Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_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: 2141224
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1414067 original size:22 final size:22
Alignment explanation
Indices: 1414032--1414073 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
1414022 TCAACGGGTC
1414032 GGGTAAACGGTAAA-CGGTCGT
1 GGGTAAACGGTAAACCGGTCGT
1414053 GGGTAAACCGGTAAACCGGTC
1 GGGTAAA-CGGTAAACCGGTC
1414074 AAAACCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.29, C:0.19, G:0.36, T:0.17
Consensus pattern (22 bp):
GGGTAAACGGTAAACCGGTCGT
Found at i:1414090 original size:16 final size:16
Alignment explanation
Indices: 1414069--1414099 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1414059 ACCGGTAAAC
1414069 CGGTCAAAACCGGTTA
1 CGGTCAAAACCGGTTA
1414085 CGGTCAAAACCGGTT
1 CGGTCAAAACCGGTT
1414100 TCCAGCGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (16 bp):
CGGTCAAAACCGGTTA
Found at i:1425326 original size:137 final size:137
Alignment explanation
Indices: 1425080--1425358 Score: 540
Period size: 137 Copynumber: 2.0 Consensus size: 137
1425070 TCACATGAGT
*
1425080 GATTGATTAGATGTGCTATGCTTCCTGCTCTAGTGGCATCAATCACTCTTTCATTATCAATTCGA
1 GATTGATTAGATGTGCTATGCTTCCTGCTCTAGGGGCATCAATCACTCTTTCATTATCAATTCGA
*
1425145 AACAAATAAGTGCCAGCACCCTAAGAGATAAAGTACTTGGCATCTTTCAAACTTTGACAATGAGC
66 AACAAATAAGTGCCAGCACCCTAAGAGATAAAGTACTTAGCATCTTTCAAACTTTGACAATGAGC
1425210 TCTCTAA
131 TCTCTAA
1425217 GATTGATTAGATGTGCTATGCTTCCTGCTCTAGGGGCATCAATCACTCTTTCATTATCAATTCGA
1 GATTGATTAGATGTGCTATGCTTCCTGCTCTAGGGGCATCAATCACTCTTTCATTATCAATTCGA
1425282 AACAAATAAGTGCCAGCACCCTAAGAGATAAAGTACTTAGCATCTTTCAAACTTTGACAATGAGC
66 AACAAATAAGTGCCAGCACCCTAAGAGATAAAGTACTTAGCATCTTTCAAACTTTGACAATGAGC
1425347 TCTCTAA
131 TCTCTAA
1425354 GATTG
1 GATTG
1425359 CCCATAGGAC
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (137 bp):
GATTGATTAGATGTGCTATGCTTCCTGCTCTAGGGGCATCAATCACTCTTTCATTATCAATTCGA
AACAAATAAGTGCCAGCACCCTAAGAGATAAAGTACTTAGCATCTTTCAAACTTTGACAATGAGC
TCTCTAA
Found at i:1429687 original size:2 final size:2
Alignment explanation
Indices: 1429680--1429704 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1429670 ATAGATAGAT
1429680 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1429705 AATCACATAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1441689 original size:12 final size:12
Alignment explanation
Indices: 1441661--1441691 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1441651 TTCAAGCTCG
*
1441661 AACTCAAACTCA
1 AACTTAAACTCA
1441673 AACTTAAACTCA
1 AACTTAAACTCA
1441685 AACTTAA
1 AACTTAA
1441692 CCTTAAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (12 bp):
AACTTAAACTCA
Found at i:1443754 original size:26 final size:26
Alignment explanation
Indices: 1443726--1443775 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
1443716 GTCAAAATAG
1443726 GGGGCAGCTAAATT-GATTTCAACAT
1 GGGGCAGCTAAATTGGATTTCAACAT
*
1443751 GGGGCAGCTAAATTGGTTTTCAACA
1 GGGGCAGCTAAATTGGATTTCAACA
1443776 AATGCACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (26 bp):
GGGGCAGCTAAATTGGATTTCAACAT
Found at i:1444258 original size:16 final size:16
Alignment explanation
Indices: 1444225--1444258 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1444215 TTACTATTCA
* *
1444225 CGTGAATAGTGAATTT
1 CGTGAATAGTAAAATT
1444241 CGTGAATAGTAAAATT
1 CGTGAATAGTAAAATT
1444257 CG
1 CG
1444259 ATCGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTAAAATT
Found at i:1448331 original size:26 final size:26
Alignment explanation
Indices: 1448303--1448352 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1448293 GTCAAAATAG
1448303 GGGGCAACTAAATT-GATTTCAACAT
1 GGGGCAACTAAATTGGATTTCAACAT
* *
1448328 GGGGCAGCTAAATTGGTTTTCAACA
1 GGGGCAACTAAATTGGATTTCAACA
1448353 AATGTTTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (26 bp):
GGGGCAACTAAATTGGATTTCAACAT
Found at i:1452184 original size:71 final size:71
Alignment explanation
Indices: 1452053--1452185 Score: 160
Period size: 71 Copynumber: 1.9 Consensus size: 71
1452043 AGTCGAACTA
* * * ** * * * *
1452053 TGTTCATGTTCGTTTGTTTATTTTTAAAGGTGTTTGTGTTTGATTTATGTTTATTTAAATTTTTA
1 TGTTCATGTTCGTTTATTTATTTTTAAAAGTATTCATATTTGATTAATGTTCATTGAAATTTTTA
1452118 GTATCG
66 GTATCG
*
1452124 TGTTCATGTTCGTTTATTTATTTTTAAAAGTATTCATATTATG-TTAATGTTCGTTGAAATTT
1 TGTTCATGTTCGTTTATTTATTTTTAAAAGTATTCATATT-TGATTAATGTTCATTGAAATTT
1452186 ACAATAACAC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 49 0.96
72 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.16, T:0.57
Consensus pattern (71 bp):
TGTTCATGTTCGTTTATTTATTTTTAAAAGTATTCATATTTGATTAATGTTCATTGAAATTTTTA
GTATCG
Found at i:1456109 original size:2 final size:2
Alignment explanation
Indices: 1456102--1456145 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1456092 AGTTGGATTC
1456102 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
1456144 AT
1 AT
1456146 TGATGATTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1459023 original size:4 final size:4
Alignment explanation
Indices: 1459014--1459044 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1459004 CTATGCATGT
*
1459014 ATAA ATAA ATAA ATAA ATGA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1459045 CATAGTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:1461312 original size:26 final size:22
Alignment explanation
Indices: 1461272--1461329 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 22
1461262 GACCATAAAT
*
1461272 TATGTAAATAGGAATAATTTAAGTGA
1 TATGTATATAGGAAT-ATTT--G-GA
*
1461298 TATGTATATATGAATATTTGGA
1 TATGTATATAGGAATATTTGGA
1461320 TATGTATATA
1 TATGTATATA
1461330 AGTGATGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 12 0.40
23 1 0.03
25 4 0.13
26 13 0.43
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (22 bp):
TATGTATATAGGAATATTTGGA
Found at i:1461918 original size:23 final size:23
Alignment explanation
Indices: 1461874--1461918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1461864 ACATTATTAT
*
1461874 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1461897 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1461919 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1462024 original size:2 final size:2
Alignment explanation
Indices: 1462017--1462048 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1462007 AACAAATACA
1462017 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
1462049 GATGGATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1462202 original size:18 final size:18
Alignment explanation
Indices: 1462179--1462213 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1462169 AAATAATTTG
*
1462179 ATGATAATGATATAAATA
1 ATGATAATAATATAAATA
1462197 ATGATAATAATATAAAT
1 ATGATAATAATATAAAT
1462214 GATAATGCTA
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:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
ATGATAATAATATAAATA
Found at i:1462216 original size:15 final size:13
Alignment explanation
Indices: 1462182--1462219 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
1462172 TAATTTGATG
1462182 ATAATGAT-ATAA
1 ATAATGATAATAA
1462194 ATAATGATAATAA
1 ATAATGATAATAA
1462207 TATAAATGATAAT
1 -AT-AATGATAAT
1462220 GCTAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 2 0.09
15 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (13 bp):
ATAATGATAATAA
Found at i:1464577 original size:17 final size:17
Alignment explanation
Indices: 1464538--1464579 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1464528 CAAATGGTGT
*
1464538 TCTTGAAAGAAAAATGA
1 TCTTGAATGAAAAATGA
*
1464555 TATTGAATGAAAAAT-A
1 TCTTGAATGAAAAATGA
1464571 TGCTTGAAT
1 T-CTTGAAT
1464580 TGCTCAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (17 bp):
TCTTGAATGAAAAATGA
Found at i:1464990 original size:72 final size:73
Alignment explanation
Indices: 1464853--1464990 Score: 208
Period size: 72 Copynumber: 1.9 Consensus size: 73
1464843 CCTCTAGGGG
*
1464853 GTATCGGTACCCATTGGACATTCTGTTTTTCTCGGAGCCAAAATTAGCACAAGGGAATCGGTACC
1 GTATCGGTACCCATTGGACATTCTGTTTTTCTCGGAGCCAAAATTAACACAAGGGAATCGGTACC
1464918 TATGAGGT
66 TATGAGGT
* ** *
1464926 GTATCGGTACCCGTTTGG-CATTCTGTTTTT-TCGGAGCCAAAATTAACTTAAGGGTATCGGTAC
1 GTATCGGTACCC-ATTGGACATTCTGTTTTTCTCGGAGCCAAAATTAACACAAGGGAATCGGTAC
1464989 CT
65 CT
1464991 CCTCATTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
72 31 0.53
73 24 0.41
74 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (73 bp):
GTATCGGTACCCATTGGACATTCTGTTTTTCTCGGAGCCAAAATTAACACAAGGGAATCGGTACC
TATGAGGT
Found at i:1473550 original size:72 final size:72
Alignment explanation
Indices: 1473432--1473595 Score: 220
Period size: 72 Copynumber: 2.3 Consensus size: 72
1473422 TTAAATGACT
* * *
1473432 AAGGGTATCGATACCTCTAGGGGGTATCGGTACCCATTAGGCATTTTATTTTTCTCGGAGCCAAA
1 AAGGGTATCGGTACCTAT-GGGGGTATCGGTACCCATTAGCCATTTTATTTTTCTCGGAGCCAAA
* *
1473497 ATTAGCAC
65 ATCAACAC
** * *
1473505 AAGGGTATCGGTACCTATGGGGGTATCGGTACCTGTTTGCCATTTTGTTTTTCTCGGAGCCAAAA
1 AAGGGTATCGGTACCTATGGGGGTATCGGTACCCATTAGCCATTTTATTTTTCTCGGAGCCAAAA
*
1473570 TCAACAT
66 TCAACAC
*
1473577 AAGGGTATCGGTACTTATG
1 AAGGGTATCGGTACCTATG
1473596 ACTTAGGTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 64 0.80
73 16 0.20
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (72 bp):
AAGGGTATCGGTACCTATGGGGGTATCGGTACCCATTAGCCATTTTATTTTTCTCGGAGCCAAAA
TCAACAC
Found at i:1476310 original size:2 final size:2
Alignment explanation
Indices: 1476303--1476338 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1476293 TTTAATTAAT
1476303 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
1476339 CAATTATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1478106 original size:12 final size:13
Alignment explanation
Indices: 1478089--1478118 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1478079 TTGAAGCATG
1478089 ATTTTGGA-ATAT
1 ATTTTGGATATAT
1478101 ATTTTGGATATAT
1 ATTTTGGATATAT
1478114 ATTTT
1 ATTTT
1478119 TGTTAGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (13 bp):
ATTTTGGATATAT
Found at i:1478642 original size:40 final size:40
Alignment explanation
Indices: 1478587--1478668 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
1478577 TATAGGTTTA
*
1478587 TAATACATTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACATTTCGGTGTATATGGTGGGCACGACCTTATGTG
1478627 TAATACATTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACATTTCGGTGTATATGGTGGGCACGACCTTATGTG
1478667 TA
1 TA
