCCATATCCCAGATATGGTCTTACATGAGATCTCACATCGAT
* * ** * *
94943932 GCCATATCCCAGATATGGTCTTATATGA-ATTCTAATTTTGAC
1 GCCATATCCCAGATATGGTCTTACATGAGA-TCTCACATCGAT
* * * * * * ** *
94943974 GCCATGTCTCAAATGTGGTCTTACACGAAATCTCATGTCAAT
1 GCCATATCCCAGATATGGTCTTACATGAGATCTCACATCGAT
* * *
94944016 GCCATATCCCAGGTATGGTCTTACATGATAACTCATACTGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACATGAGATCTC--AC--AT--CGAT
* * *
94944064 GCTATATCCCAGATATGGTCTTATACGAGATCTCA
1 GCCATATCCCAGATATGGTCTTACATGAGATCTCA
94944099 TCAACCCAAT
Statistics
Matches: 122, Mismatches: 37, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
41 1 0.01
42 86 0.70
43 1 0.01
44 1 0.01
46 2 0.02
48 31 0.25
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACATGAGATCTCACATCGAT
Found at i:94944033 original size:84 final size:84
Alignment explanation
Indices: 94943888--94944043 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
94943878 TAAGATGCCA
* * * *
94943888 ACGCCATGTCCTAGATGTGGTCTTACATGAGATCTCACATCGATGCCATATCCCAGATATGGTCT
1 ACGCCATGTCCTAAATGTGGTCTTACACGAAATCTCACATCAATGCCATATCCCAGATATGGTCT
*
94943953 TATATGAATTCTAATTTTG
66 TACATGAATTCTAATTTTG
** *
94943972 ACGCCATGT-CTCAAATGTGGTCTTACACGAAATCTCATGTCAATGCCATATCCCAGGTATGGTC
1 ACGCCATGTCCT-AAATGTGGTCTTACACGAAATCTCACATCAATGCCATATCCCAGATATGGTC
94944036 TTACATGA
65 TTACATGA
94944044 TAACTCATAC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.03
84 61 0.97
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (84 bp):
ACGCCATGTCCTAAATGTGGTCTTACACGAAATCTCACATCAATGCCATATCCCAGATATGGTCT
TACATGAATTCTAATTTTG
Found at i:94955148 original size:46 final size:46
Alignment explanation
Indices: 94955081--94955262 Score: 247
Period size: 46 Copynumber: 4.0 Consensus size: 46
94955071 AGTGTGCTCT
*
94955081 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
94955127 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
94955173 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94955219 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
94955263 TCATGTCAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94960351 original size:46 final size:46
Alignment explanation
Indices: 94960284--94960465 Score: 247
Period size: 46 Copynumber: 4.0 Consensus size: 46
94960274 AGTGTGCTCT
*
94960284 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
94960330 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
94960376 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94960422 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
94960466 TCATGTCAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94977357 original size:1 final size:1
Alignment explanation
Indices: 94977351--94977385 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
94977341 TACTTCGCCT
* *
94977351 AAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
94977386 GGAGAGAGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:94978361 original size:44 final size:43
Alignment explanation
Indices: 94978207--94978363 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 43
94978197 GTAAATTCCT
* * * *
94978207 AGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGATAATG-
1 AGATCTTAACACCCTAAGCAGTAGGGTAA-AGGTCGAA-A-ATTGC
* * * * * * *
94978252 AGCT-TTAACCCCCTAAGCAGTAGGGTAACGGGCCAAATTTAC
1 AGATCTTAACACCCTAAGCAGTAGGGTAAAGGTCGAAAATTGC
* * * *
94978294 AGACCTTAACCCCCTAAGAAGTAGGGTAATAGGTTGAAAATTGC
1 AGATCTTAACACCCTAAGCAGTAGGGTAA-AGGTCGAAAATTGC
*
94978338 AGATCTTATCACCCTAAGCAGTAGGG
1 AGATCTTAACACCCTAAGCAGTAGGG
94978364 AAACAGATCA
Statistics
Matches: 85, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 27 0.32
44 51 0.60
