Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 51
Found at i:1500658 original size:26 final size:26
Alignment explanation
Indices: 1500606--1500668 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
1500596 GTTGGTAATG
*
1500606 TAATTAGATATTAATATTTACTGATA
1 TAATTAAATATTAATATTTACTGATA
* *
1500632 TAGTTTAATATTAAATATTTTA-T-ATA
1 TAATTAAATATT-AATA-TTTACTGATA
1500658 TAATTAAATAT
1 TAATTAAATAT
1500669 CTATTTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 21 0.70
27 5 0.17
28 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (26 bp):
TAATTAAATATTAATATTTACTGATA
Found at i:1501617 original size:180 final size:179
Alignment explanation
Indices: 1501381--1501771 Score: 404
Period size: 181 Copynumber: 2.2 Consensus size: 179
1501371 CATAAAAACG
* * * * * *
1501381 TGAATATCATTATTTTTTGTGACAATGTTTTTTTGTAATAATTATTAATACTTATAGTTTCAAAA
1 TGAATCTCATTATTTGTTGTGACAA--TTTTTGTGTAACAATAATTAATACTTATAGTTAC-AAA
* *
1501446 T-TTGTCAATATATGA-CTT-TTTTGGGGCAAAATATATGGAGT-GA-AATC-TTACTGA-TAAT
63 TCATGTCAATATATGATCTTGTTTTGGGACAAAA-A-AT--AGTAGATAATCATTA-TGACT-AT
* * ** * *
1501504 ATATTTTGTCACTATAATTAAAACATATAATGACAAACACTATTTTTTACTAA-AAATT
122 ACATTTTGTCACTATAATTAAAACATATAATCACAAACAAAATTTTTCAC-AACAAATC
1501562 TGAATCTCATTATTTGTTGTGACAACTTTTTGTGTAACAATAATT-ATAGCTTATAGTTACAAAT
1 TGAATCTCATTATTTGTTGTGACAA-TTTTTGTGTAACAATAATTAATA-CTTATAGTTACAAAT
* * * * * *
1501626 CATGTCACTTTATGATTTTGTTTTTGTACACAAAATAGTAGATAATCATTTATGACTATACATTT
64 CATGTCAATATATGATCTTGTTTTGGGACAAAAAATAGTAGATAATCA-TTATGACTATACATTT
*
1501691 TGTCACTATAATTAAAATATATAATCACAAACAAAATTTTTCACAACAAATC
128 TGTCACTATAATTAAAACATATAATCACAAACAAAATTTTTCACAACAAATC
*
1501743 TAAATCTCATTATTTGTTGTGACAATTTT
1 TGAATCTCATTATTTGTTGTGACAATTTT
1501772 GATGTCATAG
Statistics
Matches: 177, Mismatches: 23, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
178 3 0.02
179 9 0.05
180 49 0.28
181 103 0.58
182 13 0.07
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (179 bp):
TGAATCTCATTATTTGTTGTGACAATTTTTGTGTAACAATAATTAATACTTATAGTTACAAATCA
TGTCAATATATGATCTTGTTTTGGGACAAAAAATAGTAGATAATCATTATGACTATACATTTTGT
CACTATAATTAAAACATATAATCACAAACAAAATTTTTCACAACAAATC
Found at i:1505209 original size:18 final size:20
Alignment explanation
Indices: 1505186--1505234 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
1505176 CAAAAACAGC
*
1505186 ATCGATACTA-AAGTG-AGT
1 ATCGATACTAGAAGAGAAGT
1505204 ATCGATACCATAGAAGAGAAGT
1 ATCGATA-C-TAGAAGAGAAGT
1505226 ATCGATACT
1 ATCGATACT
1505235 GTAGGAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 3 0.12
21 5 0.19
22 10 0.38
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGATACTAGAAGAGAAGT
Found at i:1506081 original size:53 final size:53
Alignment explanation
Indices: 1505993--1506095 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
1505983 ATACTTTCAG
*
1505993 CACTATGTATGCACCCATGGTATTCATAATAAGTTTATAAATTACCATTTCGA
1 CACTATGTATGCACCCATGGAATTCATAATAAGTTTATAAATTACCATTTCGA
* * * * * *
1506046 CACTATGTATGCATCCATGGAATTCGTAATGAGTTTGTGAATTTCCATTT
1 CACTATGTATGCACCCATGGAATTCATAATAAGTTTATAAATTACCATTT