1478669 GCACTACGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (40 bp):
TAATACATTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:1482977 original size:7 final size:7
Alignment explanation
Indices: 1482965--1483021 Score: 114
Period size: 7 Copynumber: 8.1 Consensus size: 7
1482955 TCAGTTGCCT
1482965 GTGAAAA
1 GTGAAAA
1482972 GTGAAAA
1 GTGAAAA
1482979 GTGAAAA
1 GTGAAAA
1482986 GTGAAAA
1 GTGAAAA
1482993 GTGAAAA
1 GTGAAAA
1483000 GTGAAAA
1 GTGAAAA
1483007 GTGAAAA
1 GTGAAAA
1483014 GTGAAAA
1 GTGAAAA
1483021 G
1 G
1483022 AGAATATAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.14
Consensus pattern (7 bp):
GTGAAAA
Found at i:1492750 original size:35 final size:34
Alignment explanation
Indices: 1492704--1492769 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
1492694 TTATTTATTA
* *
1492704 ATGATTTTAATTTGAATCTTAAATATATTTTTCTT
1 ATGATTGTAATTTGAATATTAAAT-TATTTTTCTT
1492739 ATGATTGTAATTTGAATATTAAATTATTTTT
1 ATGATTGTAATTTGAATATTAAATTATTTTT
1492770 AATGATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 7 0.24
35 22 0.76
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (34 bp):
ATGATTGTAATTTGAATATTAAATTATTTTTCTT
Found at i:1493046 original size:34 final size:35
Alignment explanation
Indices: 1492987--1493065 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 35
1492977 TATTTATTTT
* *
1492987 ATATTTATTTATTAATGATTTTAATTTCAATCTTAA
1 ATATTT-TTTATTAATGATTATAATTTCAATATTAA
* *
1493023 ATATTTTTTCTT-ATGATTATAATTTGAATATTAA
1 ATATTTTTTATTAATGATTATAATTTCAATATTAA
1493057 ATTATTTTT
1 A-TATTTTT
1493066 AATGATTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 20 0.53
35 12 0.32
36 6 0.16
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (35 bp):
ATATTTTTTATTAATGATTATAATTTCAATATTAA
Found at i:1493096 original size:295 final size:298
Alignment explanation
Indices: 1492501--1493094 Score: 957
Period size: 295 Copynumber: 2.0 Consensus size: 298
1492491 AATAGGCTAA
*
1492501 ATCTAATATTTATGAATCAATTAAAATAATTTTAAATATTATATATTATAGTTAAAGATAGAAAT
1 ATCTAATATTTAGGAATCAATTAAAATAATTTT--ATATTATATATTATAGTTAAAGATAGAAAT
* * *
1492566 AGACAAGTGATACTTAAATCGAGGCCAATTGAAAATATAATAACACTTAAATTACTAAAAAATCT
64 AGACAAGTGAGACATAAATCGAGGCCAATTGAAAATATAATAACACTTAAATTACTAAAAAAACT
1492631 AATATATTATTTATAAATAAGATAAAATTTTAATATTTTAAATTAAAGTTATTTATTTTATATTT
129 AATATATTATTTATAAATAAGATAAAATTTTAATATTTTAAATTAAAGTTATTTATTTTATATTT
* *
1492696 ATTTATTAATGATTTTAATTTGAATCTTAAATATATTTTTCTTATGATTGTAATTTGAATATTAA
194 ATTTATTAATGATTTTAATTTCAATCTTAAATATATTTTTCTTATGATTATAATTTGAATATTAA
1492761 ATTATTTTTAATGATTTCATATATATAATCATTAAAAAAT
259 ATTATTTTTAATGATTTCATATATATAATCATTAAAAAAT
1492801 ATCTAATATTTAGGAATCAATTAAAAT-A-TTT-T-TTATATATTATAGTTAAAGATAGAAATAG
1 ATCTAATATTTAGGAATCAATTAAAATAATTTTATATTATATATTATAGTTAAAGATAGAAATAG
* * *
1492862 ACAAGTGAGGACATAAATCTAGGCCAATT-AAGAATATGATAACACTTAAATTGCTAAAAAAACT
66 ACAAGTGA-GACATAAATCGAGGCCAATTGAA-AATATAATAACACTTAAATTACTAAAAAAACT
* * * * * *
1492926 AATATATTATTTATAATTAATATAAGATTTTAATTTTTTTTAATTTTAAGTTATTTATTTTATAT
129 AATATATTATTTATAAATAAGATAAAATTTTAA--TATTTTAAATTAAAGTTATTTATTTTATAT
1492991 TTATTTATTAATGATTTTAATTTCAATCTTAAATAT-TTTTTCTTATGATTATAATTTGAATATT
192 TTATTTATTAATGATTTTAATTTCAATCTTAAATATATTTTTCTTATGATTATAATTTGAATATT
1493055 AAATTATTTTTAATGATTTCATATATATAATCATTAAAAA
257 AAATTATTTTTAATGATTTCATATATATAATCATTAAAAA
1493095 TAAATATGAA
Statistics
Matches: 275, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
294 39 0.14
295 77 0.28
296 67 0.24
297 62 0.23
298 3 0.01
299 1 0.00
300 26 0.09
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (298 bp):
ATCTAATATTTAGGAATCAATTAAAATAATTTTATATTATATATTATAGTTAAAGATAGAAATAG
ACAAGTGAGACATAAATCGAGGCCAATTGAAAATATAATAACACTTAAATTACTAAAAAAACTAA
TATATTATTTATAAATAAGATAAAATTTTAATATTTTAAATTAAAGTTATTTATTTTATATTTAT
TTATTAATGATTTTAATTTCAATCTTAAATATATTTTTCTTATGATTATAATTTGAATATTAAAT
TATTTTTAATGATTTCATATATATAATCATTAAAAAAT
Found at i:1494050 original size:31 final size:31
Alignment explanation
Indices: 1494012--1494231 Score: 422
Period size: 31 Copynumber: 7.1 Consensus size: 31
1494002 GCTCGTATAA
1494012 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
1494043 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
1494074 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
1494105 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
1494136 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
1494167 TAATCTATCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
1494198 TAATCTGTCCATATGTCCTGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
1494229 TAA
1 TAA
1494232 CTTGTCTCGA
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 186 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCCGAAGAACATAGG
Found at i:1494391 original size:21 final size:20
Alignment explanation
Indices: 1494303--1494392 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 20
1494293 CCTTAAGAAT
*
1494303 CACATATATATTCCAAAAGAC
1 CACATATATA-TCCCAAAGAC
* * *
1494324 CAAATATGTGTCCCAAAGAAC
1 CACATATATATCCCAAAG-AC
* * * *
1494345 CGCATATATGTTCCAAAGGAT
1 CACATATATATCCCAAA-GAC
*
1494366 TACATATATATCCCGAAAGAC
1 CACATATATATCCC-AAAGAC
1494387 CACATA
1 CACATA
1494393 GAACGCTCAA
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
20 7 0.14
21 40 0.78
22 4 0.08
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.23
Consensus pattern (20 bp):
CACATATATATCCCAAAGAC
Found at i:1495596 original size:30 final size:31
Alignment explanation
Indices: 1495536--1495594 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
1495526 CCATTCACAG
* ** *
1495536 CTTTTCCAAAATTACCAAATTGGTCCCCCAA
1 CTTTTCAAAAATTAAAAAAATGGTCCCCCAA
1495567 CTTTTCAAAAATTAAAAAAATGGTCCCC
1 CTTTTCAAAAATTAAAAAAATGGTCCCC
1495595 AAATTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (31 bp):
CTTTTCAAAAATTAAAAAAATGGTCCCCCAA
Found at i:1496577 original size:30 final size:30
Alignment explanation
Indices: 1496543--1496607 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
1496533 AAATTACCAT
* * ** * *
1496543 TTTGGTCCTTAAACTTTTTAAAGTTTATAC
1 TTTGGTCATAAAACTTTCAAAAGCTTATAA
1496573 TTTGGTCATAAAACTTTCAAAAGCTTATAA
1 TTTGGTCATAAAACTTTCAAAAGCTTATAA
1496603 TTTGG
1 TTTGG
1496608 CCACTAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (30 bp):
TTTGGTCATAAAACTTTCAAAAGCTTATAA
Found at i:1496617 original size:30 final size:29
Alignment explanation
Indices: 1496543--1496617 Score: 69
Period size: 30 Copynumber: 2.5 Consensus size: 29
1496533 AAATTACCAT
* ** * *
1496543 TTTGGTCCTTAAACTTTTTAAAGTTTATAC
1 TTTGG-CCATAAACTTTCAAAAGCTTATAA
*
1496573 TTTGGTCATAAAACTTTCAAAAGCTTATAA
1 TTTGGCCAT-AAACTTTCAAAAGCTTATAA
1496603 TTTGGCCACTAAACT
1 TTTGGCCA-TAAACT
1496618 AAATCCATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 2 0.06
30 33 0.92
31 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (29 bp):
TTTGGCCATAAACTTTCAAAAGCTTATAA
Found at i:1497702 original size:44 final size:43
Alignment explanation
Indices: 1497653--1497822 Score: 168
Period size: 44 Copynumber: 4.0 Consensus size: 43
1497643 CATATAAAAT
*
1497653 TGTCCCAAAGGACCTCGTAGAATTATCCCGAAGGACCACATATA
1 TGTCCCAAAGGACCTCATA-AATTATCCCGAAGGACCACATATA
* * **
1497697 TGTCCCGAAGGACCACATAGAATTATCCATAAGGACCACATATA
1 TGTCCCAAAGGACCTCATA-AATTATCCCGAAGGACCACATATA
* * *
1497741 TGTTCCAAAGGA--TCA-AATATATGTCCCGAAGGACCTCATATA
1 TGTCCCAAAGGACCTCATAA-AT-TATCCCGAAGGACCACATATA
* * * *
1497783 TATTCCAAAGGATCTCATATA-TATCCCGAAGGACCACATA
1 TGTCCCAAAGGACCTCATAAATTATCCCGAAGGACCACATA
1497823 GAACCCTCGA
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 47 0.45
44 53 0.50
45 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
TGTCCCAAAGGACCTCATAAATTATCCCGAAGGACCACATATA
Found at i:1497704 original size:21 final size:21
Alignment explanation
Indices: 1497676--1497822 Score: 141
Period size: 21 Copynumber: 6.9 Consensus size: 21
1497666 CTCGTAGAAT
1497676 TATCCCGAAGGACCACATATA
1 TATCCCGAAGGACCACATATA
* *
1497697 TGTCCCGAAGGACCACATAGAA
1 TATCCCGAAGGACCACATA-TA
**
1497719 TTATCCATAAGGACCACATATA
1 -TATCCCGAAGGACCACATATA
* * * * *
1497741 TGTTCCAAAGGATCAAATATA
1 TATCCCGAAGGACCACATATA
* *
1497762 TGTCCCGAAGGACCTCATATA
1 TATCCCGAAGGACCACATATA
* * * *
1497783 TATTCCAAAGGATCTCATATA
1 TATCCCGAAGGACCACATATA
1497804 TATCCCGAAGGACCACATA
1 TATCCCGAAGGACCACATA
1497823 GAACCCTCGA
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
21 81 0.82
22 2 0.02
23 16 0.16
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (21 bp):
TATCCCGAAGGACCACATATA
Found at i:1497734 original size:23 final size:23
Alignment explanation
Indices: 1497650--1497738 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
1497640 TGTCATATAA
* * * *
1497650 AATTGTCCCAAAGGACCTCGTAG
1 AATTATCCCGAAGGACCACATAG
1497673 AATTATCCCGAAGGACCACATA-
1 AATTATCCCGAAGGACCACATAG
* *
1497695 TA-TGTCCCGAAGGACCACATAG
1 AATTATCCCGAAGGACCACATAG
**
1497717 AATTATCCATAAGGACCACATA
1 AATTATCCCGAAGGACCACATA
1497739 TATGTTCCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.33
22 2 0.04
23 34 0.63
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (23 bp):
AATTATCCCGAAGGACCACATAG
Found at i:1497789 original size:42 final size:42
Alignment explanation
Indices: 1497676--1497822 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
1497666 CTCGTAGAAT
* * * * * *
1497676 TATCCCGAAGGACCACATATATGTCCCGAAGGACCACATAGAA
1 TATCCCGAAGGACCACATATATATTCCAAAGGATCAAATA-TA
** *
1497719 TTATCCATAAGGACCACATATATGTTCCAAAGGATCAAATATA
1 -TATCCCGAAGGACCACATATATATTCCAAAGGATCAAATATA
* * **
1497762 TGTCCCGAAGGACCTCATATATATTCCAAAGGATCTCATATA
1 TATCCCGAAGGACCACATATATATTCCAAAGGATCAAATATA
1497804 TATCCCGAAGGACCACATA
1 TATCCCGAAGGACCACATA
1497823 GAACCCTCGA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 52 0.60
43 1 0.01
44 34 0.39
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (42 bp):
TATCCCGAAGGACCACATATATATTCCAAAGGATCAAATATA
Found at i:1499689 original size:40 final size:40
Alignment explanation
Indices: 1499644--1499724 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
1499634 TAACTCATTA
1499644 ACGGAAGTCTAACTTAAAAATTAAAATTAAAAGAAAATTC
1 ACGGAAGTCTAACTTAAAAATTAAAATTAAAAGAAAATTC
* **
1499684 ACGGAAGTCTGACTTGGAAATTAAAATTAAAAGAAAATTC
1 ACGGAAGTCTAACTTAAAAATTAAAATTAAAAGAAAATTC
1499724 A
1 A
1499725 AGAAACTCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.25
Consensus pattern (40 bp):
ACGGAAGTCTAACTTAAAAATTAAAATTAAAAGAAAATTC
Found at i:1500830 original size:24 final size:24
Alignment explanation