45 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (43 bp):
AGATCTTAACACCCTAAGCAGTAGGGTAAAGGTCGAAAATTGC
Found at i:94978683 original size:86 final size:86
Alignment explanation
Indices: 94978562--94978848 Score: 308
Period size: 86 Copynumber: 3.3 Consensus size: 86
94978552 GTCGTAAGGT
* ***
94978562 CTTAAACCCCTAAGCAGTAGGGAAACAGACCAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
* *
94978627 TGTAGATCGAAGACGAAAAAC
66 AGCAGATCGAAGACGAAAAAC
* * *
94978648 CTTAAACCCCTAAGCAGTGGGGTAATAGGTTAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
* *
94978713 AGCAGATCGAAGACGAAGAGC
66 AGCAGATCGAAGACGAAAAAC
** * ***
94978734 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATC-TAAAACCCTAAGCAGTAG-G
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTT-AAATTGCAGATCTTATCCCCCTAAGCAGTAGTG
* * * * * * * *
94978797 AAAACGGATCAAATATGACAAGC
65 -GAGCAGATCGAAGACGAAAAAC
*
94978820 CTTAATCCCCTAAGCAGTAGGGTAACAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGG
94978849 CTGTAAATCA
Statistics
Matches: 171, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
85 1 0.01
86 161 0.94
87 9 0.05
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGAAAAAC
Found at i:94980908 original size:20 final size:21
Alignment explanation
Indices: 94980864--94980919 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
94980854 CTATTACTTC
94980864 TTTATTATTTTA-TTACTATT
1 TTTATTATTTTATTTACTATT
* *
94980884 GTTATTATTTTATTTTC-ATT
1 TTTATTATTTTATTTACTATT
94980904 TTTATTTTATTTTATT
1 TTTA--TTATTTTATT
94980920 ATGCTGCCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 17 0.57
21 3 0.10
22 10 0.33
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTATTTTATTTACTATT
Found at i:94982334 original size:25 final size:25
Alignment explanation
Indices: 94982300--94982352 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
94982290 AATGGGAAAG
* *
94982300 AAAAATTAAGTTAGGGATTT-GGAGA
1 AAAAACTAAGTGAGGGATTTAGG-GA
94982325 AAAAACTAAGTGAGGGATTTAGGGA
1 AAAAACTAAGTGAGGGATTTAGGGA
94982350 AAA
1 AAA
94982353 TGATTTGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.23
Consensus pattern (25 bp):
AAAAACTAAGTGAGGGATTTAGGGA
Found at i:94985642 original size:21 final size:21
Alignment explanation
Indices: 94985618--94985657 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94985608 TTTTTTTTAA
**
94985618 AAGTTAAAAGTTAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
94985639 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
94985658 CGTCGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:94991930 original size:2 final size:2
Alignment explanation
Indices: 94991911--94991944 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
94991901 ATAATCTTTT
* *
94991911 TA TA TT TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94991945 AATTTATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:94992084 original size:6 final size:6
Alignment explanation
Indices: 94992073--94992098 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94992063 AATCTACATA
94992073 ATCTAT ATCTAT ATCTAT ATCTAT AT
1 ATCTAT ATCTAT ATCTAT ATCTAT AT
94992099 ACCTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTAT
Found at i:95000612 original size:29 final size:29
Alignment explanation
Indices: 95000539--95000604 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
95000529 AAAATTTGAG
* *
95000539 GGAATAGGCCAGTTTTTGGTATATTTATC
1 GGAATAGGCTAGTTTTTGGCATATTTATC
*
95000568 GGAATAGGCTAGTTTTTGGCATATTTATT
1 GGAATAGGCTAGTTTTTGGCATATTTATC
95000597 GGAATAGG
1 GGAATAGG
95000605 TTGATTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (29 bp):
GGAATAGGCTAGTTTTTGGCATATTTATC
Done.