Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 27
Found at i:1374353 original size:19 final size:19
Alignment explanation
Indices: 1374324--1374372 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
1374314 TCGATTTTTG
1374324 AATTT-GCAACACGAATTT
1 AATTTCGCAACACGAATTT
**
1374342 AATTTCGCAACA-GGTTTT
1 AATTTCGCAACACGAATTT
*
1374360 AGTTTCGCAACAC
1 AATTTCGCAACAC
1374373 AAATGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (19 bp):
AATTTCGCAACACGAATTT
Found at i:1375164 original size:12 final size:12
Alignment explanation
Indices: 1375143--1375176 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1375133 ACCACATTTC
*
1375143 CAATACCAAACA
1 CAATATCAAACA
1375155 CAATATCAAACA
1 CAATATCAAACA
*
1375167 CAATCTCAAA
1 CAATATCAAA
1375177 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1375355 original size:24 final size:24
Alignment explanation
Indices: 1375297--1375343 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1375287 AGTCAGTATT
*
1375297 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
1375321 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
1375344 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:1377950 original size:34 final size:34
Alignment explanation
Indices: 1377904--1377972 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
1377894 TGTTGCGATT
* *
1377904 GTTGCGAAAGTCAAATTTG-AATTGCGATTTTCGC
1 GTTGCGAAAGTCAAATTCGCAA-CGCGATTTTCGC
*
1377938 GTTGCGATAGTCAAATTCGCAACGCGATTTTCGC
1 GTTGCGAAAGTCAAATTCGCAACGCGATTTTCGC
1377972 G
1 G
1377973 ATACAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (34 bp):
GTTGCGAAAGTCAAATTCGCAACGCGATTTTCGC
Found at i:1378190 original size:64 final size:64
Alignment explanation
Indices: 1378111--1378268 Score: 280
Period size: 64 Copynumber: 2.5 Consensus size: 64
1378101 TGAATTTAAC
1378111 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
* * *
1378175 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTTTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
1378239 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
1378269 ATTCAATTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 86 0.96
65 4 0.04
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:1379643 original size:21 final size:21
Alignment explanation
Indices: 1379617--1379734 Score: 134
Period size: 21 Copynumber: 5.6 Consensus size: 21
1379607 ATGAATCGGG
* *
1379617 CTCTTGAACGGTGGAAGGGAC
1 CTCTTGAACGATGGAAGGGGC
*
1379638 CTCTTGAATGAT-GACAGGGGC
1 CTCTTGAACGATGGA-AGGGGC
* *
1379659 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGAAGGGGC
1379680 CTCTTGAACGAT-GAGAGGGGC
1 CTCTTGAACGATGGA-AGGGGC
*
1379701 CTCTTGAACGATAGG-AGGCGC
1 CTCTTGAACGAT-GGAAGGGGC
1379722 CTCTTGAACGATG
1 CTCTTGAACGATG
1379735 ACAGGTGAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
20 4 0.05
21 77 0.93
22 1 0.01
23 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGGAAGGGGC
Found at i:1379683 original size:42 final size:42
Alignment explanation
Indices: 1379617--1379739 Score: 183
Period size: 42 Copynumber: 2.9 Consensus size: 42
1379607 ATGAATCGGG
* * *
1379617 CTCTTGAACGGTGGAAGGGACCTCTTGAATGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
*
1379659 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
* * *
1379701 CTCTTGAACGATAGGAGGCGCCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGG
1379740 TGAATCGGGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
Found at i:1382347 original size:22 final size:22
Alignment explanation
Indices: 1382320--1382377 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
1382310 GATGGAGATA
1382320 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1382342 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1382364 GACGGATGTCGCCG
1 GACGGATTTCGCCG
1382378 TAGAGAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1382550 original size:20 final size:20
Alignment explanation
Indices: 1382525--1382566 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1382515 TAAACGCGCT
1382525 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
1382545 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
1382565 TT
1 TT
1382567 ACGATTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:1386136 original size:5 final size:5
Alignment explanation
Indices: 1386123--1386314 Score: 320
Period size: 5 Copynumber: 38.8 Consensus size: 5
1386113 TACTCCTGGT
*
1386123 TATAT TATAA TATAA TATATA TATAA TATAA TATAA TATAA TAT-A -ATAA
1 TATAA TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATAA
*
1386172 TATAA TATAA -ATAA TATAA TATAA TATAA TAAATA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA-A TATAA TATAA TATAA
1386222 TATAA TAT-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1386271 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1386315 TACACACACA
Statistics
Matches: 178, Mismatches: 3, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
3 2 0.01
4 10 0.06
5 157 0.88
6 9 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:1386404 original size:5 final size:5
Alignment explanation
Indices: 1386389--1386432 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
1386379 TTCACATAAC
*
1386389 TAATAA TAATA TAATA TAATA TAATA TATATA CTTATA TAATA T
1 TAAT-A TAATA TAATA TAATA TAATA TA-ATA -TAATA TAATA T
1386433 GCACCCTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 23 0.68
6 10 0.29
7 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:1387808 original size:33 final size:33
Alignment explanation
Indices: 1387771--1387868 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
1387761 ACTAAAATGA
1387771 AAATAATATGAAGTTTCAAGAAAACAAGGATAC
1 AAATAATATGAAGTTTCAAGAAAACAAGGATAC
* *
1387804 AAATAA-A-G-GGATT--AG--AACAAGGATAC
1 AAATAATATGAAGTTTCAAGAAAACAAGGATAC
*
1387830 AAATAATATGAAGTTTCAAGAAGACAAGGATAC
1 AAATAATATGAAGTTTCAAGAAAACAAGGATAC
1387863 AAATAA
1 AAATAA
1387869 AGGGATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
26 17 0.32
27 1 0.02
28 3 0.06
29 3 0.06
30 3 0.06
31 3 0.06
32 1 0.02
33 22 0.42
ACGTcount: A:0.55, C:0.08, G:0.17, T:0.19
Consensus pattern (33 bp):
AAATAATATGAAGTTTCAAGAAAACAAGGATAC
Found at i:1396752 original size:2 final size:2
Alignment explanation
Indices: 1396745--1396773 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1396735 AGGTGGCTAC
1396745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1396774 TAATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1426978 original size:21 final size:21
Alignment explanation
Indices: 1426948--1426992 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1426938 ATTCTGTCGT
* *
1426948 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1426969 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1426990 TTG
1 TTG
1426993 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1434698 original size:21 final size:21
Alignment explanation
Indices: 1434672--1434711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1434662 CCGTTAGACA
1434672 GGGGGAATCGGTACCCCCTGT
1 GGGGGAATCGGTACCCCCTGT
* *
1434693 GGGGGAATCTGTTCCCCCT
1 GGGGGAATCGGTACCCCCT
1434712 AGGCAATCTG
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:0.12, C:0.30, G:0.35, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGT
Found at i:1435118 original size:16 final size:16
Alignment explanation
Indices: 1435059--1435101 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
1435049 CTCCCCCTCA
*
1435059 CTTTAACACTTCTCCC
1 CTTTAACACCTCTCCC
1435075 CTTTAACACCTCTCCC
1 CTTTAACACCTCTCCC
1435091 CTTTAACACCT
1 CTTTAACACCT
1435102 TAACACTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTTAACACCTCTCCC
Found at i:1436201 original size:19 final size:21
Alignment explanation
Indices: 1436154--1436201 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
1436144 TCTAAATCCT
*
1436154 TTTTCAAAATTTCATTTTGGC
1 TTTTCAAAATCTCATTTTGGC
*
1436175 TTTT-AAAATCT-ATTTTTG-
1 TTTTCAAAATCTCATTTTGGC
1436193 TTTTCAAAA
1 TTTTCAAAA
1436202 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 6 0.25
21 4 0.17
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTCAAAATCTCATTTTGGC
Found at i:1439378 original size:17 final size:17
Alignment explanation
Indices: 1439333--1439378 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
1439323 AGGAGTGGGC
*
1439333 TAGTAGAACAGAACAGA
1 TAGTAGAACATAACAGA
*
1439350 TAGTAGAGCATAACAGA
1 TAGTAGAACATAACAGA
1439367 TAGTAGAACATA
1 TAGTAGAACATA
1439379 TTGCAGTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (17 bp):
TAGTAGAACATAACAGA
Found at i:1439400 original size:15 final size:15
Alignment explanation
Indices: 1439382--1439412 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1439372 GAACATATTG
1439382 CAGTAGACCTTATAT
1 CAGTAGACCTTATAT
*
1439397 CAGTAGACTTTATAT
1 CAGTAGACCTTATAT
1439412 C
1 C
1439413 TTGTTTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
CAGTAGACCTTATAT
Found at i:1443190 original size:20 final size:20
Alignment explanation
Indices: 1443165--1443203 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1443155 TTATTTCCAC
1443165 CTTTAACTAATTTCTTTTTA
1 CTTTAACTAATTTCTTTTTA
1443185 CTTTAACTAATTTCTTTTT
1 CTTTAACTAATTTCTTTTT
1443204 GTTTTTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTAACTAATTTCTTTTTA
Found at i:1444279 original size:7 final size:7
Alignment explanation
Indices: 1444263--1444292 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1444253 TTGTTGCTAA
1444263 AAACCCT
1 AAACCCT
*
1444270 AAACCTT
1 AAACCCT
1444277 AAACCCT
1 AAACCCT
1444284 AAACCCT
1 AAACCCT
1444291 AA
1 AA
1444293 CCATTCTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:1444560 original size:14 final size:14
Alignment explanation
Indices: 1444538--1444588 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1444528 TTATTGTTGA