Indices: 1500770--1500844 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
1500760 TTTAAAAAAA
1500770 ATTAAGTTATA-ATAAAATATATTT
1 ATTAAGTTATATATAAAA-ATATTT
*
1500794 AATAAGTTA-ATATAAAAATATTT
1 ATTAAGTTATATATAAAAATATTT
1500817 -TTAAGTTAATATATATAAAAT-TTT
1 ATTAAGTT-ATATATA-AAAATATTT
1500841 ATTA
1 ATTA
1500845 TATATAATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
22 6 0.14
23 8 0.18
24 22 0.50
25 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTAAGTTATATATAAAAATATTT
Found at i:1500836 original size:25 final size:26
Alignment explanation
Indices: 1500777--1500837 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
1500767 AAAATTAAGT
1500777 TATA-ATAAAATATATTTAATAAGTTA
1 TATATATAAAATATATTT-ATAAGTTA
1500803 -ATATA-AAAATAT-TTT-TAAGTTAA
1 TATATATAAAATATATTTATAAGTT-A
1500826 TATATATAAAAT
1 TATATATAAAAT
1500838 TTTATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
22 6 0.19
23 1 0.03
24 8 0.26
25 15 0.48
26 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
TATATATAAAATATATTTATAAGTTA
Found at i:1500841 original size:22 final size:22
Alignment explanation
Indices: 1500771--1500829 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
1500761 TTAAAAAAAA
1500771 TTAAGTT-ATAATAAAATATATTT
1 TTAAGTTAAT-ATAAAA-ATATTT
*
1500794 AATAAGTTAATATAAAAATATTT
1 -TTAAGTTAATATAAAAATATTT
1500817 TTAAGTTAATATA
1 TTAAGTTAATATA
1500830 TATAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 12 0.38
23 6 0.19
24 12 0.38
25 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAAGTTAATATAAAAATATTT
Found at i:1501129 original size:39 final size:39
Alignment explanation
Indices: 1501085--1501195 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 39
1501075 TTTTAAAAAT
1501085 AATTTAGAATTTCA-ATGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAATTTCATA-GTGAAATAATTTAAGAAATTAAG
* * * *
1501124 AATTTAGAACGTT-ATGGTGTGAA-AATTTAAGAAATTAGG
1 AATTTAGAA-TTTCATAGTG-AAATAATTTAAGAAATTAAG
* *
1501163 ATTTTAGAATGTCATAGTGAAATAATTTAAGAA
1 AATTTAGAATTTCATAGTGAAATAATTTAAGAA
1501196 TTATGTATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
38 3 0.05
39 51 0.88
40 4 0.07
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (39 bp):
AATTTAGAATTTCATAGTGAAATAATTTAAGAAATTAAG
Found at i:1503292 original size:5 final size:5
Alignment explanation
Indices: 1503282--1503327 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
1503272 CGAGTATGAC
* *
1503282 TTAAT TTAAT TCTAAT CATAAA TTAAT TTAAT TTAAT TTAAT TTAA
1 TTAAT TTAAT T-TAAT -TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
1503328 CTCACATGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 28 0.80
6 7 0.20
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (5 bp):
TTAAT
Found at i:1506616 original size:17 final size:17
Alignment explanation
Indices: 1506579--1506621 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1506569 TTTTATAAAA
*
1506579 AAAAACTATAAAATGTG
1 AAAAACTATAAAATATG
*
1506596 AAAAACTATAAAATATT
1 AAAAACTATAAAATATG
1506613 AAAAA-TATA
1 AAAAACTATA
1506622 TTATTTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAACTATAAAATATG
Found at i:1508742 original size:16 final size:16
Alignment explanation
Indices: 1508721--1508772 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
1508711 ATGTAGAACA
1508721 ATTTTTATTTAATATT
1 ATTTTTATTTAATATT
1508737 ATTTTTA--TAATATAT
1 ATTTTTATTTAATAT-T
** *
1508752 ATTTCAATTTAATACT
1 ATTTTTATTTAATATT
1508768 ATTTT
1 ATTTT
1508773 ACTTAGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 12 0.41
17 5 0.17
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTATTTAATATT
Found at i:1518140 original size:399 final size:400
Alignment explanation
Indices: 1517271--1518227 Score: 1871
Period size: 399 Copynumber: 2.4 Consensus size: 400
1517261 CTGCTGCATC
1517271 AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCA
1 AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCA
*
1517336 TGACTAAATTTGACAAATTTTCTGAGGTAATCTATCAATTTTTTATTATTGTTTTAAGGTTTATA
66 TGACTAAATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATA
1517401 CTCTGCCATCTCCCCTAGCTGTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTT
131 CTCTGCCATCTCCCCTAGCTGTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTT
1517466 TTCTTGTTTTGAGTAACATTATAAGTTTCATTGGCGTAGATTTTTTTCTTTTAGTGATGAACTTG
196 TTCTTGTTTTGAGTAACATTATAAGTTTCATTGGCGTAGATTTTTTTCTTTTAGTGATGAACTTG
1517531 CGGAACTTATGTTCTTAGATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTG
261 CGGAACTTATGTTCTTAGATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTG
*
1517596 GTTGTGAGCAGAGCAGCTATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTG
326 GTTGTGAGCAGAGAAGCTATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTG
1517661 GACTAGGAGT
391 GACTAGGAGT
*
1517671 AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTTA
1 AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCA
1517736 TGACTAAATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATA
66 TGACTAAATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATA
1517801 CTCTGCCATCTCCCCTAGCTGTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTT
131 CTCTGCCATCTCCCCTAGCTGTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTT
1517866 TTCTTGTTTTGAGTAACATTATAAGTTTCATTGGCGTAGATTTTTTTCTTTTAGTGATGAACTTG
196 TTCTTGTTTTGAGTAACATTATAAGTTTCATTGGCGTAGATTTTTTTCTTTTAGTGATGAACTTG
1517931 CGG-ACTTATGTTCTTAGATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTG
261 CGGAACTTATGTTCTTAGATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTG
*
1517995 GTTGTTAGCAGAGAAGCTATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTG
326 GTTGTGAGCAGAGAAGCTATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTG
1518060 GACTAGGAGT
391 GACTAGGAGT
1518070 AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCA
1 AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCA
1518135 TGACTAAATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATA
66 TGACTAAATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATA
1518200 CTCTGCCATCTCCCCTAGCTGTATGGAC
131 CTCTGCCATCTCCCCTAGCTGTATGGAC
1518228 CAATGTTTTT
Statistics
Matches: 552, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
399 291 0.53
400 261 0.47
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (400 bp):
AAAAACTTTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCA
TGACTAAATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATA
CTCTGCCATCTCCCCTAGCTGTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTT
TTCTTGTTTTGAGTAACATTATAAGTTTCATTGGCGTAGATTTTTTTCTTTTAGTGATGAACTTG
CGGAACTTATGTTCTTAGATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTG
GTTGTGAGCAGAGAAGCTATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTG
GACTAGGAGT
Found at i:1519333 original size:30 final size:30
Alignment explanation
Indices: 1519297--1519358 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
1519287 AGTGAACCGG
*
1519297 CGTTTCAAACCGATTTTGCAGGTTTTCAGC
1 CGTTTCAAACCGATTTTACAGGTTTTCAGC
** * *
1519327 CGTTTCACCCCGGTTTTACCGGTTTTCAGC
1 CGTTTCAAACCGATTTTACAGGTTTTCAGC
1519357 CG
1 CG
1519359 GTTCTACCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (30 bp):
CGTTTCAAACCGATTTTACAGGTTTTCAGC
Found at i:1519359 original size:11 final size:11
Alignment explanation
Indices: 1519317--1519381 Score: 61
Period size: 9 Copynumber: 6.4 Consensus size: 11
1519307 CGATTTTGCA
1519317 GGTTTTCAGCC
1 GGTTTTCAGCC
*
1519328 -G-TTTCACCCC
1 GGTTTTCA-GCC
1519338 GGTTTT-A-CC
1 GGTTTTCAGCC
1519347 GGTTTTCAGCC
1 GGTTTTCAGCC
*
1519358 GGTTCT-A-CC
1 GGTTTTCAGCC
1519367 GGTTTTCAGCC
1 GGTTTTCAGCC
1519378 GGTT
1 GGTT
1519382 ATTGCCACCC
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
9 20 0.45
10 6 0.14
11 15 0.34
12 3 0.07
ACGTcount: A:0.09, C:0.29, G:0.25, T:0.37
Consensus pattern (11 bp):
GGTTTTCAGCC
Found at i:1519359 original size:20 final size:20
Alignment explanation
Indices: 1519336--1519381 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1519326 CCGTTTCACC
*
1519336 CCGGTTTTACCGGTTTTCAG
1 CCGGTTCTACCGGTTTTCAG
1519356 CCGGTTCTACCGGTTTTCAG
1 CCGGTTCTACCGGTTTTCAG
1519376 CCGGTT
1 CCGGTT
1519382 ATTGCCACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.09, C:0.28, G:0.26, T:0.37
Consensus pattern (20 bp):
CCGGTTCTACCGGTTTTCAG
Found at i:1520228 original size:403 final size:402
Alignment explanation
Indices: 1519482--1520294 Score: 1554
Period size: 403 Copynumber: 2.0 Consensus size: 402
1519472 GATAACCATG
*
1519482 GTATGGATAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTTTTCTTGTTTTGAGTAACATT
1 GTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTTTTCTTGTTTTGAGTAACATT
1519547 ATAAGTTTCATTGGCGTAGATTTTTTTTTCTTTTAGTGATGAACTTGCGGAACTTATGTTCTTAG
66 ATAAGTTTCATTGGCGTAGATTTTTTTTTCTTTTAGTGATGAACTTGCGGAACTTATGTTCTTAG
1519612 ATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTGGTTGTGAGCAGAGCAGCT
131 ATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTGGTTGTGAGCAGAGCAGCT
*
1519677 ATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTGGACTAGGAGTAAAAACTT
196 ATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTGAACTAGGAGTAAAAACTT
*
1519742 TCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCGTTTCTCATTTCATGACTAAA
261 TCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCATGACTAAA
1519807 TTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATACTCTGCAA
326 TTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATACTCTGCAA
1519872 TCTCCCCTAGCA
391 TCTCCCCTAGCA
1519884 GTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTTTTCTTGTTTTGAGTAACATT
1 GTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTTTTCTTGTTTTGAGTAACATT
* *
1519949 ATAAGTTTCGTTGGCGTAGATTTTTTTTTTCTTTTAGTGATGAACTTGCGGAACTTGTGTTCTTA
66 ATAAGTTTCATTGGCGTAGA-TTTTTTTTTCTTTTAGTGATGAACTTGCGGAACTTATGTTCTTA
1520014 GATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTGGTTGTGAGCAGAGCAGC
130 GATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTGGTTGTGAGCAGAGCAGC
1520079 TATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTGAACTAGGAGTAAAAACT
195 TATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTGAACTAGGAGTAAAAACT
1520144 TTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCATGACTAA
260 TTCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCATGACTAA
*
1520209 ATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATACTCTGCC
325 ATTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATACTCTGCA
*
1520274 ATCTCCCCTAGCT
390 ATCTCCCCTAGCA
1520287 GTATGGAC
1 GTATGGAC
1520295 CAATGTTTTT
Statistics
Matches: 403, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
402 83 0.21
403 320 0.79
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (402 bp):
GTATGGACAGTGATAAGTATCTACTATCAGAGGGTGATTATTTTTTTCTTGTTTTGAGTAACATT
ATAAGTTTCATTGGCGTAGATTTTTTTTTCTTTTAGTGATGAACTTGCGGAACTTATGTTCTTAG
ATATTTAAGGTTCTTCATTTAACAAACCTTTTATATGAAAGATTTTGGTTGTGAGCAGAGCAGCT
ATTTGTTAACTAATAGAAAGAATCATCATAAAACAGAGTGTAGTTTGAACTAGGAGTAAAAACTT
TCTTGGCAATAGAGCTAGATGATCTTCATTTGAAGGAGACAGTCATTTCTCATTTCATGACTAAA
TTTGACAAATTTTCTGAGGTAATGTATCAATTTTTTATTATTGTTTTAAGGTTTATACTCTGCAA
TCTCCCCTAGCA
Found at i:1521178 original size:30 final size:30
Alignment explanation
Indices: 1521133--1521199 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
1521123 AGTGAACCGG
** *
1521133 CGGTTCAAACCGGTTTTGCCGGTTTTCAGC
1 CGGTTCACCCCGGTTTTACCGGTTTTCAGC
*
1521163 CGTTTCACCCCGGTTTTACCGGTTTTCAGC
1 CGGTTCACCCCGGTTTTACCGGTTTTCAGC
1521193 CGGTTCA
1 CGGTTCA
1521200 TTGCCAGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.12, C:0.30, G:0.24, T:0.34
Consensus pattern (30 bp):
CGGTTCACCCCGGTTTTACCGGTTTTCAGC
Found at i:1521195 original size:11 final size:11
Alignment explanation
Indices: 1521142--1521197 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
1521132 GCGGTTCAAA
1521142 CCGGTTTT--G
1 CCGGTTTTCAG
1521151 CCGGTTTTCAG
1 CCGGTTTTCAG
*
1521162 CC-G-TTTCACC
1 CCGGTTTTCA-G
1521172 CCGGTTTT-A-
1 CCGGTTTTCAG
1521181 CCGGTTTTCAG
1 CCGGTTTTCAG
1521192 CCGGTT
1 CCGGTT
1521198 CATTGCCAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
9 21 0.54
10 4 0.10
11 11 0.28
12 3 0.08
ACGTcount: A:0.07, C:0.30, G:0.25, T:0.38
Consensus pattern (11 bp):
CCGGTTTTCAG
Found at i:1524367 original size:41 final size:41
Alignment explanation
Indices: 1524310--1524401 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
1524300 AATGACCAAC
* * *
1524310 AAATTCGCAACGCGAATATATAAATTGCATTGCGATTTTCT
1 AAATTCGCAACGCGAATATATAAATCGCAATGCGAATTTCT
* * *
1524351 AAATTCGCAACGCGAATCTTTAAATCGCAATGCGAATTTGT
1 AAATTCGCAACGCGAATATATAAATCGCAATGCGAATTTCT
1524392 AAA-TCGCAAC
1 AAATTCGCAAC
1524402 ACAGAAGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 7 0.16
41 38 0.84
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (41 bp):
AAATTCGCAACGCGAATATATAAATCGCAATGCGAATTTCT
Found at i:1524380 original size:20 final size:20
Alignment explanation
Indices: 1524314--1524401 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
1524304 ACCAACAAAT
* *
1524314 TCGCAACGCGAATATATAAA
1 TCGCAACGCGAATTTCTAAA
* ** *
1524334 TTGCATTGCGATTTTCTAAA
1 TCGCAACGCGAATTTCTAAA
1524354 TTCGCAACGCGAATCTT-TAAA
1 -TCGCAACGCGAAT-TTCTAAA
* *
1524375 TCGCAATGCGAATTTGTAAA
1 TCGCAACGCGAATTTCTAAA
1524395 TCGCAAC
1 TCGCAAC
1524402 ACAGAAGTCA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.04
20 36 0.68
21 13 0.25
22 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGAATTTCTAAA
Found at i:1524418 original size:20 final size:20
Alignment explanation
Indices: 1524407--1524565 Score: 185
Period size: 20 Copynumber: 8.0 Consensus size: 20
1524397 GCAACACAGA
*
1524407 AGTCAAATTCGCAACGTGAT
1 AGTCAAATTCGCAACGCGAT
1524427 AGTCAAA-TCTGCAACGCGAT
1 AGTCAAATTC-GCAACGCGAT
*
1524447 AGCCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * * *
1524467 AGCCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
1524487 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * * * *
1524507 AGCCAAATTCGTAACACAAA
1 AGTCAAATTCGCAACGCGAT
*
1524527 AGTCAAATTCGCAACGCGAG
1 AGTCAAATTCGCAACGCGAT
*
1524547 AGACAAATTCGCAACGCGA
1 AGTCAAATTCGCAACGCGA
1524566 AATACAATAT
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
19 2 0.02
20 113 0.97
21 2 0.02
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:1524419 original size:40 final size:40
Alignment explanation
Indices: 1524395--1524561 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
1524385 AATTTGTAAA
* * *
1524395 TCGCAACACAGAAGTCAAATTCGCAACGTGATAGTCAAA-
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
* * * *
1524434 TCTGCAACGCGATAGCCAAATTCGCAACGCGATAGCCAAAT
1 TC-GCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
1524475 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
* * *
1524515 TCGTAACACAAAAGTCAAATTCGCAACGCGAGAGACAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
1524555 TCGCAAC
1 TCGCAAC
1524562 GCGAAATACA
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 2 0.02
40 107 0.96
41 2 0.02
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.16
Consensus pattern (40 bp):
TCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
Found at i:1524459 original size:60 final size:60
Alignment explanation
Indices: 1524395--1524565 Score: 220
Period size: 60 Copynumber: 2.9 Consensus size: 60
1524385 AATTTGTAAA
* *
1524395 TCGCAACACAGAAGTCAAATTCGCAACGTGATAGTCAAA-TCTGCAACGCGATAGCCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTCAAATTC-GCAACGCGATAGCCAAAT
* * * *
1524455 TCGCAACGC-GATAGCCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGCCAAAT
1 TCGCAACACAGA-AGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGATAGCCAAAT
* * * *
1524515 TCGTAACACAAAAGTCAAATTCGCAACGCGAGAGACAAATTCGCAACGCGA
1 TCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGA
1524566 AATACAATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
59 2 0.02
60 89 0.95
61 3 0.03
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (60 bp):
TCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCGATAGCCAAAT
Found at i:1524699 original size:22 final size:22
Alignment explanation
Indices: 1524674--1524720 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1524664 CTACGGCGAC
*
1524674 ATCCGTCCCCATCTCCGACGAA
1 ATCCCTCCCCATCTCCGACGAA
* *
1524696 ATCCCTCCCCATTTCCGGCGAA
1 ATCCCTCCCCATCTCCGACGAA
1524718 ATC
1 ATC
1524721 TGTCTATCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.45, G:0.13, T:0.21
Consensus pattern (22 bp):
ATCCCTCCCCATCTCCGACGAA
Found at i:1525090 original size:20 final size:20
Alignment explanation
Indices: 1525067--1525127 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 20
1525057 AAACTTAAAT
1525067 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
* *
1525087 TCGCAATAC---CA---AAA
1 TCGCAACACGAAAATGAAAA
*
1525101 TCGCAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
1525121 TCGCAAC
1 TCGCAAC
1525128 GTGATTTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
14 10 0.33
17 2 0.07
20 18 0.60
ACGTcount: A:0.49, C:0.25, G:0.15, T:0.11
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:1525163 original size:20 final size:19
Alignment explanation
Indices: 1525128--1525181 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1525118 AAATCGCAAC
1525128 GTGATTTTAGTTTCGCGTT
1 GTGATTTTAGTTTCGCGTT
*
1525147 GTGATTTTCATTTTCGCGTT
1 GTGATTTT-AGTTTCGCGTT
* *
1525167 GCGAATTTAAGTTTC
1 GTG-ATTTTAGTTTC
1525182 AGAAACTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.50
Consensus pattern (19 bp):
GTGATTTTAGTTTCGCGTT
Found at i:1527332 original size:21 final size:21
Alignment explanation
Indices: 1527308--1527398 Score: 78
Period size: 21 Copynumber: 4.3 Consensus size: 21
1527298 CCTATCATCA
* *
1527308 TTCAAGATGCGCCTCCTATCG
1 TTCAAGAAGCCCCTCCTATCG
* *
1527329 TTCAAGAGGCCCCTCTTATC-
1 TTCAAGAAGCCCCTCCTATCG
* *
1527349 ATCGAAGAAGCCCCTCCTACCG
1 TTC-AAGAAGCCCCTCCTATCG
* *
1527371 TTCAAGAGGCCCCT-GTCATCG
1 TTCAAGAAGCCCCTCCT-ATCG
1527392 TTCAAGA
1 TTCAAGA
1527399 GGTCCCGCCC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.05
21 51 0.91
22 2 0.04
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (21 bp):
TTCAAGAAGCCCCTCCTATCG
Found at i:1527350 original size:42 final size:42
Alignment explanation
Indices: 1527302--1527398 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
1527292 GATGCACCTA
* * *
1527302 TCATCATTCAAGATGCGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTCCTACCGTTCAAGAGGCCCCTC
* *
1527344 TTATCA-TCGAAGAAGCCCCTCCTACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAAGCCCCTCCTACCGTTCAAGAGGCCCCTC
*
1527386 TCATCGTTCAAGA
1 TCATCATTCAAGA
1527399 GGTCCCGCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.04
42 42 0.91
43 2 0.04
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
TCATCATTCAAGAAGCCCCTCCTACCGTTCAAGAGGCCCCTC
Found at i:1528969 original size:20 final size:20
Alignment explanation
Indices: 1528949--1529014 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
1528939 TTTGCAATTT
*
1528949 GCGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTC
*
1528969 GCATTGCGAATTTGACTTTC
1 GCGTTGCGAATTTGACTTTC
1528989 GCGTTGCGAATTTGACTTTC
1 GCGTTGCGAATTTGACTTTC
1529009 GCGTTG
1 GCGTTG
1529015 ATCGCGACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTC
Found at i:1529323 original size:18 final size:18
Alignment explanation
Indices: 1529300--1529335 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1529290 AAGCCGGTTG
1529300 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
1529318 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
1529336 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:1531546 original size:12 final size:12
Alignment explanation
Indices: 1531525--1531558 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1531515 TGTTGTGGGT
*
1531525 TTTGAGATTGTG
1 TTTGATATTGTG
1531537 TTTGATATTGTG
1 TTTGATATTGTG
*
1531549 TTTGGTATTG
1 TTTGATATTG
1531559 GAAATGTGGT
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:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1532174 original size:16 final size:15
Alignment explanation
Indices: 1532152--1532190 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1532142 GAAATCATTG
1532152 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
1532168 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
1532183 AAAAATTA
1 AAAAATTA
1532191 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:1532371 original size:19 final size:19
Alignment explanation
Indices: 1532347--1532393 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1532337 AACTAAAACA
*
1532347 TGTTGCGAAATTAAATTTG
1 TGTTGCGAAATTAAATTCG
1532366 TGTTGCGAAATTAAATTCG
1 TGTTGCGAAATTAAATTCG
*
1532385 AGTTGCGAA
1 TGTTGCGAA
1532394 TTCGAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTTGCGAAATTAAATTCG
Found at i:1532410 original size:20 final size:19
Alignment explanation
Indices: 1532367--1532458 Score: 87
Period size: 19 Copynumber: 4.7 Consensus size: 19