* *
1444538 AAACTCTAAACGCT
1 AAACCCTAAACACT
**
1444552 AAACCCTAAATTCT
1 AAACCCTAAACACT
1444566 AAACCCTAAACACT
1 AAACCCTAAACACT
*
1444580 AAATCCTAA
1 AAACCCTAA
1444589 CCATTATCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACACT
Found at i:1444568 original size:21 final size:21
Alignment explanation
Indices: 1444542--1444588 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1444532 TGTTGAAAAC
* *
1444542 TCTAAACGCTAAACCCTAAAT
1 TCTAAACCCTAAACACTAAAT
1444563 TCTAAACCCTAAACACTAAAT
1 TCTAAACCCTAAACACTAAAT
*
1444584 CCTAA
1 TCTAA
1444589 CCATTATCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
TCTAAACCCTAAACACTAAAT
Found at i:1444801 original size:297 final size:289
Alignment explanation
Indices: 1444263--1444984 Score: 1047
Period size: 297 Copynumber: 2.5 Consensus size: 289
1444253 TTGTTGCTAA
* * *
1444263 AAACCCTAAACCTTAAACCCTAAACCCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAA
1 AAACCCTAAACCCTAAACACTAAATCCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAA
* *
1444328 ACAAATATGTAACCACTATCATGGTAGATATCACCATCCTCTACCCCCTTCATTGCCCTCAACAT
66 ACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACAT
* * *
1444393 ATCATGAATTTATAAAGGTTTTCAGCAATAATCAAAATATTTTAGGGTTTAAGGTTCCAAAATAA
131 ACCATGAACTTATAAAGGTTTTCAGCAATAACCAAAATATTTTAGGGTTTAAGGTTCCAAAATAA
* *
1444458 ATATACAATAAATAATATAAGGAACTATTGATTTTGTGAACCTTAAACCCTAAACCCTAAAATAT
196 ATATACAACAAATAATATAAGGAACTATTGA-TTT-TG-----TAAACCTTAAACCCTAAAATAT
* * *
1444523 TTT-GCTTATTGTTGAAAACTCT-AAACGCTAAACCCT
254 TTTAG-TTATTATTGAAAACCCTAAAAC-CTAAAACCT
** * *
1444559 AAATTCTAAACCCTAAACACTAAATCCTAACCATTATCCCTCCAATCAATGTCTTCTTATAAAAA
1 AAACCCTAAACCCTAAACACTAAATCCTAACCATTCTCCCTCCAATCAATTTCTTCTTAT-AAAA
* *
1444624 AACAAATTTGTAACCACCATCATGGTAAATATCACCATCCTCTACCCCTTTCATTGCCCTCAACA
65 AACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACA
1444689 TACCATGAACTTATAAAGGTTTTCAGCAATAACCAAAATATTTTAGGGTTT-AGGCTTCCAAAAT
130 TACCATGAACTTATAAAGGTTTTCAGCAATAACCAAAATATTTTAGGGTTTAAGG-TTCCAAAAT
* * * *
1444753 CAATATACAACAAATAATATCAGTAATTATTGATTTTGTAAACCTTAAACCCTAAAATATTTTAG
194 AAATATACAACAAATAATATAAGGAACTATTGATTTTGTAAACCTTAAACCCTAAAATATTTTAG
* **
1444818 TTGTTATTGAAAACCCTAAAACCTAAAATTT
259 TTATTATTGAAAACCCTAAAACCTAAAACCT
* *
1444849 AAACCCTAAACACTAAACACACTAAAT-CTAAACATTCTCCCTCCAATCAATTTCTTCTTATAAA
1 AAACCCTAAACCCT-AA-ACACTAAATCCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAA
1444913 AAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAAC
64 AAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAAC
1444978 ATACCAT
129 ATACCAT
1444985 TGCCCTATCT
Statistics
Matches: 386, Mismatches: 34, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
290 128 0.33
291 38 0.10
292 9 0.02
295 2 0.01
296 59 0.15
297 150 0.39
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (289 bp):
AAACCCTAAACCCTAAACACTAAATCCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAA
ACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACAT
ACCATGAACTTATAAAGGTTTTCAGCAATAACCAAAATATTTTAGGGTTTAAGGTTCCAAAATAA
ATATACAACAAATAATATAAGGAACTATTGATTTTGTAAACCTTAAACCCTAAAATATTTTAGTT
ATTATTGAAAACCCTAAAACCTAAAACCT
Found at i:1445040 original size:29 final size:28
Alignment explanation
Indices: 1444990--1445061 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
1444980 ACCATTGCCC
**
1444990 TATCTCAACAATTAATTCTTCAACAACAT
1 TATCTCAACAATTTTTTCTTC-ACAACAT
* * *
1445019 TATCTCAATAATTTTTTTTTCACATCAT
1 TATCTCAACAATTTTTTCTTCACAACAT
*
1445047 TATCTCAAGAATTTT
1 TATCTCAACAATTTT
1445062 GCCCAATCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.35, C:0.19, G:0.01, T:0.44
Consensus pattern (28 bp):
TATCTCAACAATTTTTTCTTCACAACAT
Found at i:1445186 original size:22 final size:21
Alignment explanation
Indices: 1445164--1445204 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1445154 CTATTTTTTA
1445164 AATCA-TTAGATAATAAAAATT
1 AATCATTTA-ATAATAAAAATT
1445185 AATCATTTAATAATAAAAAT
1 AATCATTTAATAATAAAAAT
1445205 AATATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AATCATTTAATAATAAAAATT
Found at i:1445188 original size:21 final size:19
Alignment explanation
Indices: 1445164--1445216 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
1445154 CTATTTTTTA
1445164 AATCATTAGATAATAAAAATT
1 AATCATTA-ATAATAAAAA-T
1445185 AATCATTTAATAATAAAAAT
1 AATCA-TTAATAATAAAAAT
1445205 AAT-ATTATATAA
1 AATCATTA-ATAA
1445217 AACAAATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.10
19 5 0.17
20 4 0.13
21 15 0.50
22 3 0.10
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
AATCATTAATAATAAAAAT
Found at i:1446779 original size:16 final size:16
Alignment explanation
Indices: 1446758--1446788 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1446748 ATACAAACAT
1446758 ACTAAAAAAAATAAAA
1 ACTAAAAAAAATAAAA
*
1446774 ACTAAAAAAACTAAA
1 ACTAAAAAAAATAAA
1446789 TCATGGTTGA
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:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (16 bp):
ACTAAAAAAAATAAAA
Found at i:1448790 original size:2 final size:2
Alignment explanation
Indices: 1448783--1448811 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1448773 TTATTATTAT
1448783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1448812 TATTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1448948 original size:39 final size:39
Alignment explanation
Indices: 1448830--1448948 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
1448820 TTAAATTTTT
* *
1448830 ATTTATAA-TTCTCAAATTATTTTAC-TCTAACATTCTAA
1 ATTTATAATTTCTTAAATTATTTCACAT-TAACATTCTAA
** * *
1448868 ATTCCTAATTTCTTAAATT-TTGGCACCA-TAATATTCTAA
1 ATTTATAATTTCTTAAATTATT-TCA-CATTAACATTCTAA
* *
1448907 ATTTTTAATTTCTTAAATTATTTCACATTAACATTCAAA
1 ATTTATAATTTCTTAAATTATTTCACATTAACATTCTAA
1448946 ATT
1 ATT
1448949 ATTTTTTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
38 10 0.16
39 51 0.80
40 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (39 bp):
ATTTATAATTTCTTAAATTATTTCACATTAACATTCTAA
Found at i:1450678 original size:10 final size:11
Alignment explanation
Indices: 1450650--1450678 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1450640 GCGACTGCCC
1450650 CCACCCCCGGT
1 CCACCCCCGGT
1450661 CCACCCCCGGT
1 CCACCCCCGGT
1450672 CCACCCC
1 CCACCCC
1450679 TGCTCATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.69, G:0.14, T:0.07
Consensus pattern (11 bp):
CCACCCCCGGT
Found at i:1451771 original size:18 final size:18
Alignment explanation
Indices: 1451750--1451803 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
1451740 TAAATTTATA
*
1451750 TTTTATTAAATTTTCTTT
1 TTTTATTAAATTTTCATT
*
1451768 TTTTA-AAGAATTTT-ATT
1 TTTTATTA-AATTTTCATT
1451785 TTTTATTAAATTTTCATT
1 TTTTATTAAATTTTCATT
1451803 T
1 T
1451804 AGTTAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTTTCATT
Found at i:1451796 original size:17 final size:17
Alignment explanation
Indices: 1451739--1451803 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
1451729 GAATAATATT
*
1451739 TTAAA-TTTATATTTTA
1 TTAAATTTTATTTTTTA
*
1451755 TTAAATTTTCTTTTTT-
1 TTAAATTTTATTTTTTA
*
1451771 TAAAGAATTTTATTTTTTA
1 T-TA-AATTTTATTTTTTA
1451790 TTAAATTTTCATTT
1 TTAAATTTT-ATTT
1451804 AGTTAATAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.15
17 15 0.38
18 17 0.44
19 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (17 bp):
TTAAATTTTATTTTTTA
Found at i:1454652 original size:49 final size:49
Alignment explanation
Indices: 1454580--1454677 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
1454570 TGTCAGAGCA
1454580 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
1 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
*
1454629 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCTAGCCTTTT
1 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
1454678 AGGGATGGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (49 bp):
TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
Found at i:1459621 original size:22 final size:22
Alignment explanation
Indices: 1459596--1459640 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1459586 TTTGGACATG
1459596 ACTTAAAGAGCTTTTTGACTGA
1 ACTTAAAGAGCTTTTTGACTGA
1459618 ACTTAAAGAGCTTTTTGACTGA
1 ACTTAAAGAGCTTTTTGACTGA
1459640 A
1 A
1459641 TGGGTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (22 bp):
ACTTAAAGAGCTTTTTGACTGA
Found at i:1461116 original size:20 final size:20
Alignment explanation
Indices: 1461093--1461158 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
1461083 AAAATATCTC
1461093 AATTTGCAGTTGAATATGCT
1 AATTTGCAGTTGAATATGCT
** *
1461113 AATTT-CTCTGTAAAGTAT-CT
1 AATTTGCAGT-TGAA-TATGCT
*
1461133 CAATTTGTAGTTGAATATGCT
1 -AATTTGCAGTTGAATATGCT
1461154 AATTT
1 AATTT
1461159 CTTTGTTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 13 0.38
22 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
AATTTGCAGTTGAATATGCT
Found at i:1461123 original size:41 final size:41
Alignment explanation
Indices: 1461078--1461160 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
1461068 TATATATATA
1461078 TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
1 TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
* *
1461119 TCTGTAAAGTATCTCAATTTGTAGTTGAATATGCTAATTTC
1 TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
1461160 T
1 T
1461161 TTGTTTTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (41 bp):
TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
Found at i:1470597 original size:52 final size:51
Alignment explanation
Indices: 1470488--1470588 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
1470478 TTCAAAGAAT
* *
1470488 TCATCACGTCGAGGTGACGAGTTTATCTAAATAATATTTTTTTATCTAAAC
1 TCATCACGTCGAGGTAACGAGTTTATCAAAATAATATTTTTTTATCTAAAC
1470539 TCATCACGTCGAGGTAACGAGTTCTAAT-AAAAT-ATAATTTTTTTAT-TAAA
1 TCATCACGTCGAGGTAACGAGTT-T-ATCAAAATAAT-ATTTTTTTATCTAAA
1470589 TTTTATCACA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
51 28 0.62
52 15 0.33
53 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (51 bp):
TCATCACGTCGAGGTAACGAGTTTATCAAAATAATATTTTTTTATCTAAAC
Found at i:1472396 original size:10 final size:11
Alignment explanation
Indices: 1472324--1472407 Score: 54
Period size: 11 Copynumber: 7.8 Consensus size: 11
1472314 TTATTTCATC
*
1472324 TATTTGTTTTA
1 TATTTATTTTA
1472335 T-TTTA-TTTA
1 TATTTATTTTA
1472344 TATGTATATTTT-
1 TAT-T-TATTTTA
*
1472356 T-CTTATTTTA
1 TATTTATTTTA
*
1472366 TTATTTATATTA
1 -TATTTATTTTA
*
1472378 CTA-TTATTTTC
1 -TATTTATTTTA
1472389 T-TTTATTTTA
1 TATTTATTTTA
1472399 TATTTATTT
1 TATTTATTT
1472408 CTATTCTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
9 11 0.20
10 14 0.25
11 16 0.29
12 12 0.21
13 3 0.05
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:1472530 original size:27 final size:26
Alignment explanation
Indices: 1472474--1472532 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
1472464 TCTAGTTTTA
**
1472474 TTTTATTTTAACTATATATATATATT
1 TTTTATTTTAACTATATATATATACG
** *
1472500 TTTTATTTTCTCTAATATTTATATACG
1 TTTTATTTTAACT-ATATATATATACG
1472527 TTTTAT
1 TTTTAT
1472533 CATTTCATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTATTTTAACTATATATATATACG
Found at i:1472672 original size:19 final size:19
Alignment explanation
Indices: 1472650--1472699 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1472640 ACCAAACCTT
1472650 TATCCTTTTTTCAAA-TCTG
1 TATCCTTTTTTCAAATTC-G
*
1472669 TATCCTTTTTTTAAATTCG
1 TATCCTTTTTTCAAATTCG
*
1472688 TATCCCTTTTTC
1 TATCCTTTTTTC
1472700 TATTTTCGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.56
Consensus pattern (19 bp):
TATCCTTTTTTCAAATTCG
Found at i:1473960 original size:10 final size:10
Alignment explanation
Indices: 1473945--1473971 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1473935 CATGTATTTA
1473945 TTTATTTATT
1 TTTATTTATT
1473955 TTTATTTATT
1 TTTATTTATT
1473965 TTTATTT
1 TTTATTT
1473972 TACTAACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTATTTATT
Found at i:1476198 original size:24 final size:22
Alignment explanation
Indices: 1476148--1476198 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
1476138 GTATTTCCTG
1476148 CATTTTATATTTCATGTTTGTT
1 CATTTTATATTTCATGTTTGTT
*
1476170 TATTTTATATTTTCCATGTTT-TT
1 CATTTTATA-TTT-CATGTTTGTT
1476193 ACATTT
1 -CATTT
1476199 GTATTAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
24 11 0.46
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.65
Consensus pattern (22 bp):
CATTTTATATTTCATGTTTGTT
Found at i:1483271 original size:63 final size:61
Alignment explanation
Indices: 1483169--1483289 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 61
1483159 AATACTTCGC
* * *
1483169 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAAGGAAAAAAAGAGAAAAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTG--AAAAAAAGGAAAAAAAGAGAAAAACGT
* * * *
1483232 TTAGGGTGAAAACCCGAAAGGGTGCCCTAAATTGGAAAAAAGGGAAAAAAGAGAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAGGAAAAAAAGAGAAAAA
1483290 AGAAAAGGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 22 0.43
63 29 0.57
ACGTcount: A:0.50, C:0.11, G:0.26, T:0.12
Consensus pattern (61 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAGGAAAAAAAGAGAAAAACGT
Found at i:1484354 original size:100 final size:100
Alignment explanation
Indices: 1484061--1484657 Score: 712
Period size: 106 Copynumber: 5.8 Consensus size: 100
1484051 CAATTTCAAC
*
1484061 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * *
1484126 TTGTCAACAAA-CATTTCTCAATTTCAGAGCCAATTTCT
66 TTGTCAACAAATAATTTCCCAATTTCGGAGCCAA----T
*
1484164 GCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
1 --TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
1484229 GGTTGTCAATAAATAATTTCCCAATTTCGGAGCCAAT
64 GGTTGTCAACAAATAATTTCCCAATTTCGGAGCCAAT
1484266 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * * *
1484331 TTGTCAACAAACAACTTCTCAATTTCAGAGTCCATTTCAAC
66 TTGTCAACAAATAATTTCCCAATTTCGGAG--C----CAAT
* *
1484372 TTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* *
1484437 TTGTCAACAAATAATTTCCCAATTTTGGGGCCAATTT
66 TTGTCAACAAATAATTTCCCAATTTCGGAGCCAA--T
* *
1484474 CAACTTCACAGCTAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCG
1 ----TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * * *
1484539 CTGGTTGTCAAC-AATAATTTCCTAGTTTCTGAACCAAT
62 CTGGTTGTCAACAAATAATTTCCCAATTTCGGAGCCAAT
* * * * * *
1484577 ATCAACTTCATGACGAAGGGTATTGGATTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTC-A---CA-G-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
1484642 GGCTGGTTGTCAACAA
60 CGCTGGTTGTCAACAA
1484658 CAATTTCAAG
Statistics
Matches: 433, Mismatches: 39, Indels: 39
0.85 0.08 0.08
Matches are distributed among these distances:
99 2 0.00
100 93 0.21
102 2 0.00
103 3 0.01
104 2 0.00
105 152 0.35
106 179 0.41
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
TTGTCAACAAATAATTTCCCAATTTCGGAGCCAAT
Found at i:1484460 original size:106 final size:107
Alignment explanation
Indices: 1484045--1484886 Score: 909
Period size: 105 Copynumber: 8.2 Consensus size: 107
1484035 AGGTCTTACC
1484045 CAGAGT-CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
1484109 GACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCTCAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
**
1484150 CAGAG-CCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
1484214 GACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* *
1484256 CGGAG-CCAA--T----TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * *
1484314 GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
*
1484356 CAGAGTCC-ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCAC
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1484420 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* * * * *
1484462 -TGGGGCCAATTTCAACTTCACAGCTAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * *
1484526 GGCGAAGGGACCGCTGGTTGTCAAC-AATAATTTCCTAGTTT
66 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* * * ** * * * *
1484567 CTGA-ACCAATATCAACTTCATGACGAAGGGTATTGGATTCGAGACAACACAAGTTCAACTTCAC
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
1484631 AACGAAGGGACGGCTGGTTGTCAAC----AA-----CAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* * * *
1484664 CA-AGGCCAATTTCAACTTCACAACGAAGGATATTGGAC-CCAAGACAGCACAAGCTCAACTTCA
1 CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCA
* * **
1484727 C-AGCGAAGGGGCGGCTGACTGTCAAC--A-AA-----CAATTT
65 CGA-CGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* * * * * *
1484762 C-GAAG-CCAATCTCAACTTCACAACGAAGGATATTGGACTCGAGACAGCACAAGCTCAACTACA
1 CAG-AGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
1484825 C-AGCGAAGGG-GCGTCTGGTTGTC-ACCAATAATTTCCTAGTTT
65 CGA-CGAAGGGACCG-CTGGTTGTCAACAAATAATTTCCCAATTT
* *
1484867 CTGA-ACCAATTTCAACTTCA
1 CAGAGTCCAATTTCAACTTCA
1484887 TATTGGACCC
Statistics
Matches: 643, Mismatches: 65, Indels: 58
0.84 0.08 0.08
Matches are distributed among these distances:
96 3 0.00
97 77 0.12
98 79 0.12
99 4 0.01
100 92 0.14
101 2 0.00
102 3 0.00
104 1 0.00
105 198 0.31
106 184 0.29
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (107 bp):
CAGAGTCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
Found at i:1484807 original size:98 final size:98
Alignment explanation
Indices: 1484466--1484955 Score: 433
Period size: 97 Copynumber: 5.0 Consensus size: 98
1484456 CAATTTTGGG
* * * * * * * *
1484466 GCCAATTTCAACTTCACAGCTAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGA
1 GCCAATCTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGA
* * *
1484531 AGGGACCGCTGGTTGTCAACAATAATTTCCTAGTTTCTGAA
66 AGGGGCGGCTGGTTGTCAAC-A-AA----C-AATTTC-GAA
* ** * * * * * *
1484572 -CCAATATCAACTTCATGACGAAGGGTATTGGATTCGAGACAACACAAGTTCAACTTCACAACGA
1 GCCAATCTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGA
*
1484636 AGGGACGGCTGGTTGTCAAC-AACAATTTC-AA
66 AGGGGCGGCTGGTTGTCAACAAACAATTTCGAA
* *
1484667 GGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCG
1 -GCCAATCTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCG
**
1484732 AAGGGGCGGCTGACTGTCAACAAACAATTTCGAA
65 AAGGGGCGGCTGGTTGTCAACAAACAATTTCGAA
* *
1484766 GCCAATCTCAACTTCACAACGAAGGATATTGGACTCGAGACAGCACAAGCTCAACTACACAGCGA
1 GCCAATCTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGA
* * * **
1484831 AGGGGCGTCTGGTTGTC-ACCAATAATTTCCTA
66 AGGGGCGGCTGGTTGTCAACAAACAATTTCGAA
* * *** *
1484863 GTTTCTGAA-C-CAA-TT-TCAAC--TTCATATTGGACCCAAGACAGCACAAGCTCAACTTCACA
1 G---C-CAATCTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACA
**
1484922 GCGAAGGGGCGGCTGACTGTCAACAAACAATTTC
62 GCGAAGGGGCGGCTGGTTGTCAACAAACAATTTC
1484956 CCAGTTCCAA
Statistics
Matches: 325, Mismatches: 50, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
95 53 0.16
96 10 0.03
97 92 0.28
98 87 0.27
99 5 0.02
100 2 0.01
101 2 0.01
102 2 0.01
105 72 0.22
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (98 bp):
GCCAATCTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGA
AGGGGCGGCTGGTTGTCAACAAACAATTTCGAA
Found at i:1484878 original size:417 final size:408
Alignment explanation
Indices: 1484051--1484886 Score: 1018
Period size: 417 Copynumber: 2.0 Consensus size: 408
1484041 TACCCAGAGT
1484051 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * **
1484116 GGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCTGCTTCACAACGAAGGAT
66 GGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAACCAATATCAACTTCACAACGAAGGAT
* * *
1484181 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAAT
131 ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAAT
* * * *
1484246 TTCCCAATTTCGGAGCCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
196 TTCCCAATTT----G-CAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGCTCAACTT
** *
1484311 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGTCCATTTCAACTTCA
256 CACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTC----TCAGAGTCCATCTCAACTTCA
* * *
1484376 CAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
317 CAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTACACGACGAAGGGACCGCTGGTTGT
1484441 CAACAAATAATTTCCCAATTTTGGGGC
382 CAACAAATAATTTCCCAATTTTGGGGC
* * *
1484468 CAATTTCAACTTCACAGCTAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * **
1484533 GGACCGCTGGTTGTCAACAATA-ATTTC-CTAGTTTCTGAACCAATATCAACTTCATGACGAAGG
66 GGACCGCTGGTTGTCAACAA-ACATTTCTC-AATTTCAGAACCAATATCAACTTCACAACGAAGG
* * * * *
1484596 GTATTGGATTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACA
129 ATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACA
*
1484660 ATTTCAAGGCCAATTT-CAACTTCACAACGAAGGATATTGGAC-CCAAGACAGCACAAGCTCAAC
194 ATTTC----CCAATTTGCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGCTCAAC
* * *
1484723 TTCAC-AGCGAAGGGGCGGCTGACTGTCAACAAACAA-TT-TC-GA-AG-CCAATCTCAACTTCA
254 TTCACGA-CGAAGGGACCGCTGACTGTCAACAAACAACTTCTCTCAGAGTCC-ATCTCAACTTCA
* *
1484782 CAACGAAGGATATTGGACTCGAGACAGCACAAGCTCAACTACAC-AGCGAAGGG-GCGTCTGGTT
317 CAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTACACGA-CGAAGGGACCG-CTGGTT
* * * **
1484845 GTC-ACCAATAATTTCCTAGTTTCT-GAAC
380 GTCAACAAATAATTTCCCAATTT-TGGGGC
1484873 CAATTTCAACTTCA
1 CAATTTCAACTTCA
1484887 TATTGGACCC
Statistics
Matches: 367, Mismatches: 40, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
405 37 0.10
406 70 0.19
407 1 0.00
412 2 0.01
413 5 0.01
414 69 0.19
416 9 0.02
417 166 0.45
418 1 0.00
420 7 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (408 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAACCAATATCAACTTCACAACGAAGGAT
ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAAT
TTCCCAATTTGCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGCTCAACTTCACGA
CGAAGGGACCGCTGACTGTCAACAAACAACTTCTCTCAGAGTCCATCTCAACTTCACAACGAAGG
ATATTGGACTCGAGACAACACAAGCTCAACTACACGACGAAGGGACCGCTGGTTGTCAACAAATA
ATTTCCCAATTTTGGGGC
Found at i:1484922 original size:95 final size:96
Alignment explanation
Indices: 1484693--1484982 Score: 327
Period size: 98 Copynumber: 3.0 Consensus size: 96
1484683 ACAACGAAGG
*
1484693 ATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACA
1 ATATTGGACCCAAGACAGCACAAGCTCAACTACACAGCGAAGGGGCGGCTGACTGTCAACAAACA
** * * ***
1484758 ATTTCGAAG--CC-AATCTCAACTTCACAACGAAGG
66 ATTTCCCAGTTCCAAAAC-CAA-TT-TCAAC--TTC
* * * ** * *
1484791 ATATTGGACTCGAGACAGCACAAGCTCAACTACACAGCGAAGGGGCGTCTGGTTGTC-ACCAATA
1 ATATTGGACCCAAGACAGCACAAGCTCAACTACACAGCGAAGGGGCGGCTGACTGTCAACAAACA
* * **
1484855 ATTTCCTAGTTTCTGAACCAATTTCAACTTC
66 ATTTCCCAGTTCCAAAACCAATTTCAACTTC
*
1484886 ATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACA
1 ATATTGGACCCAAGACAGCACAAGCTCAACTACACAGCGAAGGGGCGGCTGACTGTCAACAAACA
1484951 ATTTCCCAGTTCCAAAACCAATTTCAACTTC
66 ATTTCCCAGTTCCAAAACCAATTTCAACTTC
1484982 A
1 A
1484983 CAGCGGAGGA
Statistics
Matches: 159, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
95 51 0.32
96 33 0.21
97 16 0.10
98 53 0.33
99 4 0.03
100 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (96 bp):
ATATTGGACCCAAGACAGCACAAGCTCAACTACACAGCGAAGGGGCGGCTGACTGTCAACAAACA
ATTTCCCAGTTCCAAAACCAATTTCAACTTC
Found at i:1486989 original size:12 final size:13
Alignment explanation
Indices: 1486964--1487019 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
1486954 TTAGTTTTTC
1486964 TAATTTATTTGAT
1 TAATTTATTTGAT
1486977 TAATTTA-TTGAT
1 TAATTTATTTGAT
* *
1486989 T-ATGTGTTTG-T
1 TAATTTATTTGAT
*
1487000 T--TTTATTTTAT
1 TAATTTATTTGAT
1487011 TAATTTATT
1 TAATTTATT
1487020 ATCTTATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
10 5 0.15
11 7 0.21
12 9 0.26
13 13 0.38
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (13 bp):
TAATTTATTTGAT
Found at i:1487026 original size:16 final size:17
Alignment explanation
Indices: 1487001--1487041 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1486991 TGTGTTTGTT
*
1487001 TTTATTTTATTAATTTA
1 TTTATCTTATTAATTTA
*
1487018 -TTATCTTATTTATTTA
1 TTTATCTTATTAATTTA
1487034 TTTATCTT
1 TTTATCTT
1487042 CGCTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATCTTATTAATTTA
Found at i:1492342 original size:23 final size:25
Alignment explanation
Indices: 1492311--1492357 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
1492301 ATGTTTTTTC
1492311 TTTTCTAAAAATATATA-ATTTTAA
1 TTTTCTAAAAATATATATATTTTAA
* *
1492335 TTTT-TAAAATTTTATATATTTTA
1 TTTTCTAAAAATATATATATTTTA
1492358 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTCTAAAAATATATATATTTTAA
Found at i:1495495 original size:13 final size:13
Alignment explanation
Indices: 1495479--1495505 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1495469 CTAAATCTAC
1495479 ATTCTCTAACATA
1 ATTCTCTAACATA
1495492 ATTCTCTAACATA
1 ATTCTCTAACATA
1495505 A
1 A
1495506 AATTATGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTCTCTAACATA
Found at i:1500646 original size:12 final size:12
Alignment explanation
Indices: 1500631--1500659 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1500621 AAAACAGTCC
1500631 CACATACAGTGT
1 CACATACAGTGT
1500643 CACATACAGTGT
1 CACATACAGTGT
1500655 CACAT
1 CACAT
1500660 GGTTCTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (12 bp):
CACATACAGTGT
Found at i:1505244 original size:36 final size:36
Alignment explanation
Indices: 1505173--1505245 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
1505163 GTTGAAAAAT
* *
1505173 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
1505209 ATTTATATAATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAAATCATAAA
1505245 A
1 A
1505246 AGTTTAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
Found at i:1507315 original size:51 final size:53
Alignment explanation
Indices: 1507236--1507340 Score: 160
Period size: 51 Copynumber: 2.0 Consensus size: 53
1507226 TTTCAAACAC
* * *
1507236 TTTAATTTCGATTTTTATCTTAAATTATAACCTCAACTTAATACAAGATTTTT
1 TTTAATTTCGATATTTATATTAAATTATAACCTCAACTTAATACAAGAATTTT
*
1507289 TTTAATTTCG-TATTTA-ATTAAATTATAACCTCAACTTAATCCAAGAATTTT
1 TTTAATTTCGATATTTATATTAAATTATAACCTCAACTTAATACAAGAATTTT
1507340 T
1 T
1507341 AAAATATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 33 0.69
52 5 0.10
53 10 0.21
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (53 bp):
TTTAATTTCGATATTTATATTAAATTATAACCTCAACTTAATACAAGAATTTT
Found at i:1527356 original size:2 final size:2
Alignment explanation
Indices: 1527349--1527389 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1527339 CTTTTTAAAC
1527349 AT AT AT AT 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 AT AT AT AT A
1527390 GCACGTTGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1535920 original size:53 final size:53
Alignment explanation
Indices: 1535834--1536040 Score: 219
Period size: 53 Copynumber: 4.2 Consensus size: 53
1535824 AATTAACACA
*
1535834 TAAGTATGTACATCTATCAATATCTTA-ACAATTAACACATACTTACACCGGTG
1 TAAGTATGTACATCTCTCAATATCTTAGA-AATTAACACATACTTACACCGGTG
*
1535887 TAGGTATGTACATCTCTCAATATCTTAGAAATTAACAC--ACTTACACC-G-G
1 TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
* * **
1535936 TAAGTTTGTACA-C-CTCAATATCTTAGAAATTAACACGTACTTACA-AAGTG
1 TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
* * *
1535986 TAAGTA--T--A---CTCAATATCGTAGCAATTAACACATACTTACACTGGTG
1 TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
1536032 TAAGTATGT
1 TAAGTATGT
1536041 TTCTGTATTT
Statistics
Matches: 135, Mismatches: 11, Indels: 21
0.81 0.07 0.13
Matches are distributed among these distances:
45 29 0.21
46 10 0.07
47 23 0.17
48 3 0.02
49 19 0.14
50 7 0.05
51 9 0.07
53 34 0.25
54 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (53 bp):
TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
Found at i:1539025 original size:2 final size:2
Alignment explanation
Indices: 1539018--1539067 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1539008 TAACTGAGGC
1539018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1539060 TA TA TA TA
1 TA TA TA TA
1539068 ATTATTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1539453 original size:18 final size:18
Alignment explanation
Indices: 1539422--1539459 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1539412 TTATGAATTA
*
1539422 TTTTATATGGATTTTTAAT
1 TTTTATAT-GAATTTTAAT
1539441 TTTTA-ATGAATTTTAAT
1 TTTTATATGAATTTTAAT
1539458 TT
1 TT
1539460 ATCATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 11 0.61
18 2 0.11
19 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTATATGAATTTTAAT
Found at i:1540216 original size:2 final size:2
Alignment explanation
Indices: 1540209--1540234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1540199 AAATAAATAA
1540209 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
1540235 GTTAGGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1541929 original size:18 final size:20
Alignment explanation
Indices: 1541884--1541931 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1541874 ACCTATATTC
*
1541884 AATTGAAAATATATGGAAAA
1 AATTTAAAATATATGGAAAA
* *
1541904 AATATAAAATATAT-G-ATA
1 AATTTAAAATATATGGAAAA
1541922 AATTTAAAAT
1 AATTTAAAAT
1541932 TTTAGGGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
20 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (20 bp):
AATTTAAAATATATGGAAAA
Found at i:1547737 original size:2 final size:2
Alignment explanation
Indices: 1547730--1547774 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1547720 TTTCTTTTTA