1532357 TTAAATTTGT
* *
1532367 GTTGCGAAATT-AAATTCGA
1 GTTGCGAATTTGAAAATC-A
*
1532386 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAAATC-A
*
1532406 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAAATCA
* *
1532425 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAAAT-C-A
1532446 GTTGCGAATTTGA
1 GTTGCGAATTTGA
1532459 CTTTTGTGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
19 27 0.43
20 23 0.37
21 13 0.21
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (19 bp):
GTTGCGAATTTGAAAATCA
Found at i:1532427 original size:19 final size:20
Alignment explanation
Indices: 1532348--1532538 Score: 140
Period size: 20 Copynumber: 9.7 Consensus size: 20
1532338 ACTAAAACAT
* * *
1532348 GTTGCGAAATT-AAATTTGT
1 GTTGCGAATTTGAAATTCGA
*
1532367 GTTGCGAAATT-AAATTCGA
1 GTTGCGAATTTGAAATTCGA
* * *
1532386 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAATTCGA
1532406 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
*
1532425 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-CGA
** * *
1532446 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATTCGA
* *
1532466 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGA
** * *
1532486 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATTCGA
* *
1532506 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGA
1532526 GTTGCGAATTTGA
1 GTTGCGAATTTGA
1532539 CTTATGTGTT
Statistics
Matches: 140, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
19 46 0.33
20 78 0.56
21 16 0.11
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:1532450 original size:40 final size:40
Alignment explanation
Indices: 1532367--1532539 Score: 156
Period size: 40 Copynumber: 4.3 Consensus size: 40
1532357 TTAAATTTGT
* * * **
1532367 GTTGCGAAATT-A-AATTCGAGTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGACAATTC-AGTTGCGAATTTGAATATCGC
1532406 GTTGCGAATTTGA-AATTCAGTTGCGAATTTGAA-ATTCCGC
1 GTTGCGAATTTGACAATTCAGTTGCGAATTTGAATA-T-CGC
** ** *
1532446 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACAATTCAGTTGCGAATTTGAATATCGC
** ** *
1532486 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACAATTCAGTTGCGAATTTGAATATCGC
1532526 GTTGCGAATTTGAC
1 GTTGCGAATTTGAC
1532540 TTATGTGTTG
Statistics
Matches: 120, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 25 0.21
40 77 0.64
41 16 0.13
42 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTGCGAATTTGACAATTCAGTTGCGAATTTGAATATCGC
Found at i:1532471 original size:20 final size:20
Alignment explanation
Indices: 1532446--1532552 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
1532436 GAAATTCCGC
1532446 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
1532466 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
1532486 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
1532506 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
1532526 GTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTTTTGT
1532546 GTTGCGA
1 GTTGCGA
1532553 TTTACATATT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:1532471 original size:60 final size:61
Alignment explanation
Indices: 1532406--1532538 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 61
1532396 CGAAAATCTA
* * *
1532406 GTTGCGAATTTGAAAT-TC-AGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATATCGAGTTGCGAATTTG-AATTCCGCGTTGCGAATTTGACTATCGC
* * * ** *
1532466 GTTGCGAATTTG-ACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGAAATATCGAGTTGCGAATTTGAATTCCGCGTTGCGAATTTGACTATCGC
1532526 GTTGCGAATTTGA
1 GTTGCGAATTTGA
1532539 CTTATGTGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 47 0.77
61 12 0.20
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (61 bp):
GTTGCGAATTTGAAATATCGAGTTGCGAATTTGAATTCCGCGTTGCGAATTTGACTATCGC
Found at i:1532540 original size:40 final size:41
Alignment explanation
Indices: 1532425--1532573 Score: 218
Period size: 40 Copynumber: 3.7 Consensus size: 41
1532415 TTGAAATTCA
*
1532425 GTTGCGAATTTGA-AATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATT-CGCGTTGCGAATTTGACTTTTGT
1532466 GTTGCGAATTTGACTA-TCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATTCGCGTTGCGAATTTGACTTTTGT
*
1532506 GTTGCGAATTTGACTA-TCGCGTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTATTCGCGTTGCGAATTTGACTTTTGT
*
1532546 GTTGCG-ATTT-ACATATTCGCATTGCGAA
1 GTTGCGAATTTGAC-TATTCGCGTTGCGAA
1532574 ATTGGAAACT
Statistics
Matches: 102, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
38 2 0.02
39 6 0.06
40 79 0.77
41 14 0.14
42 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.40
Consensus pattern (41 bp):
GTTGCGAATTTGACTATTCGCGTTGCGAATTTGACTTTTGT
Found at i:1532571 original size:60 final size:60
Alignment explanation
Indices: 1532425--1532573 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 60
1532415 TTGAAATTCA
* * * * * *
1532425 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTG-ACTTTCGCATTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGC
* ** *
1532486 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTAT-GT
1 GTTGCGAATTTGACTTTCGCATTGCGAATTTGACTATCGCGTTGCGAATTTGAC-TATCGC
1532546 GTTGCG-ATTT-ACATATTCGCATTGCGAA
1 GTTGCGAATTTGAC-T-TTCGCATTGCGAA
1532574 ATTGGAAACT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.03
59 5 0.07
60 52 0.70
61 15 0.20
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.40
Consensus pattern (60 bp):
GTTGCGAATTTGACTTTCGCATTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGC
Found at i:1532590 original size:80 final size:79
Alignment explanation
Indices: 1532425--1532617 Score: 196
Period size: 80 Copynumber: 2.4 Consensus size: 79
1532415 TTGAAATTCA
* * *
1532425 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTG
1 GTTGCGAATTTGATA-T-CGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTATCGCATTG
* *** *
1532490 CGAATTTGACTTTTGT
64 CGAATTGGACAACTGG
1532506 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCG-ATTT-ACATATTCGCATT
1 GTTGCGAATTTGA-TATCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGAC-TA-TCGCATT
1532569 GCGAAATTGGA-AACTGG
63 GCG-AATTGGACAACTGG
* *
1532586 GTTGCGAAATTAGAGT-TCGCATTGCGAATTTG
1 GTTGCG-AATTTGA-TATCGCGTTGCGAATTTG
1532618 TTGCGAATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
78 2 0.02
79 6 0.06
80 60 0.62
81 27 0.28
82 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (79 bp):
GTTGCGAATTTGATATCGCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTATCGCATTGCG
AATTGGACAACTGG
Found at i:1541833 original size:20 final size:20
Alignment explanation
Indices: 1541808--1541854 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1541798 AAAATAATTG
1541808 TAAAATATGAAGAAAAACTA
1 TAAAATATGAAGAAAAACTA
*
1541828 TAAAATATGAAGAAAAACTG
1 TAAAATATGAAGAAAAACTA
1541848 TAAAATA
1 TAAAATA
1541855 GACTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAAATATGAAGAAAAACTA
Found at i:1541908 original size:2 final size:2
Alignment explanation
Indices: 1541903--1542029 Score: 174
Period size: 2 Copynumber: 65.5 Consensus size: 2
1541893 GAAAAAATTA
*
1541903 AT AT AT AT AT AT AT A- AT AT AT AT AT AT A- AT AT AT AA AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1541942 AT AT AT AT GT AT AA ACT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1541984 AT AT AT GT AT AT AT AT AT AT AT -T 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
1542025 AT AT A
1 AT AT A
1542030 AAATAGTAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
1 5 0.05
2 105 0.95
3 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1542982 original size:20 final size:20
Alignment explanation
Indices: 1542957--1542995 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1542947 TTTATATTGT
1542957 TATATACTATATATAAACTA
1 TATATACTATATATAAACTA
*
1542977 TATATATTATATATAAACT
1 TATATACTATATATAAACT
1542996 GTTAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATACTATATATAAACTA
Found at i:1546218 original size:20 final size:20
Alignment explanation
Indices: 1546181--1546219 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1546171 GGATTGAGTG
* * *
1546181 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1546201 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1546220 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:1546448 original size:20 final size:21
Alignment explanation
Indices: 1546395--1546456 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
1546385 ATTCCCCTGT
1546395 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGG-ATCGGTT-CCC-TCAAA
* *
1546419 GGGTGAATCGGTTCCCTC-AA
1 GGGGGGATCGGTTCCCTCAAA
*
1546439 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
1546457 TGCACTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 3 0.09
23 7 0.21
24 4 0.12
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:1550795 original size:236 final size:235
Alignment explanation
Indices: 1550382--1550853 Score: 926
Period size: 236 Copynumber: 2.0 Consensus size: 235
1550372 CCATCAAGCA
1550382 CAAGTTAGCTACTTATTGTTCCTCTTCATCGGAACTTTCTTCATCGCTCCATGTAGCCACATGAG
1 CAAGTTAGCTACTTATTGTTCCTCTTCATCGGAACTTTCTTCATCGCTCCATGTAGCCACATGAG
1550447 CCTTATGCTTATTCTTTAATTGACCATTTTTCTTCAATTGTGGGCAGTCATATTTAACATGCCCT
66 CCTTATGCTTATTCTTTAATTGACCATTTTTCTTCAATTGTGGGCAGTCATATTTAACATGCCCT
1550512 GGCTTTTTGCATTCGTAGCAAATGATTGGGTCCTTCTCTTTCGGTTCATTTTTGAGGCCTTCATT
131 GGCTTTTTGCATTCGTAGCAAATGATTGGGTCCTTCTCTTTCGGTTCATTTTTGAGGCCTTCATT
1550577 TCGGTTTGAATTTTCTTCCTTGATAAGGTCTCATCATTTTT
196 TC-GTTTGAATTTTCTTCCTTGATAAGGTCTCATCATTTTT
1550618 CAAGTTAGCTACTTATTGTTCCTCTTCATCGGAACTTTCTTCATCGCTCCATGTAGCCACATGAG
1 CAAGTTAGCTACTTATTGTTCCTCTTCATCGGAACTTTCTTCATCGCTCCATGTAGCCACATGAG
*
1550683 CCTTATGCTTATTCTTTGATTGACCATTTTTCTTCAATTGTGGGCAGTCATATTTAACATGCCCT
66 CCTTATGCTTATTCTTTAATTGACCATTTTTCTTCAATTGTGGGCAGTCATATTTAACATGCCCT
1550748 GGCTTTTTGCATTCGTAGCAAATGATTGGGTCCTTCTCTTTCGGTTCATTTTTGAGGCCTTCATT
131 GGCTTTTTGCATTCGTAGCAAATGATTGGGTCCTTCTCTTTCGGTTCATTTTTGAGGCCTTCATT
1550813 TCGTTTGAATTTTCTTCCTTGATAAGGTCTCATCATTTTT
196 TCGTTTGAATTTTCTTCCTTGATAAGGTCTCATCATTTTT
1550853 C
1 C
1550854 TGAACCGTTT
Statistics
Matches: 235, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
235 39 0.17
236 196 0.83
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (235 bp):
CAAGTTAGCTACTTATTGTTCCTCTTCATCGGAACTTTCTTCATCGCTCCATGTAGCCACATGAG
CCTTATGCTTATTCTTTAATTGACCATTTTTCTTCAATTGTGGGCAGTCATATTTAACATGCCCT
GGCTTTTTGCATTCGTAGCAAATGATTGGGTCCTTCTCTTTCGGTTCATTTTTGAGGCCTTCATT
TCGTTTGAATTTTCTTCCTTGATAAGGTCTCATCATTTTT