1547730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1547772 AT A
1 AT A
1547775 ATTTTTAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1548065 original size:17 final size:17
Alignment explanation
Indices: 1548027--1548066 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1548017 TTTGTATTTT
*
1548027 ATTTTACCATTGTTGGG
1 ATTTTACAATTGTTGGG
* *
1548044 TTTTTACAATTGTTGTG
1 ATTTTACAATTGTTGGG
1548061 ATTTTA
1 ATTTTA
1548067 ATAAATTATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.55
Consensus pattern (17 bp):
ATTTTACAATTGTTGGG
Found at i:1554189 original size:15 final size:16
Alignment explanation
Indices: 1554142--1554181 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1554132 ACCCTGCACA
* *
1554142 AAAATAAATGAGAAAT
1 AAAATAAATTAAAAAT
1554158 -AAATAAATTAAAAAT
1 AAAATAAATTAAAAAT
1554173 AAAATAAAT
1 AAAATAAAT
1554182 AATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAATAAATTAAAAAT
Found at i:1554233 original size:26 final size:25
Alignment explanation
Indices: 1554189--1554237 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
1554179 AATAATAATA
1554189 ATATATATATAAACGTTTTCAAAAAC
1 ATATATATATAAACGTTTT-AAAAAC
*
1554215 ATATAATATATAAA-TTTTTAAAA
1 ATAT-ATATATAAACGTTTTAAAA
1554238 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 8 0.38
27 9 0.43
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATATATATAAACGTTTTAAAAAC
Found at i:1554307 original size:36 final size:35
Alignment explanation
Indices: 1554254--1554392 Score: 145
Period size: 36 Copynumber: 3.8 Consensus size: 35
1554244 TTTTATTAAA
* *
1554254 AAAAACTATATATTATATATAATTTCAAAATGGTTTTT
1 AAAAA-TATATATTATATA-AATTTCAAAA-CGTTTTC
*
1554292 AAAAAT-TATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAATATATATTATATAAA---TTTCAAAACGTTTTC
* * *
1554329 AAAAGTATATATTATATATATTTTAAAACGTTTTC
1 AAAAATATATATTATATAAATTTCAAAACGTTTTC
*
1554364 AAAAACTATATATTATATAATTTTCAAAA
1 AAAAA-TATATATTATATAAATTTCAAAA
1554393 AATATATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
35 19 0.22
36 31 0.36
37 11 0.13
38 24 0.28
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
AAAAATATATATTATATAAATTTCAAAACGTTTTC
Found at i:1554373 original size:25 final size:23
Alignment explanation
Indices: 1554344--1554408 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 23
1554334 TATATATTAT
1554344 ATATATTTTAAAACGTTTTCAAAAA
1 ATATATTTTAAAA--TTTTCAAAAA
* *
1554369 CTATATATTATATAATTTTCAAAAA
1 --ATATATTTTAAAATTTTCAAAAA
1554394 ATATATTTTCAAAAT
1 ATATATTTT-AAAAT
1554409 GGTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.24
24 4 0.12
25 10 0.30
27 11 0.33
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATTTTAAAATTTTCAAAAA
Found at i:1554377 original size:27 final size:25
Alignment explanation
Indices: 1554342--1554445 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 25
1554332 AGTATATATT
*
1554342 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
1554368 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* *
1554393 A-ATATATTTTCAAAATGGTTTTTAAAAA
1 ATATATATTAT-AAAA--G-TTTTCAAAA
1554421 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
1554446 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
23 8 0.13
24 3 0.05
25 10 0.16
26 1 0.02
27 12 0.20
28 14 0.23
29 2 0.03
30 11 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:1554403 original size:15 final size:16
Alignment explanation
Indices: 1554378--1554407 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1554368 ACTATATATT
1554378 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
1554394 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
1554408 TGGTTTTTAA
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:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:1554451 original size:127 final size:125
Alignment explanation
Indices: 1554270--1554521 Score: 452
Period size: 127 Copynumber: 2.0 Consensus size: 125
1554260 TATATATTAT
1554270 ATATAATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1 ATATAATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1554335 ATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
* *
1554394 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCGAA
1 ATATAATTTCAAAATGGTTTTT-AAAAA-T-TATATTATATAAATGTTTTCATAACGTTTTCAAA
1554459 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
63 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
1554522 TATTTTAAAA
Statistics
Matches: 122, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
124 21 0.17
125 5 0.04
126 1 0.01
127 54 0.44
128 41 0.34
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (125 bp):
ATATAATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:1554510 original size:37 final size:37
Alignment explanation
Indices: 1554394--1554593 Score: 187
Period size: 37 Copynumber: 5.4 Consensus size: 37
1554384 TTTTCAAAAA
** *
1554394 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTAT
1 ATATATTTTCAAAAACG-TTTT-AAAAACTATATATTAT
* * ** *
1554433 ATAAATGTTTTC-ATAACGTTTTCGAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1554471 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAAACTATATATTAT
** *
1554508 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
* *
1554544 ACATATTTTCAAAAATGTTTT--AAACTATAT-TTAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
*
1554578 ATGTATTTTCAAAAAC
1 ATATATTTTCAAAAAC
1554594 AATTTGCAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
34 16 0.12
35 9 0.07
36 37 0.28
37 41 0.31
38 15 0.11
39 6 0.04
40 3 0.02
41 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
Found at i:1554572 original size:71 final size:71
Alignment explanation
Indices: 1554461--1554615 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 71
1554451 TTTTCGAAAG
* * * *
1554461 TATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATAT-AATTTTCAAAAATAT
1 TATATAATATACATATTTTAAAAACGTTTT--AAAACTATAT-TTATATGAATTTTCAAAAACAA
1554525 TTTAAAAAC
63 TTTAAAAAC
* *
1554534 TATATAATATACATATTTTCAAAAATGTTTT-AAACTATATTTATATGTATTTTCAAAAACAATT
1 TATATAATATACATATTTT-AAAAACGTTTTAAAACTATATTTATATGAATTTTCAAAAACAATT
**
1554598 TGCAAAC
65 TAAAAAC
*
1554605 TGTATAATATA
1 TATATAATATA
1554616 TATGTGTATA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
70 6 0.08
71 38 0.54
73 17 0.24
74 10 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (71 bp):
TATATAATATACATATTTTAAAAACGTTTTAAAACTATATTTATATGAATTTTCAAAAACAATTT
AAAAAC
Found at i:1555381 original size:84 final size:84
Alignment explanation
Indices: 1555210--1555990 Score: 876
Period size: 84 Copynumber: 9.4 Consensus size: 84
1555200 TTGAATATAA
* * * * **
1555210 TCGAACTCGAAGGTC--T-TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAACCGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
1555272 -CCTTGGAGCTGAGCGTAG
66 CCCTTGGAGCTGAGCGTAG
* * ** * * * * *
1555290 TCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
* * *
1555355 CCCTTGAAGCTGAGTGTAA
66 CCCTTGGAGCTGAGCGTAG
** * * *
1555374 TCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
1555436 -CCTTGGAGCTGAGCGTAG
66 CCCTTGGAGCTGAGCGTAG
* ** * * *
1555454 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
1555519 GCCGTT-GAGCTGAGCGTAG
65 GCCCTTGGAGCTGAGCGTAG
* * * * *
1555538 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATAT
1 TCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
1555603 G-CCTTGGAGCTGAGCGTAG
65 GCCCTTGGAGCTGAGCGTAG
* *
1555622 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
1555687 GCCGTT-GAGCTGAGCGTAG
65 GCCCTTGGAGCTGAGCGTAG
* * * * *
1555706 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATAT
1 TCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
1555771 G-CCTTGGAGCTGAGCGTAG
65 GCCCTTGGAGCTGAGCGTAG
*
1555790 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * * *
1555855 GCCCTCGAAGCTGAGTGTAA
65 GCCCTTGGAGCTGAGCGTAG
** * * * *
1555875 TCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
1555937 -CCTTGGAGCTGAGCGTAG
66 CCCTTGGAGCTGAGCGTAG
* * * *
1555955 TTGAACTCGAAGGTC-TTGGTGGCAGGTAGCCCTTCT
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
1555991 GGCCTTGAGC
Statistics
Matches: 585, Mismatches: 98, Indels: 34
0.82 0.14 0.05
Matches are distributed among these distances:
80 68 0.12
81 78 0.13
82 18 0.03
83 48 0.08
84 337 0.58
85 36 0.06
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
CCCTTGGAGCTGAGCGTAG
Found at i:1555741 original size:252 final size:249
Alignment explanation
Indices: 1555237--1555971 Score: 1010
Period size: 252 Copynumber: 2.9 Consensus size: 249
1555227 TAGCAGATAG
* * * **
1555237 CCCTTCTCGACTTAAGCTATGCTGCAACCGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
1 CCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
* ** * * * *
1555302 GTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCT
66 GTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCT
1555366 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATG
131 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATG
*
1555431 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
196 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGACAA
* * * *
1555485 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAA
1 CCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAA
* * * *
1555549 GGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATG-CCTTGGAGC
65 GGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGC
* * ** * * * *
1555613 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGT
130 TGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGC
* * **
1555678 AAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAA
191 AAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGACAA
* * *
1555737 CCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
* * * *
1555802 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCT
66 GTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCT
*
1555867 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATG
131 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATG
*
1555932 ATGTGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTT
196 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1555972 GGTGGCAGGT
Statistics
Matches: 420, Mismatches: 57, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
248 88 0.21
249 113 0.27
250 1 0.00
251 3 0.01
252 186 0.44
253 29 0.07
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (249 bp):
CCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
GTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCT
GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATG
ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGACAA
Found at i:1562544 original size:26 final size:27
Alignment explanation
Indices: 1562498--1562548 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1562488 TAATAATAAT
1562498 ATATATATATATAAACGTTTTCAAAAAC
1 ATATATATATATAAACGTTTT-AAAAAC
*
1562526 ATATA-ATATATAAA-TTTTTAAAA
1 ATATATATATATAAACGTTTTAAAA
1562549 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 9 0.41
28 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATATATATAAACGTTTTAAAAAC
Found at i:1562619 original size:36 final size:35
Alignment explanation
Indices: 1562566--1562704 Score: 145
Period size: 36 Copynumber: 3.8 Consensus size: 35
1562556 TTTTATTAAA
* *
1562566 AAAAACTATATATTATATATAATTTCAAAATGGTTTTT
1 AAAAA-TATATATTATATA-AATTTCAAAA-CGTTTTC
*
1562604 AAAAAT-TATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAATATATATTATATAAA---TTTCAAAACGTTTTC
* * *
1562641 AAAAGTATATATTATATATATTTTAAAACGTTTTC
1 AAAAATATATATTATATAAATTTCAAAACGTTTTC
*
1562676 AAAAACTATATATTATATAATTTTCAAAA
1 AAAAA-TATATATTATATAAATTTCAAAA
1562705 AATATATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
35 19 0.22
36 31 0.36
37 11 0.13
38 24 0.28
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
AAAAATATATATTATATAAATTTCAAAACGTTTTC
Found at i:1562685 original size:25 final size:23
Alignment explanation
Indices: 1562656--1562720 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 23
1562646 TATATATTAT
1562656 ATATATTTTAAAACGTTTTCAAAAA
1 ATATATTTTAAAA--TTTTCAAAAA
* *
1562681 CTATATATTATATAATTTTCAAAAA
1 --ATATATTTTAAAATTTTCAAAAA
1562706 ATATATTTTCAAAAT
1 ATATATTTT-AAAAT
1562721 GGTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.24
24 4 0.12
25 10 0.30
27 11 0.33
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATTTTAAAATTTTCAAAAA
Found at i:1562689 original size:27 final size:25
Alignment explanation
Indices: 1562654--1562757 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 25
1562644 AGTATATATT
*
1562654 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
1562680 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* *
1562705 A-ATATATTTTCAAAATGGTTTTTAAAAA
1 ATATATATTAT-AAAA--G-TTTTCAAAA
1562733 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
1562758 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
23 8 0.13
24 3 0.05
25 10 0.16
26 1 0.02
27 12 0.20
28 14 0.23
29 2 0.03
30 11 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:1562715 original size:15 final size:16
Alignment explanation
Indices: 1562690--1562719 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1562680 ACTATATATT
1562690 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
1562706 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
1562720 TGGTTTTTAA
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:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:1562760 original size:127 final size:125
Alignment explanation
Indices: 1562582--1562832 Score: 450
Period size: 127 Copynumber: 2.0 Consensus size: 125
1562572 TATATATTAT
1562582 ATATAATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1 ATATAATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1562647 ATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
* *
1562706 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCGAA
1 ATATAATTTCAAAATGGTTTTT-AAAAA-T-TATATTATATAAATGTTTTCATAACGTTTTCAAA
1562771 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
63 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
1562833 TATTTTAAAA
Statistics
Matches: 121, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
124 21 0.17
125 5 0.04
126 1 0.01
127 54 0.45
128 40 0.33
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (125 bp):
ATATAATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:1562821 original size:35 final size:33
Alignment explanation
Indices: 1562759--1562891 Score: 115
Period size: 35 Copynumber: 3.8 Consensus size: 33
1562749 ATGTTTTCAT
* *
1562759 AACGTTTTCGAAAGTATATATTATATATATTTTAAA
1 AACGTTTT-AAAACTATATA-T-TATATATTTTAAA
*
1562795 AACGTTTTCAAAAACTATATATTATATAATTTTCAA
1 AACGTTTT--AAAACTATATATTATAT-ATTTTAAA
** * *
1562831 AATATTTTAAAAACTATATAATACATATTTTCAAA
1 AACGTTTT-AAAACTATATATTATATATTTT-AAA
*
1562866 AATGTTTT-AAACTATATATTATATAT
1 AACGTTTTAAAACTATATATTATATAT
1562892 GTATTTTCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
33 16 0.20
34 5 0.06
35 30 0.37
36 22 0.27
37 9 0.11
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (33 bp):
AACGTTTTAAAACTATATATTATATATTTTAAA
Found at i:1562822 original size:37 final size:37
Alignment explanation
Indices: 1562706--1562905 Score: 175
Period size: 37 Copynumber: 5.4 Consensus size: 37
1562696 TTTTCAAAAA
** *
1562706 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTAT
1 ATATATTTTCAAAAACG-TTTT-AAAAACTATATATTAT
* * ** *
1562745 ATAAATGTTTTC-ATAACGTTTTCGAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1562783 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAAACTATATATTAT
1562820 ATA-ATTTTCAAAATA--TTTTAAAAACTATATA--AT
1 ATATATTTTCAAAA-ACGTTTTAAAAACTATATATTAT
* *
1562853 ACATATTTTCAAAAATGTTTT--AAACTATATATTAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1562888 ATATGTATTTTCAAAAAC
1 ATA--TATTTTCAAAAAC
1562906 AATTTGCAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 28
0.76 0.09 0.16
Matches are distributed among these distances:
33 15 0.11
34 10 0.08
35 20 0.15
36 24 0.18
37 32 0.24
38 16 0.12
39 6 0.05
40 3 0.02
41 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
Found at i:1562827 original size:36 final size:35
Alignment explanation
Indices: 1562724--1562890 Score: 142
Period size: 36 Copynumber: 4.7 Consensus size: 35
1562714 TCAAAATGGT
* * *
1562724 TTTTAAAAAATTATATATTATATAAATGTTTTCATAACG
1 TTTT-AAAAACTATATATTATAT-AA--TTTTAAAAACG
** *
1562763 TTTTCGAAAGTATATATTATATATATTTTAAAAACG
1 TTTTAAAAACTATATATTATATA-ATTTTAAAAACG
* **
1562799 TTTTCAAAAACTATATATTATATAATTTTCAAAATA
1 TTTT-AAAAACTATATATTATATAATTTTAAAAACG
* * *
1562835 TTTTAAAAACTATATAATACAT-ATTTTCAAAAATG
1 TTTTAAAAACTATATATTATATAATTTT-AAAAACG
1562870 TTTT--AAACTATATATTATATA
1 TTTTAAAAACTATATATTATATA
1562891 TGTATTTTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
33 14 0.13
34 5 0.05
35 25 0.23
36 26 0.24
37 17 0.16
38 16 0.15
39 4 0.04
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
TTTTAAAAACTATATATTATATAATTTTAAAAACG
Found at i:1562849 original size:33 final size:34
Alignment explanation
Indices: 1562775--1562903 Score: 127
Period size: 35 Copynumber: 3.6 Consensus size: 34
1562765 TTCGAAAGTA
* *
1562775 TATATTATATATATTTTAAAAACGTTTTCAAAAAC
1 TATATTATATATATTTTCAAAATGTTTT-AAAAAC
*
1562810 TATA-TATTATATAATTTTCAAAATATTTTAAAAAC
1 TATATTA-TATAT-ATTTTCAAAATGTTTTAAAAAC
* * *
1562845 TATATAATACATATTTTCAAAAATGTTTTAAACTA-
1 TATATTATATATATTTTC-AAAATGTTTTAAA-AAC
1562880 TATATTATATATGTATTTTCAAAA
1 TATATTATATA--TATTTTCAAAA
1562904 ACAATTTGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
34 8 0.10
35 44 0.56
36 19 0.24
37 7 0.09
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (34 bp):
TATATTATATATATTTTCAAAATGTTTTAAAAAC
Found at i:1567725 original size:35 final size:36
Alignment explanation
Indices: 1567643--1567729 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
1567633 TACCAAAATT
* *
1567643 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AACAG
***
1567679 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
1567714 TTACCAAACTTTGAAA
1 TTACCAAACTTTGAAA
1567730 CTTTTAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
Found at i:1571007 original size:15 final size:16
Alignment explanation
Indices: 1570975--1571007 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1570965 AAAATCTTTC
1570975 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
1570991 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
1571006 TT
1 TT
1571008 GATCTGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:1571784 original size:16 final size:17
Alignment explanation
Indices: 1571757--1571790 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
1571747 TATCGCCGAC
1571757 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
1571774 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
1571790 C
1 C
1571791 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:1572307 original size:35 final size:36
Alignment explanation
Indices: 1572225--1572311 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
1572215 TACCAAAATT
* *
1572225 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AACAG
***
1572261 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
1572296 TTACCAAACTTTGAAA
1 TTACCAAACTTTGAAA
1572312 CTTTTAACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
Found at i:1577010 original size:23 final size:23
Alignment explanation
Indices: 1576984--1577044 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1576974 CTCGTATAAA