Found at i:1552816 original size:30 final size:30
Alignment explanation
Indices: 1552780--1552876 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 30
1552770 TTCAACATAA
1552780 ACTATATAGTTTATATTTATATTATTATAT
1 ACTATATAGTTTATATTTATATTATTATAT
* * *
1552810 ACTATATA-TAAACTATATAGTT-TATTAATATAA
1 ACTATATAGT----T-TATATTTATATTATTATAT
*
1552843 ATTATATAGTTTATATTTATATTATTATAT
1 ACTATATAGTTTATATTTATATTATTATAT
1552873 ACTA
1 ACTA
1552877 GATATAAACT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
29 7 0.13
30 21 0.40
33 17 0.33
34 7 0.13
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (30 bp):
ACTATATAGTTTATATTTATATTATTATAT
Found at i:1552841 original size:22 final size:22
Alignment explanation
Indices: 1552815--1552980 Score: 114
Period size: 22 Copynumber: 7.5 Consensus size: 22
1552805 TATATACTAT
1552815 ATATAAACTATATAGTTTATTA
1 ATATAAACTATATAGTTTATTA
*
1552837 ATATAAATTATATAGTTTA-T-
1 ATATAAACTATATAGTTTATTA
* * * * *
1552857 ATTTATATTAT-TA-TATACTA
1 ATATAAACTATATAGTTTATTA
1552877 GATATAAACTATATA-TATATATATA
1 -ATATAAACTATATAGT-T-TAT-TA
1552902 TTATGTATAAACTATATAGTTTATTA
1 --A--TATAAACTATATAGTTTATTA
*
1552928 ATATAAATTATATAGTTTA-T-
1 ATATAAACTATATAGTTTATTA
* **
1552948 ATATAAATTATATA-TGAATTA
1 ATATAAACTATATAGTTTATTA
1552969 ATATAAACTATA
1 ATATAAACTATA
1552981 CAACTTATAT
Statistics
Matches: 117, Mismatches: 14, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.03
19 5 0.04
20 24 0.21
21 21 0.18
22 38 0.32
24 3 0.03
25 2 0.02
26 3 0.03
27 3 0.03
28 14 0.12
29 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATAAACTATATAGTTTATTA
Found at i:1552900 original size:28 final size:27
Alignment explanation
Indices: 1552860--1552919 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
1552850 AGTTTATATT
1552860 TATAT-TATTATATACTA-GATATAAAC
1 TATATATATTATATACTATG-TATAAAC
*
1552886 TATATATATATATATATTATGTATAAAC
1 TATATATAT-TATATACTATGTATAAAC
1552914 TATATA
1 TATATA
1552920 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 5 0.17
27 3 0.10
28 21 0.70
29 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (27 bp):
TATATATATTATATACTATGTATAAAC
Found at i:1552915 original size:91 final size:88
Alignment explanation
Indices: 1552797--1552980 Score: 271
Period size: 91 Copynumber: 2.0 Consensus size: 88
1552787 AGTTTATATT
*
1552797 TATATTATTATATACTATATATAAACTATATAGTTTATTAATATAAATTATATAGTTTATATTTA
1 TATATTATTATATACTATATATAAACTATATAGTTTATTAATATAAATTATATAGTTTATATATA
*
1552862 TATTAT-TATATACTAGATATAAAC
66 AATTATATATA-ACTA-ATATAAAC
* *
1552886 TATATATATATATATATTATGTATAAACTATATAGTTTATTAATATAAATTATATAGTTTATATA
1 TATAT-TAT-TATATACTATATATAAACTATATAGTTTATTAATATAAATTATATAGTTTATATA
*
1552951 TAAATTATATATGAATTAATATAAAC
64 TAAATTATATAT-AACTAATATAAAC
1552977 TATA
1 TATA
1552981 CAACTTATAT
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
89 5 0.06
90 3 0.03
91 71 0.83
92 6 0.07
93 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (88 bp):
TATATTATTATATACTATATATAAACTATATAGTTTATTAATATAAATTATATAGTTTATATATA
AATTATATATAACTAATATAAAC
Found at i:1552919 original size:20 final size:20
Alignment explanation
Indices: 1552886--1553082 Score: 104
Period size: 20 Copynumber: 9.8 Consensus size: 20
1552876 AGATATAAAC
*
1552886 TATATATATA-TATATA--T
1 TATATATAAACTATATAGTT
*
1552903 TATGTATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
1552923 TATTAATATAAATTATATAGTT
1 TA-T-ATATAAACTATATAGTT
* *
1552945 TATATATAAATTATATATGAAT
1 TATATATAAACTATATA-G-TT
* **
1552967 TA-ATATAAACTATACAACT
1 TATATATAAACTATATAGTT
* * * * * *
1552986 TATATTTATATTTTATGGAT
1 TATATATAAACTATATAGTT
* *
1553006 AAT-TATAAA-TAATATA-TAC
1 TATATATAAACT-ATATAGT-T
* *
1553025 TATGTATAAATTATATAGTT
1 TATATATAAACTATATAGTT
1553045 TATTTATATAAACTATATAGTT
1 TA--TATATAAACTATATAGTT
1553067 TATATATAAA-TATATA
1 TATATATAAACTATATA
1553083 TACATATGGT
Statistics
Matches: 137, Mismatches: 28, Indels: 28
0.71 0.15 0.15
Matches are distributed among these distances:
17 8 0.06
18 7 0.05
19 18 0.13
20 49 0.36
21 17 0.12
22 38 0.28
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:1552925 original size:63 final size:63
Alignment explanation
Indices: 1552791--1553001 Score: 175
Period size: 63 Copynumber: 3.3 Consensus size: 63
1552781 CTATATAGTT
* * * * *
1552791 TATATTTATATTATTATATACTATATATAAACTATATAGTTTATTAATATAAATTATATAGTT
1 TATATTTATATTATTATATACTAGATATAAACTATATAGTATATTAATATAAATTATAAACTA
*
1552854 TATATTTATATTATTATATACTAGATATAAACTATATA-TATA-T-ATATATTATGTATAAACTA
1 TATATTTATATTATTATATACTAGATATAAACTATATAGTATATTAATATA-AAT-TATAAACTA
* * * *
1552916 TATAGTTTATTAATATAAATTATATAGTTTATATATAAATTATATA-TGA-ATTAATATAAACTA
1 TATA-TTTA-T-AT-T--ATTATATA--CTAGATATAAACTATATAGT-ATATTAATATAAATTA
1552979 TACAACT-
57 TA-AACTA
1552986 TATATTTATATT-TTAT
1 TATATTTATATTATTAT
1553002 GGATAATTAT
Statistics
Matches: 123, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
60 5 0.04
61 3 0.02
62 13 0.11
63 45 0.37
64 1 0.01
65 2 0.02
66 2 0.02
67 2 0.02
68 9 0.07
69 4 0.03
70 25 0.20
71 7 0.06
72 5 0.04
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (63 bp):
TATATTTATATTATTATATACTAGATATAAACTATATAGTATATTAATATAAATTATAAACTA
Found at i:1552952 original size:11 final size:11
Alignment explanation
Indices: 1552790--1552980 Score: 63
Period size: 11 Copynumber: 18.5 Consensus size: 11
1552780 ACTATATAGT
* *
1552790 TTATATTTATA
1 TTATATATAAA
*
1552801 TTAT-TATATA
1 TTATATATAAA
*
1552811 CTATATATAAA
1 TTATATATAAA
* **
1552822 CTATATAGTTTA
1 TTATATA-TAAA
1552834 TTA-ATATAAA
1 TTATATATAAA
1552844 TTATATAGT---
1 TTATATA-TAAA
* *
1552853 TTATATTTATA
1 TTATATATAAA
*
1552864 TTAT-TATATA
1 TTATATATAAA
* *
1552874 CTAGATATAAA
1 TTATATATAAA
*
1552885 CTATATAT--A
1 TTATATATAAA
1552894 -TATATAT--A
1 TTATATATAAA
*
1552902 TTATGTATAAA
1 TTATATATAAA
* **
1552913 CTATATAGTTTA
1 TTATATA-TAAA
1552925 TTA-ATATAAA
1 TTATATATAAA
1552935 TTATATAGT---
1 TTATATA-TAAA
1552944 TTATATATAAA
1 TTATATATAAA
*
1552955 TTATATATGAA
1 TTATATATAAA
1552966 TTA-ATATAAA
1 TTATATATAAA
*
1552976 CTATA
1 TTATA
1552981 CAACTTATAT
Statistics
Matches: 137, Mismatches: 25, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
8 10 0.07
9 20 0.15
10 33 0.24
11 64 0.47
12 10 0.07
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (11 bp):
TTATATATAAA
Found at i:1553061 original size:22 final size:19
Alignment explanation
Indices: 1553029--1553082 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 19
1553019 ATATACTATG
1553029 TATAAATTATATAGTTTATTTA
1 TATAAA-TATATAGTTTA--TA
1553051 TATAAACTATATAGTTTATA
1 TATAAA-TATATAGTTTATA
1553071 TATAAATATATA
1 TATAAATATATA
1553083 TACATATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 6 0.19
20 8 0.26
22 17 0.55
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
TATAAATATATAGTTTATA
Found at i:1553209 original size:11 final size:11
Alignment explanation
Indices: 1553145--1553202 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
1553135 TAGATAGTAG
1553145 TATATAAACTA
1 TATATAAACTA
1553156 TATATAAAC-A
1 TATATAAACTA
*
1553166 -ATATATACTA
1 TATATAAACTA
*
1553176 -ACT-TATACTA
1 TA-TATAAACTA
*
1553186 TATGTAAACTA
1 TATATAAACTA
1553197 TATATA
1 TATATA
1553203 CTATATAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 7 0.17
10 11 0.28
11 22 0.55
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (11 bp):
TATATAAACTA
Found at i:1553239 original size:13 final size:13
Alignment explanation
Indices: 1553145--1553273 Score: 59
Period size: 13 Copynumber: 9.5 Consensus size: 13
1553135 TAGATAGTAG
1553145 TATATAAAC--TA
1 TATATAAACTATA
*
1553156 TATATAAACAATA
1 TATATAAACTATA
1553169 TATACT-AACTTATA
1 TATA-TAAAC-TATA
1553183 CTATATGTAAACTATA
1 -TATA--TAAACTATA
* *
1553199 TATACTATATAGTTTA
1 TATA-TA-A-ACTATA
* *
1553215 CATATGAACTATA
1 TATATAAACTATA
*
1553228 TGTATAAACTATA
1 TATATAAACTATA
* *
1553241 TATATATA-TAAA
1 TATATAAACTATA
*
1553253 CTATGTAAACTATA
1 -TATATAAACTATA
1553267 TAATATA
1 T-ATATA
1553274 TATAGTTTAG
Statistics
Matches: 87, Mismatches: 19, Indels: 21
0.69 0.15 0.17
Matches are distributed among these distances:
11 9 0.10
12 3 0.03
13 36 0.41
14 14 0.16
15 10 0.11
16 12 0.14
17 3 0.03
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (13 bp):
TATATAAACTATA
Found at i:1553250 original size:17 final size:17
Alignment explanation
Indices: 1553224--1553277 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
1553214 ACATATGAAC
*
1553224 TATATGTATAAACTATA
1 TATATATATAAACTATA
*
1553241 TATATATATAAACTATG
1 TATATATATAAACTATA
*
1553258 TAAACTATAT-AA-TATA
1 TATA-TATATAAACTATA
1553274 TATA
1 TATA
1553278 GTTTAGTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 6 0.19
17 20 0.65
18 5 0.16
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (17 bp):
TATATATATAAACTATA
Found at i:1553277 original size:9 final size:9
Alignment explanation
Indices: 1553230--1553269 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1553220 GAACTATATG
1553230 TATAAACTA
1 TATAAACTA
*
1553239 TATATA-TA
1 TATAAACTA
1553247 TATAAACTA
1 TATAAACTA
*
1553256 TGTAAACTA
1 TATAAACTA
1553265 TATAA
1 TATAA
1553270 TATATATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (9 bp):
TATAAACTA
Found at i:1553353 original size:77 final size:75
Alignment explanation
Indices: 1553195--1553435 Score: 256
Period size: 77 Copynumber: 3.2 Consensus size: 75
1553185 ATATGTAAAC
* * * *
1553195 TATATATACTATATAGTTTACATATGAACTATATGTATAAACTATATATATATATAAACTATGTA
1 TATATATAGTTTATAGTTTACATATGAACTATATATATAAACTATATATATATATAAACTATATA
1553260 AACTATATAA
66 AACTATATAA
* * ** *
1553270 TATATATAGTTTAGTAGTTTACATATGAACTATATATATAAACTATATACTATATTTGATGTTTA
1 TATATATAGTTTA-TAGTTTACATATGAACTATATATATAAACTATATA-TATATATAAACTATA
*
1553335 TATACTATATAA
64 TAAACTATATAA
* * * * *
1553347 TATATATAGTTTACATTATTACATATGAACTATATATATATAGT-T-TATA-A-ATGAACTATAT
1 TATATATAGTTTATAGT-TTACATATGAACTATATATATAAACTATATATATATATAAACTATAT
*
1553408 AAACTATTTATA
65 AAACTATATA-A
*
1553420 TAGTATATAGTATATA
1 TA-TATATAGTTTATA
1553436 TATAAACTAT
Statistics
Matches: 139, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
72 15 0.11
73 4 0.03
74 13 0.09
75 13 0.09
76 37 0.27
77 57 0.41
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (75 bp):
TATATATAGTTTATAGTTTACATATGAACTATATATATAAACTATATATATATATAAACTATATA
AACTATATAA
Found at i:1553428 original size:40 final size:39
Alignment explanation
Indices: 1553377--1553473 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 39