*
1576984 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
1577007 TGCACCGAAATGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
1577030 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
1577045 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:1578246 original size:20 final size:20
Alignment explanation
Indices: 1578221--1578263 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1578211 TCTAAGAGCT
1578221 CATTTAGGACCACATAGATG
1 CATTTAGGACCACATAGATG
* * *
1578241 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCACATAGATG
1578261 CAT
1 CAT
1578264 GTGATGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (20 bp):
CATTTAGGACCACATAGATG
Found at i:1579267 original size:21 final size:20
Alignment explanation
Indices: 1579194--1579292 Score: 110
Period size: 21 Copynumber: 4.8 Consensus size: 20
1579184 TGGTGTTTGA
*
1579194 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
* *
1579214 GTGCATCGATGTACTAGTGCA-G
1 GTGCATGGATG--C-ACTGCAGG
1579236 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
*
1579256 GATGCATAGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
1579278 GTGCATGGATGCACT
1 GTGCATGGATGCACT
1579293 TTGACACCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.07
20 13 0.19
21 29 0.43
22 15 0.22
23 5 0.07
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:1579393 original size:29 final size:29
Alignment explanation
Indices: 1579361--1579423 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
1579351 GAAACCTTTT
1579361 AAAACTTTGAATAAATTAAATT-AAGTCCAA
1 AAAACTTTG--TAAATTAAATTCAAGTCCAA
* *
1579391 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTAAATTCAAGTCCAA
1579421 AAA
1 AAA
1579424 CCATTTTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 14 0.48
31 5 0.17
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTAAATTCAAGTCCAA
Found at i:1587291 original size:556 final size:555
Alignment explanation
Indices: 1586239--1587345 Score: 1657
Period size: 556 Copynumber: 2.0 Consensus size: 555
1586229 AAAATCCAGG
* * * * * *
1586239 AATGTATTTAGGCTCCCCGTTGGAGATTGGTAGGAATCGATCTTCTATTTTTAATTTTCTGCGAG
1 AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAATCGATATGCTACTTTCAATTTTCTGCGAG
*
1586304 ACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCTATT
66 ACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCCATT
*
1586369 TATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGTCAGGGAA
131 TATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGCCAGGGAA
* * *
1586434 TATTATTTCTAATATAGAGTCAATCCTCCGATCATATTGGTGGATGGGATCTCTAATGAATCATG
196 TATTATTTCTAATATAGAGTCAATCCTCCAATCATATTGGTGGACGGGATCTCTAACGAATCATG
* * *
1586499 GTTGGCCAATGCTAGCGTGGGATTCTATATGTCAATCGAAGCCCCTGGATGGTATTGGATTCCGG
261 GTTGGCCAATGCTAGAGTGGGATTCCATATGTCAATCGAAGCCCATGGATGGTATTGGATTCCGG
* * *
1586564 GATTTACAATAGTTTAATATTGCTTTGCTTGGGAAACATGTATGGAGGTGTCTGACATATCTAAA
326 GATTTACAACAGTTTAATATTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATCTAAA
** * * *
1586629 TTGTCTTCTGGCTTGTGTTTTGTCTGCTAAATACTTTCTGAGGGGGAGTATTTTGGATGCATCTT
391 TTGTCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGGGAGAGTATTTTGGATGCATCTT
** *
1586694 TGGGAGCGAGGCCCTCATTTGCTTGGCAAGGGATATATAAAGTTATGAC-AGAATTTCGATCGGG
456 TGGGAGCGAGGCCCTCATTTGCTTGAAAAGGGATATATAAAGTCAT-ACGA-AATTTCGATCGGG
1586758 TTTCCATT-GACGAGTTGGACAAAATAGTGGATCAAAA
519 TTTCCATTAG-CGAGTTGGACAAAATAGTGGATCAAAA
*
1586795 AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAA-CTGATATGCTACTTTCAGTTTTCTGCGA
1 AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAATC-GATATGCTACTTTCAATTTTCTGCGA
* * *
1586859 GACAAGATTCTTCGATGAGTACGAGGCTGGACAAAGCATTTGATTTCATCTGGAGGACGTGCCAT
65 GACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCCAT
* * * *
1586924 TTATATTCAAGTTGTGGGACAGTCTATCCCAACTTACACTATGAGTTGCTACCTTCTGCCAGGGA
130 TTATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGCCAGGGA
* * * ** * * * *
1586989 ATATTATTTCTGATATGGAGTTAATCCTCCAATCATATTGGTGGACGGTTTTTTTGACGGATCAT
195 ATATTATTTCTAATATAGAGTCAATCCTCCAATCATATTGGTGGACGGGATCTCTAACGAATCAT
* *
1587054 GGTTGGCCAATGCTAGAGTGGGATTCCATATGTCAA-CTGAA-CCACATGGGTGGTTTTGGATTC
260 GGTTGGCCAATGCTAGAGTGGGATTCCATATGTCAATC-GAAGCC-CATGGATGGTATTGGATTC
* * * *
1587117 TGGGATTTGCTACAGTTTAATGTTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATCT
323 CGGGATTTACAACAGTTTAATATTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATCT
*
1587182 AAATTGTCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGTGAGAGTATTTTGGATGCAT
388 AAATTGTCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGGGAGAGTATTTTGGATGCAT
* *
1587247 CTTTGGGAGTGAGGCCCTCATTTGCTTGAAAATGGATATATAAAGTCATACGAAATTTCGATCGG
453 CTTTGGGAGCGAGGCCCTCATTTGCTTGAAAAGGGATATATAAAGTCATACGAAATTTCGATCGG
*
1587312 GTTTCCATTAGTGAGTTGGACAAAATAGTGGATC
518 GTTTCCATTAGCGAGTTGGACAAAATAGTGGATC
1587346 TCAGATGTTT
Statistics
Matches: 494, Mismatches: 52, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
555 49 0.10
556 445 0.90
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (555 bp):
AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAATCGATATGCTACTTTCAATTTTCTGCGAG
ACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCCATT
TATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGCCAGGGAA
TATTATTTCTAATATAGAGTCAATCCTCCAATCATATTGGTGGACGGGATCTCTAACGAATCATG
GTTGGCCAATGCTAGAGTGGGATTCCATATGTCAATCGAAGCCCATGGATGGTATTGGATTCCGG
GATTTACAACAGTTTAATATTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATCTAAA
TTGTCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGGGAGAGTATTTTGGATGCATCTT
TGGGAGCGAGGCCCTCATTTGCTTGAAAAGGGATATATAAAGTCATACGAAATTTCGATCGGGTT
TCCATTAGCGAGTTGGACAAAATAGTGGATCAAAA
Found at i:1612138 original size:2 final size:2
Alignment explanation
Indices: 1612133--1612157 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1612123 TATAGTTGTG
1612133 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
1612158 ATCTTTTCCT
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:1617961 original size:20 final size:19
Alignment explanation
Indices: 1617938--1618026 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 19
1617928 GTTTCCAGAT
*
1617938 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGA-TA
* * *
1617958 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGATTATG-ATA
* *
1617978 TCGCAACGCGATAATCATAA
1 TCGCAACGCGATTATGAT-A
*
1617998 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGA-TA
1618018 TCGCAACGC
1 TCGCAACGC
1618027 TGAATTTCAA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.02
20 51 0.94
21 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (19 bp):
TCGCAACGCGATTATGATA
Found at i:1618851 original size:24 final size:24
Alignment explanation
Indices: 1618824--1618877 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1618814 GTATTCGAAA
1618824 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1618848 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1618872 TTTGAT
1 TTTGAT
1618878 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1620156 original size:14 final size:14
Alignment explanation
Indices: 1620137--1620163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1620127 ATGCTTTTCA
1620137 TGGACTTTGTGGTG
1 TGGACTTTGTGGTG
1620151 TGGACTTTGTGGT
1 TGGACTTTGTGGT
1620164 TCATTTGTAT
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:0.07, C:0.07, G:0.41, T:0.44
Consensus pattern (14 bp):
TGGACTTTGTGGTG
Found at i:1621173 original size:18 final size:18
Alignment explanation
Indices: 1621150--1621184 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1621140 AGAAAAAGGC
*
1621150 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
1621168 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
1621185 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:1621519 original size:20 final size:20
Alignment explanation
Indices: 1621494--1621610 Score: 171
Period size: 20 Copynumber: 5.8 Consensus size: 20
1621484 TTACACATTC
* *
1621494 ATTTGAATATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
1621514 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
1621534 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
1621554 ATTTGATTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
1621574 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
1621594 AGTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
1621611 AGAAAATCGC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:1621684 original size:20 final size:20
Alignment explanation
Indices: 1621661--1621712 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1621651 GACTTTTGCG
* *
1621661 TTGCGATTTTGGCTTTCGCT-
1 TTGCAATTTTGACTTTCG-TA
1621681 TTGCAATTTTGACTTTCGTA
1 TTGCAATTTTGACTTTCGTA
1621701 TTGCAATTTTGA
1 TTGCAATTTTGA
1621713 GTTTAGCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (20 bp):
TTGCAATTTTGACTTTCGTA
Found at i:1621724 original size:20 final size:20
Alignment explanation
Indices: 1621658--1621724 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
1621648 ATTGACTTTT
*
1621658 GCGTTGCGATTTTG-GCTTTC
1 GCGTTGCAATTTTGAG-TTTC
* *
1621678 GCTTTGCAATTTTGACTTTC
1 GCGTTGCAATTTTGAGTTTC
** *
1621698 GTATTGCAATTTTGAGTTTA
1 GCGTTGCAATTTTGAGTTTC
1621718 GCGTTGC
1 GCGTTGC
1621725 GAAAGTGTAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.46
Consensus pattern (20 bp):
GCGTTGCAATTTTGAGTTTC
Found at i:1621899 original size:21 final size:21
Alignment explanation
Indices: 1621873--1621967 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 21
1621863 AGACCTCTTC
1621873 ACGATGGCAGGGGCCTCTTGA
1 ACGATGGCAGGGGCCTCTTGA
* *
1621894 ACGATGGGAGGGGACTCTTGA
1 ACGATGGCAGGGGCCTCTTGA
** **
1621915 GGGATGATAGGGGCCTCTTGA
1 ACGATGGCAGGGGCCTCTTGA
* *