1553367 ACATATGAAC
* *
1553377 TATATATATATAGTTTATAAATGAACTAT-ATAAACTATT
1 TATATATATATAGTATATAAATAAACTATAATAAA-TATT
* **
1553416 TATATAGTATATAGTATATATATAAACTATAATTTATATT
1 TATATA-TATATAGTATATAAATAAACTATAATAAATATT
*
1553456 TATATATTATATACTATA
1 TATATA-TATATAGTATA
1553474 GTTGATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.12
40 40 0.82
41 3 0.06
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (39 bp):
TATATATATATAGTATATAAATAAACTATAATAAATATT
Found at i:1553466 original size:20 final size:21
Alignment explanation
Indices: 1553412--1553519 Score: 51
Period size: 20 Copynumber: 5.0 Consensus size: 21
1553402 CTATATAAAC
*
1553412 TATTTATATAGTAT-ATAGTA
1 TATTTATATACTATAATAGTA
* * *
1553432 TATATATAAACTATAAT-TTA
1 TATTTATATACTATAATAGTA
*
1553452 TATTTATATATTATATACTATAGTTGA
1 TATTTATATA--CTATA--ATAG-T-A
* *
1553479 TATTTATATACTGT-ATATTA
1 TATTTATATACTATAATAGTA
* *
1553499 TATGTATAAACTATATATAGT
1 TATTTATATACTATA-ATAGT
1553520 GTATAGTATA
Statistics
Matches: 63, Mismatches: 15, Indels: 18
0.66 0.16 0.19
Matches are distributed among these distances:
20 33 0.52
21 3 0.05
22 11 0.17
24 2 0.03
25 2 0.03
26 1 0.02
27 11 0.17
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (21 bp):
TATTTATATACTATAATAGTA
Found at i:1553481 original size:27 final size:26
Alignment explanation
Indices: 1553430--1553488 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
1553420 TAGTATATAG
*
1553430 TATATATATAAACTATAATTTATATT
1 TATATATATAAACTATAATTGATATT
* *
1553456 TATATATTATATACTATAGTTGATATT
1 TATATA-TATAAACTATAATTGATATT
1553483 TATATA
1 TATATA
1553489 CTGTATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (26 bp):
TATATATATAAACTATAATTGATATT
Found at i:1553495 original size:27 final size:27
Alignment explanation
Indices: 1553430--1553500 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
1553420 TAGTATATAG
* *
1553430 TATATA-TATAAACTATAATTTATATT
1 TATATACTATATACTATAATTGATATT
* *
1553456 TATATATTATATACTATAGTTGATATT
1 TATATACTATATACTATAATTGATATT
* *
1553483 TATATACTGTATATTATA
1 TATATACTATATACTATA
1553501 TGTATAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 6 0.16
27 32 0.84
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
TATATACTATATACTATAATTGATATT
Found at i:1553617 original size:27 final size:27
Alignment explanation
Indices: 1553587--1553651 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1553577 ATATATCGAC
* *
1553587 TATATACTATAGTTGATATTTATATAA
1 TATATACTATAATTGATACTTATATAA
* *
1553614 TATATAATATAATTTATACTTATATAA
1 TATATACTATAATTGATACTTATATAA
*
1553641 TTTATACTATA
1 TATATACTATA
1553652 TAAATTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (27 bp):
TATATACTATAATTGATACTTATATAA
Found at i:1553640 original size:15 final size:14
Alignment explanation
Indices: 1553607--1553654 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 14
1553597 AGTTGATATT
*
1553607 TATATAATATATA-
1 TATATAATTTATAC
1553620 -ATATAATTTATAC
1 TATATAATTTATAC
1553633 TTATATAATTTATAC
1 -TATATAATTTATAC
1553648 TATATAA
1 TATATAA
1553655 ATTCAAAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 11 0.35
14 7 0.23
15 13 0.42
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
TATATAATTTATAC
Found at i:1553861 original size:51 final size:52
Alignment explanation
Indices: 1553795--1553926 Score: 203
Period size: 51 Copynumber: 2.6 Consensus size: 52
1553785 ACTATATATT
* * * *
1553795 TATATATAAAGTATATGGTATAAATAAACTATATATTATATTGTTCATT-AG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAAG
*
1553846 TATAAATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAAG
*
1553898 TATATATAAATTATATAGTATATATAAAC
1 TATATATAAACTATATAGTATATATAAAC
1553927 AACTGAGGGC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 44 0.60
52 29 0.40
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (52 bp):
TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAAG
Found at i:1553924 original size:18 final size:18
Alignment explanation
Indices: 1553718--1553926 Score: 127
Period size: 18 Copynumber: 12.0 Consensus size: 18
1553708 ATAAACTATT
*
1553718 TATATAGTATATACTACA-
1 TATATAGTATATA-TAAAC
* *
1553736 TATATAGTTTATATATAC
1 TATATAGTATATATAAAC
* *
1553754 TATATAGTTTACATATTAAC
1 TATATAG--TATATATAAAC
1553774 --TATA-TATA-A-AAAC
1 TATATAGTATATATAAAC
* *
1553787 TATATATTTATATATAAAG
1 TATATA-GTATATATAAAC
* *
1553806 TATATGGTATAAATAAAC
1 TATATAGTATATATAAAC
* ***
1553824 TATATATTATAT-TGTTC
1 TATATAGTATATATAAAC
*
1553841 -AT-TAGTATAAATAAAC
1 TATATAGTATATATAAAC
1553857 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
* **
1553875 TATATATTATATAGTTCA-
1 TATATAGTATATA-TAAAC
*
1553893 T-TA-AGTATATATAAAT
1 TATATAGTATATATAAAC
1553909 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
1553927 AACTGAGGGC
Statistics
Matches: 143, Mismatches: 32, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
13 3 0.02
14 1 0.01
15 15 0.10
16 12 0.08
17 15 0.10
18 80 0.56
19 10 0.07
20 7 0.05
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:1554662 original size:64 final size:65
Alignment explanation
Indices: 1554563--1554687 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 65
1554553 GAATGTATTT
* * * *
1554563 CATGCATTAATGCACTTAGGGTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGC
1 CATGCATCAATGCACTCAGGCTTTTATCAAAACATCGAATGCATTTGATGCATCGATGCACCAGC
* * *
1554628 CATGCATCGATGCACTCAGGCTTTT-TCAAAACATCGAATGTATTTTATGCATCGATGCAC
1 CATGCATCAATGCACTCAGGCTTTTATCAAAACATCGAATGCATTTGATGCATCGATGCAC
1554688 ACTTAGTGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
64 32 0.60
65 21 0.40
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (65 bp):
CATGCATCAATGCACTCAGGCTTTTATCAAAACATCGAATGCATTTGATGCATCGATGCACCAGC
Found at i:1560848 original size:23 final size:23
Alignment explanation
Indices: 1560771--1560855 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 23
1560761 ATCGATACAC
1560771 TGAATAGTGCATCGATGCA-TCCCTT
1 TGAAT-GTGCATCGATGCACT-CC-T
* *
1560796 TGAATGTGCATCGATACAC-CAT
1 TGAATGTGCATCGATGCACTCCT
* *
1560818 T-AAGGTGCACCGATGCACTCCT
1 TGAATGTGCATCGATGCACTCCT
1560840 TGAATGTGCATCGATG
1 TGAATGTGCATCGATG
1560856 AACAAGGCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 14 0.29
22 5 0.10
23 13 0.27
24 12 0.24
25 5 0.10
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (23 bp):
TGAATGTGCATCGATGCACTCCT
Found at i:1562589 original size:2 final size:2
Alignment explanation
Indices: 1562582--1562668 Score: 167
Period size: 2 Copynumber: 44.0 Consensus size: 2
1562572 TTACACTTAA
1562582 AT AT AT AT AT AT AT AT AT AT AT AT -T 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
1562623 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
1562665 AT AT
1 AT AT
1562669 TTGGTTTGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1563421 original size:45 final size:46
Alignment explanation
Indices: 1563324--1563429 Score: 169
Period size: 45 Copynumber: 2.3 Consensus size: 46
1563314 TGCACCAATC
* * *
1563324 TATGCATCGATGCACTCAGGGTTTTATGAAAAGATCGAATGCATTT
1 TATGCATCGATGCACTCAGGCTTTTATCAAAACATCGAATGCATTT
*
1563370 GATGCATCGATGCACTCAGGCTTTT-TCAAAACATCGAATGCATTT
1 TATGCATCGATGCACTCAGGCTTTTATCAAAACATCGAATGCATTT
1563415 TATGCATCGATGCAC
1 TATGCATCGATGCAC
1563430 ACTTTGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 32 0.58
46 23 0.42
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (46 bp):
TATGCATCGATGCACTCAGGCTTTTATCAAAACATCGAATGCATTT
Found at i:1564293 original size:2 final size:2
Alignment explanation
Indices: 1564286--1564352 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
1564276 ATAAAAAGTC
1564286 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
1564328 AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1564353 CATACATTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1564516 original size:21 final size:21
Alignment explanation
Indices: 1564490--1564543 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1564480 TATAAAATCA
*
1564490 TCCCGAAGGACCACATTTATG
1 TCCCGAAGGACCACATATATG
*
1564511 TCCCGAAGAACCACATATATG
1 TCCCGAAGGACCACATATATG
1564532 TCCCGAAGGACC
1 TCCCGAAGGACC
1564544 GCGTAGAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATG
Found at i:1567906 original size:20 final size:20
Alignment explanation
Indices: 1567877--1567915 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1567867 AGAGCTCATA
*
1567877 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1567897 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1567916 GTGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:1570589 original size:17 final size:17
Alignment explanation
Indices: 1570567--1570619 Score: 97
Period size: 17 Copynumber: 3.1 Consensus size: 17
1570557 AGTGAAATAC
1570567 GCAAATCAATTGCTGAT
1 GCAAATCAATTGCTGAT
1570584 GCAAATCAATTGCTGAT
1 GCAAATCAATTGCTGAT
*
1570601 GCAAATCAATTGCTAAT
1 GCAAATCAATTGCTGAT
1570618 GC
1 GC
1570620 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (17 bp):
GCAAATCAATTGCTGAT
Found at i:1573335 original size:72 final size:72
Alignment explanation
Indices: 1573250--1573390 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
1573240 TCTAGGAACA
* * *
1573250 ACCTTTCTAATAGGATGCTTTCCGCTTCTTAAAACCTTGACATCAAGCATGCTACAATCATTTTG
1 ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTGACATCAAGCATGCCACAATCATTCTG
1573315 ATCATCT
66 ATCATCT
* *
1573322 ACCTTCCTAATAGGATGCTTTCTGCTTCTTAAAACCTTGGCATCAAGCATGCCACAATCATTCTG
1 ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTGACATCAAGCATGCCACAATCATTCTG
1573387 ATCA
66 ATCA
1573391 CCTTCTGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (72 bp):
ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTGACATCAAGCATGCCACAATCATTCTG
ATCATCT
Found at i:1582980 original size:90 final size:90
Alignment explanation
Indices: 1582827--1583002 Score: 316
Period size: 90 Copynumber: 2.0 Consensus size: 90
1582817 ATATCTCGTC
*
1582827 TTAGTTAAACTCATTATATCAACATCTTCAAAATCATCATGGATCACATCTTTGATGTCCTTATC
1 TTAGTTAAACTCATTACATCAACATCTTCAAAATCATCATGGATCACATCTTTGATGTCCTTATC
*
1582892 AATGTTGAATACTATATCACTGGTT
66 AATGTTGAACACTATATCACTGGTT
* *
1582917 TTAGTTAAACTCATTACATCGACATCTTCAAAATCATCATGGATCACATGTTTGATGTCCTTATC
1 TTAGTTAAACTCATTACATCAACATCTTCAAAATCATCATGGATCACATCTTTGATGTCCTTATC
1582982 AATGTTGAACACTATATCACT
66 AATGTTGAACACTATATCACT
1583003 CTTCATTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (90 bp):
TTAGTTAAACTCATTACATCAACATCTTCAAAATCATCATGGATCACATCTTTGATGTCCTTATC
AATGTTGAACACTATATCACTGGTT
Found at i:1585359 original size:19 final size:19
Alignment explanation
Indices: 1585337--1585392 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1585327 ATTATATTTT
1585337 ATATTATATATTTATGT-AA
1 ATATTATATATTTAT-TAAA
* *
1585356 ATATTATTTTTTTATTAAA
1 ATATTATATATTTATTAAA
*
1585375 ATATTTATATAATTATTA
1 ATA-TTATATATTTATTA
1585393 TTTATTTAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.60
20 11 0.37
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATTATATATTTATTAAA
Found at i:1585379 original size:31 final size:30
Alignment explanation
Indices: 1585326--1585400 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
1585316 TTTAAATAGT
* * *
1585326 TATTATATTTTATATTATATATTTATGTAAA
1 TATTAT-TTTTTTATTAAATATTTATATAAA
*
1585357 TATTATTTTTTTATTAAAATATTTATATAAT
1 TATTATTTTTTTATT-AAATATTTATATAAA
*
1585388 TATTATTTATTTA
1 TATTATTTTTTTA
1585401 GAATTATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 8 0.21
31 30 0.79
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTATTTTTTTATTAAATATTTATATAAA
Found at i:1587195 original size:21 final size:21
Alignment explanation
Indices: 1587134--1587197 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
1587124 TATACCATCT
*
1587134 CCGCAGGGGTTACATTCCGAGC
1 CCGCA-GGGTTACATTCCTAGC
1587156 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
1587177 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
1587198 AGGGTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 32 0.82
22 7 0.18
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:1587779 original size:33 final size:32
Alignment explanation
Indices: 1587725--1587812 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 32
1587715 TAAATGTTTT
*
1587725 TAAAATACAAAT-TATTATTCGAAATTTAAAA
1 TAAAATAAAAATATATTATTCGAAATTTAAAA
1587756 TAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TAAAATAAAAAT-ATATTATTCGAAATTTAAAA
* *
1587789 -AAAAT--AAATATAGTATTCAAAATT
1 TAAAATAAAAATATATTATTCGAAATT
1587813 AACATTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 13 0.25
30 4 0.08
31 11 0.21
32 5 0.10
33 19 0.37
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAAATAAAAATATATTATTCGAAATTTAAAA
Found at i:1588844 original size:122 final size:125
Alignment explanation
Indices: 1588177--1589000 Score: 1168
Period size: 122 Copynumber: 6.7 Consensus size: 125
1588167 ACAATCCATC
*
1588177 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAC--A-TCTCTAACAAATAATG
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAATAATG
1588239 GAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT--GAAATAATAGGTACTGATATGAA
66 GAA-G-GCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
1588299 TAGTGTCCCCGAGGGACATGA--G---TAATAGGGAAATGATAACATATTCTCTGAC-AATAATG
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAATAATG
* *
1588358 GAAGGCGTGCCCCCGGGAACGCGCCTTCAAGT-CCCT--GATA-AATAGGT--T-ATAT--C
66 GAAGGC--GCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
1588411 TAGTGT-CCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATA-TCTCTGACAAATAATG
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAATAATG
* *
1588474 GAAGGCGCCCCCGAGAACGCGCCTTCAAGTCCCCCGAGAAA-AATAGGTACTGATATGAA
66 GAAGGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
1588533 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA-CAAATAAT
* * * *
1588598 GGAAGGCGTGCCCCCGGGAACACGCCTTCAAGTCCCATGAGAAATAATAGGTACTAATAT-ATC
65 GGAAGGC--GCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGA-A
1588661 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC-AAATAAT
* *
1588726 GGAATGCGCCCCCGGG-ACGCTCCTTCAAGTCCCCTGAGAAATAATAGGTAC-GATATGAA
65 GGAAGGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
1588785 TAGTGT-CCCGA-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC-AAATAAT
* * * *
1588848 GGAAGGCG-CACCTGGAACGCGCCTTCAAGTCCCCTAAGAAATAATAGATACTGATATGAA
65 GGAAGGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
1588908 TAGTGTCCCCGAGGGACATGAGTGACATAATA-GGCAATGATAACATATTCTCTGACAAATAATG
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAATAATG
1588972 GAAGGAGCGCCCCCGGGAACGCGCCTTCA
66 GAA-G-GCGCCCCCGGGAACGCGCCTTCA
1589001 TGTGACTAGT
Statistics
Matches: 634, Mismatches: 33, Indels: 66
0.86 0.05 0.09
Matches are distributed among these distances:
111 13 0.02
112 6 0.01
113 1 0.00
114 27 0.04
115 12 0.02
116 33 0.05
117 36 0.06
118 8 0.01
119 36 0.06
120 12 0.02
121 5 0.01
122 118 0.19
123 70 0.11
124 47 0.07
125 69 0.11
126 26 0.04
127 32 0.05
128 83 0.13
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (125 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAATAATG
GAAGGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:1588941 original size:247 final size:249
Alignment explanation
Indices: 1588176--1589000 Score: 1193
Period size: 247 Copynumber: 3.4 Consensus size: 249
1588166 CACAATCCAT
*
1588176 CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAC--ATCTCTAACAAATAATG
1 CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATCTCTGACAAATAATG
*
1588239 GAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT--GAAATAATAGGTACTGATATGAATAG
66 GAA-GAGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAG
*
1588302 TGTCCCCGAGGGACATGA--G---TAATAGGGAAATGATAACATATTCTCTGAC--AATAATGGA
130 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGA
*
1588360 AGGCGTGCCCCCGGGAACGCGCCTTCAAGT-CCCT-GATA-AATAGGT--TATAT-
195 AGGCG-GCCCCCGGGAACGCGCCTTCAAGTCCCCTAGAAATAATAGGTACTATATA
*
1588410 CTAGTGT-CCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATCTCTGACAAATAATG
1 CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATCTCTGACAAATAATG
* *
1588474 GAAG-GCGCCCCCGAGAACGCGCCTTCAAGTCCCCCGAGAAA-AATAGGTACTGATATGAATAGT
66 GAAGAGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGT
*
1588537 GTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAATGGAA
131 GTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAA
* *
1588602 GGCGTGCCCCCGGGAACACGCCTTCAAGTCCCATGAGAAATAATAGGTACTAATATA
196 GGCG-GCCCCCGGGAACGCGCCTTCAAGTCCCCT-AGAAATAATAGGTACT-ATATA
1588659 TCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATA
1 -CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-TCTCTGAC-AAATA
* *
1588724 ATGGAA-TGCGCCCCCGGG-ACGCTCCTTCAAGTCCCCTGAGAAATAATAGGTAC-GATATGAAT
63 ATGGAAGAGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAAT
1588786 AGTGT-CCCGA-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATG
128 AGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATG
* * *
1588849 GAAGGC-G-CACCTGGAACGCGCCTTCAAGTCCCCTAAGAAATAATAGATACTGATATGA
193 GAAGGCGGCCCCCGGGAACGCGCCTTCAAGTCCCCT-AGAAATAATAGGTACT-ATAT-A
*
1588907 ATAGTGTCCCCGAGGGACATGAGTGACATAATA-GGCAATGATAACATATTCTCTGACAAATAAT
1 CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-TCTCTGACAAATAAT
1588971 GGAAGGAGCGCCCCCGGGAACGCGCCTTCA
65 GGAA-GAGCGCCCCCGGGAACGCGCCTTCA
1589001 TGTGACTAGT
Statistics
Matches: 538, Mismatches: 24, Indels: 44
0.89 0.04 0.07
Matches are distributed among these distances:
233 66 0.12
234 47 0.09
235 23 0.04
236 1 0.00
239 28 0.05
241 38 0.07
242 3 0.01
244 3 0.01
245 18 0.03
246 24 0.04
247 86 0.16
248 16 0.03
250 65 0.12
251 45 0.08
252 45 0.08
253 30 0.06
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (249 bp):
CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATCTCTGACAAATAATG
GAAGAGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGT
GTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAA
GGCGGCCCCCGGGAACGCGCCTTCAAGTCCCCTAGAAATAATAGGTACTATATA
Found at i:1589092 original size:8 final size:8
Alignment explanation
Indices: 1589079--1589119 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1589069 TTCACAAGCT
1589079 TCAAATTC
1 TCAAATTC
1589087 TCAAATTC
1 TCAAATTC
* *
1589095 CCAAACTC
1 TCAAATTC
1589103 T-AAATTC
1 TCAAATTC
1589110 TCAAATTC
1 TCAAATTC
1589118 TC
1 TC
1589120 TGAAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1592550 original size:17 final size:19
Alignment explanation
Indices: 1592530--1592567 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1592520 TAATATACTA
1592530 ATTTA-TAATAAA-AAAAT
1 ATTTATTAATAAACAAAAT
*
1592547 ATTTATTATTAAACAAAAT
1 ATTTATTAATAAACAAAAT
1592566 AT
1 AT
1592568 GTGGCAGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 6 0.33
19 7 0.39
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTATTAATAAACAAAAT
Found at i:1593376 original size:191 final size:195
Alignment explanation
Indices: 1593012--1593397 Score: 719
Period size: 191 Copynumber: 2.0 Consensus size: 195
1593002 AAACTTTGAT
1593012 TCTTAAAGAAAAATGTCAGGAATTTAAAACTTTCATTCAAACAAAATACTTTAATTTACATAAAA
1 TCTTAAAGAAAAATGTCAGGAATTTAAAACTTTCATTCAAACAAAATACTTTAATTTACATAAAA
1593077 GAGACCACTTAATACAAAATCGATTATAACATTCGTAATTAACCACTTATTACATACCAACACTT
66 GAGACCACTTAATACAAAATCGATTATAACATTCGTAATTAACCACTTATTACATACCAACACTT
1593142 TATACCAACAAAATACCTACTTTGTCAATTACTTTTGATCTGATTTCTTAGTAA-GTTGTTGTCC
131 TATACCAACAAAATACCTACTTTGTCAATTACTTTTGATCTGATTTCTTAGTAATGTTGTTGTCC
1593206 TCTT-AAGAAAAATGTCAGGAATTTAAAACTTTCATTCAAACAAAATACTTTAATTTACAT-AAA
1 TCTTAAAGAAAAATGTCAGGAATTTAAAACTTTCATTCAAACAAAATACTTTAATTTACATAAAA
*
1593269 -AGACCACTTAATACAAAATCGA-TATAGCATTCGTAATTAACCACTTATTACATACCAACACTT
66 GAGACCACTTAATACAAAATCGATTATAACATTCGTAATTAACCACTTATTACATACCAACACTT
1593332 TATACACAACAAAATACCTACTTTGTCAATTACTTTTGATCTGATTTCTTAGTAATGTTGTTGTC
131 TATAC-CAACAAAATACCTACTTTGTCAATTACTTTTGATCTGATTTCTTAGTAATGTTGTTGTC
1593397 C
195 C
1593398 GTGCCATTTA
Statistics
Matches: 189, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
190 45 0.24
191 71 0.38
192 13 0.07
193 56 0.30
194 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (195 bp):
TCTTAAAGAAAAATGTCAGGAATTTAAAACTTTCATTCAAACAAAATACTTTAATTTACATAAAA
GAGACCACTTAATACAAAATCGATTATAACATTCGTAATTAACCACTTATTACATACCAACACTT
TATACCAACAAAATACCTACTTTGTCAATTACTTTTGATCTGATTTCTTAGTAATGTTGTTGTCC
Found at i:1593942 original size:28 final size:27
Alignment explanation
Indices: 1593884--1593950 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
1593874 TTTTATATGT
* **
1593884 TCATGTGCTCATGTCATTTCTTTGTGA
1 TCATGTGCTCATGTCATTACTTCATGA
1593911 TCATGTAGCTCATGTCACTTACTTCATG-
1 TCATGT-GCTCATGTCA-TTACTTCATGA
*
1593939 TCATGTTCTCAT
1 TCATGTGCTCAT
1593951 ATCACATATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 11 0.32
28 16 0.47
29 7 0.21
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (27 bp):
TCATGTGCTCATGTCATTACTTCATGA
Done.