1621936 ATGATAGG-AGAGGCCTCTTGA
1 ACGAT-GGCAGGGGCCTCTTGA
*
1621957 ACGATGACAGG
1 ACGATGGCAGG
1621968 TGAGTCGGGC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.39, T:0.20
Consensus pattern (21 bp):
ACGATGGCAGGGGCCTCTTGA
Found at i:1621963 original size:42 final size:41
Alignment explanation
Indices: 1621849--1621967 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 41
1621839 GTGAATCGGG
* * *
1621849 CTCTTGAATGGTGGAGA--CCTCTT-CACGATGGCAGGGGC
1 CTCTTGAATGATGGAGAGGCCTCTTGAACGATGACAGGGGC
* * * ** *
1621887 CTCTTGAACGATGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGAT-GGAGAGGCCTCTTGAACGATGACAGGGGC
1621929 CTCTTGAATGATAGGAGAGGCCTCTTGAACGATGACAGG
1 CTCTTGAATGAT-GGAGAGGCCTCTTGAACGATGACAGG
1621968 TGAGTCGGGC
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
38 10 0.16
39 4 0.07
41 5 0.08
42 42 0.69
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAATGATGGAGAGGCCTCTTGAACGATGACAGGGGC
Found at i:1622461 original size:19 final size:20
Alignment explanation
Indices: 1622437--1622479 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1622427 AATAGTTTCT
1622437 GAAACTT-AAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
1622456 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
1622476 GAAA
1 GAAA
1622480 ATGACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:1622529 original size:20 final size:19
Alignment explanation
Indices: 1622466--1622532 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
1622456 GAAACTTAAA
1622466 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
1622486 ATCACAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGACT
*
1622506 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
1622526 ATCGCAA
1 ATCGCAA
1622533 TAAGATAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.18
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1622572 original size:19 final size:20
Alignment explanation
Indices: 1622539--1622577 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1622529 GCAATAAGAT
* *
1622539 AATCGCAATGTGAAA-TAAA
1 AATCGCAACGCGAAACTAAA
1622558 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAACTAAA
1622578 TTCGCGTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAAACTAAA
Found at i:1622641 original size:20 final size:20
Alignment explanation
Indices: 1622616--1622684 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
1622606 GCGATTATCC
**
1622616 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
1622636 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
*
1622656 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1622676 CGTTGCGAT
1 CGTTGCGAT
1622685 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1624625 original size:20 final size:20
Alignment explanation
Indices: 1624602--1624645 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1624592 GAAACTTAAA
1624602 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
**
1624622 ATCGCAACACGAATTTGACT
1 ATCGCAACACGAAAATGACT
1624642 ATCG
1 ATCG
1624646 TAACGAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:1625440 original size:19 final size:19
Alignment explanation
Indices: 1625416--1625452 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1625406 TGCAATACTG
*
1625416 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
1625435 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
1625453 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:1637615 original size:52 final size:53
Alignment explanation
Indices: 1637529--1637721 Score: 248
Period size: 52 Copynumber: 3.7 Consensus size: 53
1637519 ATGATGTGTC
* * *
1637529 CGCTCCCTCTTG-TTCAGGGATTAGGAACTTGAACAATCTTCT-AAAACGAGTT
1 CGCTCCCTCTTGCTTCAGGGAGTA-GAACTCGAACAATCTTCTGAATACGAGTT
* * * **
1637581 CGCTCCCTATTTCTTCAGGAAGTAGAACTCGAACAATCTTCTGCTTACGAGTT
1 CGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGAATACGAGTT
* ** *
1637634 CGCTCCCTCTTGCTTCAGGGAGTAG-ACTCGAACAATCTTTTGTCTACGGGTT
1 CGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGAATACGAGTT
1637686 CGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAA
1 CGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAA
1637722 CTCTGGTGTA
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
52 75 0.61
53 48 0.39
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (53 bp):
CGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGAATACGAGTT
Found at i:1637692 original size:105 final size:105
Alignment explanation
Indices: 1637529--1637721 Score: 264
Period size: 105 Copynumber: 1.8 Consensus size: 105
1637519 ATGATGTGTC
* * *
1637529 CGCTCCCTCTTGTTCAGGGATTAGGAACTTGAACAATCTTCTAAAACGAGTTCGCTCCCTATTTC
1 CGCTCCCTCTTGTTCAGGGAGTAGGAACTCGAACAATCTTCTAAAACGAGTTCGCTCCCTATTGC
1637594 TTCAGGAAGTAGAACTCGAACAATCTTCTGCTTACGAGTT
66 TTCAGGAAGTAGAACTCGAACAATCTTCTGCTTACGAGTT
* *** * *
1637634 CGCTCCCTCTTGCTTCAGGGAGTA-G-ACTCGAACAATCTTTTGTCTACGGGTTCGCTCCCTCTT
1 CGCTCCCTCTTG-TTCAGGGAGTAGGAACTCGAACAATCTTCT-AAAACGAGTTCGCTCCCTATT
*
1637697 GCTTCAGGGAGTAGAACTCGAACAA
64 GCTTCAGGAAGTAGAACTCGAACAA
1637722 CTCTGGTGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
104 14 0.18
105 52 0.68
106 10 0.13
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (105 bp):
CGCTCCCTCTTGTTCAGGGAGTAGGAACTCGAACAATCTTCTAAAACGAGTTCGCTCCCTATTGC
TTCAGGAAGTAGAACTCGAACAATCTTCTGCTTACGAGTT
Found at i:1638228 original size:19 final size:20
Alignment explanation
Indices: 1638206--1638260 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
1638196 ACAAATTATC
1638206 CGAAGGATTTAATCAT-GCT
1 CGAAGGATTTAATCATGGCT
* * * *
1638225 CGAAAGACTTACTGATGGCT
1 CGAAGGATTTAATCATGGCT
*
1638245 CGAAGGATTTCATCAT
1 CGAAGGATTTAATCAT
1638261 CATGCTCAAA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (20 bp):
CGAAGGATTTAATCATGGCT
Found at i:1638247 original size:20 final size:20
Alignment explanation
Indices: 1638222--1638285 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
1638212 ATTTAATCAT
1638222 GCTCGAAAGACTTACTGATG
1 GCTCGAAAGACTTACTGATG
* * *
1638242 GCTCGAAGGATTTCATCATCAT-
1 GCTCGAAAGACTT-A-C-TGATG
*
1638264 GCTCAAAAGACTTACTGATG
1 GCTCGAAAGACTTACTGATG
1638284 GC
1 GC
1638286 ACTTACTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 14 0.42
21 2 0.06
22 11 0.33
23 3 0.09
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (20 bp):
GCTCGAAAGACTTACTGATG
Found at i:1638249 original size:39 final size:41
Alignment explanation
Indices: 1638206--1638285 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
1638196 ACAAATTATC
*
1638206 CGAAGGATTT-A-ATCATGCTCGAAAGACTTACTGATGGCT
1 CGAAGGATTTCACATCATGCTCAAAAGACTTACTGATGGCT
1638245 CGAAGGATTTCATCATCATGCTCAAAAGACTTACTGATGGC
1 CGAAGGATTTCA-CATCATGCTCAAAAGACTTACTGATGGC
1638286 ACTTACTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 10 0.27
40 1 0.03
42 26 0.70
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (41 bp):
CGAAGGATTTCACATCATGCTCAAAAGACTTACTGATGGCT
Found at i:1638291 original size:13 final size:13
Alignment explanation
Indices: 1638273--1638297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1638263 TGCTCAAAAG
1638273 ACTTACTGATGGC
1 ACTTACTGATGGC
1638286 ACTTACTGATGG
1 ACTTACTGATGG
1638298 GTTTTGCTTC
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:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:1638435 original size:94 final size:92
Alignment explanation
Indices: 1638245--1638438 Score: 245
Period size: 94 Copynumber: 2.1 Consensus size: 92
1638235 ACTGATGGCT
* *
1638245 CGAAGGATTTCATCATCATGCTCAAAAGACTTACTGATGGCACTTACTGATGGGTTTTGCTTCAT
1 CGAAGGATTTCATCATCATGCTCAAAAGACTTACTGATGGCACTTAATGATGGATTTTGCTTCAT
*
1638310 ACTCTTCGGTGAAGGCTTACAAATTACC
66 ACTCTTC-GTCAAGGCTTACAAATTACC
1638338 CGAAGGATTT-ATCATCATGCTC-AAAGACTTACTGATGGCACTTAAAATGATGGCATTTTG-TT
1 CGAAGGATTTCATCATCATGCTCAAAAGACTTACTGATGGCACTT--AATGATGG-ATTTTGCTT
*
1638400 CATA-TCTTC-TCAAGTTTTTCTTACAAATTACC
63 CATACTCTTCGTCAAG----GCTTACAAATTACC
1638432 CGAAGGA
1 CGAAGGA
1638439 CACTACTCTT
Statistics
Matches: 90, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
90 4 0.04
91 21 0.23
92 17 0.19
93 23 0.26
94 25 0.28
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (92 bp):
CGAAGGATTTCATCATCATGCTCAAAAGACTTACTGATGGCACTTAATGATGGATTTTGCTTCAT
ACTCTTCGTCAAGGCTTACAAATTACC
Found at i:1645539 original size:46 final size:47
Alignment explanation
Indices: 1645459--1645562 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 47
1645449 TTGTTATTAA
*
1645459 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTGTTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* *
1645505 AAAAATAAA-CCTAACCGCATGATGATCTAGTTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGAT-ATCTAATTCGCATGCA-TTATTCG
1645553 AAAAACGAAA
1 AAAAA-GAAA
1645563 ATAAATGACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 14 0.28
46 22 0.44
48 11 0.22
49 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:1645670 original size:14 final size:14
Alignment explanation
Indices: 1645635--1645670 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
1645625 AGGCTCGACC
1645635 TAAGTTCGAGCTCT
1 TAAGTTCGAGCTCT
*
1645649 TAAGGTTCGGGCTCT
1 TAA-GTTCGAGCTCT
1645664 TAAGTTC
1 TAAGTTC
1645671 CTTGTGTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (14 bp):
TAAGTTCGAGCTCT
Found at i:1647383 original size:28 final size:30
Alignment explanation
Indices: 1647338--1647394 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
1647328 TATGCACAAG
*
1647338 ATATATGCTAATATACTAATGCACATATAT
1 ATATATGCTAATACACTAATGCACATATAT
*
1647368 ATATATG-T-ATACACTAATGCACGTATA
1 ATATATGCTAATACACTAATGCACATATA
1647395 AAAACAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.68
29 1 0.04
30 7 0.28
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (30 bp):
ATATATGCTAATACACTAATGCACATATAT
Done.