1506096 TGGCACTTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (53 bp):
CACTATGTATGCACCCATGGAATTCATAATAAGTTTATAAATTACCATTTCGA
Found at i:1512475 original size:22 final size:22
Alignment explanation
Indices: 1512447--1512488 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1512437 ACTGAATTCG
1512447 GTATCGATACCATAGAAGAGAA
1 GTATCGATACCATAGAAGAGAA
* *
1512469 GTATCGATACCGTAGGAGAG
1 GTATCGATACCATAGAAGAG
1512489 GTACCGATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (22 bp):
GTATCGATACCATAGAAGAGAA
Found at i:1513079 original size:138 final size:136
Alignment explanation
Indices: 1512821--1513098 Score: 378
Period size: 138 Copynumber: 2.0 Consensus size: 136
1512811 AGTGCATTTC
* * *
1512821 GACATACTTTGTATATGAAGGTTATCAATCGATTTTGTTTAATGCTTATGTTGCATTTTCGTATC
1 GACATACTTTGTATATGAAGGTTATCAATCGATTTTATTCAATGCATATGTTGCATTTTCGTATC
* ** *
1512886 AATACACTTTGTACTTTCGGTACTAGGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTAC
66 AATACACTGTGTACTTTCGACACTAGGTGTGCAACCATGGTATTCATAATAAGTTTGTGAATTAC
1512951 CATTAT
131 CATTAT
* * * *
1512957 GACATACATTTGTGTATGAAGGTTATTAATCGATTTTCATTCAATTCATATGTTGCATTTTTGTA
1 GACATAC-TTTGTATATGAAGGTTATCAATCGATTTT-ATTCAATGCATATGTTGCATTTTCGTA
* * * *
1513022 TCAGTATTA-TGTGTACTTTCGACACTATGTGTGCACCCATGGTATTCATAATAAGTTTGTGAAT
64 TCAATA-CACTGTGTACTTTCGACACTAGGTGTGCAACCATGGTATTCATAATAAGTTTGTGAAT
*
1513086 TACCATTTT
128 TACCATTAT
1513095 GACA
1 GACA
1513099 CTATGTGTGC
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
136 7 0.06
137 27 0.22
138 88 0.72
139 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (136 bp):
GACATACTTTGTATATGAAGGTTATCAATCGATTTTATTCAATGCATATGTTGCATTTTCGTATC
AATACACTGTGTACTTTCGACACTAGGTGTGCAACCATGGTATTCATAATAAGTTTGTGAATTAC
CATTAT
Found at i:1513122 original size:53 final size:53
Alignment explanation
Indices: 1513042--1513153 Score: 161
Period size: 53 Copynumber: 2.1 Consensus size: 53
1513032 GTGTACTTTC
*
1513042 GACACTATGTGTGCACCCATGGTATTCATAATAAGTTTGTGAATTACCATTTT
1 GACACTATGTGTGCACCCATGGAATTCATAATAAGTTTGTGAATTACCATTTT
* *** *
1513095 GACACTATGTGTGCATCCATGGAATTCATAATGTTTTTGTGAATTTCCATTTT
1 GACACTATGTGTGCACCCATGGAATTCATAATAAGTTTGTGAATTACCATTTT
*
1513148 GGCACT
1 GACACT
1513154 TCAACTCATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (53 bp):
GACACTATGTGTGCACCCATGGAATTCATAATAAGTTTGTGAATTACCATTTT
Found at i:1522897 original size:245 final size:250
Alignment explanation
Indices: 1522467--1522964 Score: 918
Period size: 245 Copynumber: 2.0 Consensus size: 250
1522457 GTTTGCTTAG
1522467 GGACTTCGATTCGAGTTGCATCGTCAGGTAGTTAATCATCAGGATGAGGTATTCAATATTGTTGT
1 GGACTTCGATTCGAGTTGCATCGTCAGGTAGTTAATCATCAGGATGAGGTATTCAATATTGTTGT
1522532 TTAGAGAGCAAAATACGTGGAGGAAGTCGAGGCTTCTACACCTGATAGTGATAGGGTAGATCAAA
66 TTAGAGAGCAAAATACGTGGAGGAAGTCGAGGCTTCTACACCTGATAGTGATAGGGTAGATCAAA
1522597 ATCGATATAGGAGGCCTTATGGTCAGTCTGCACCTTCCGCACACTCTGATTAAAGAACTC-A-TG
131 ATCGATATAGGAGGCCTTATGGTCAGTCTGCACCTTCCGCACACTCTGATTAAAGAACTCAATTG
1522660 -TT-TCATCAGATGATTTATTTCTGGTTCGAGGCTTGCG-T-CTCCACCTAATATA
196 TTTCTCATCAGATGATTTA-TTCTGGTTCGAGGCTTGCGCTCCTCCACCTAATATA
*
1522712 GGACTTCGATTCGAGTTGCATCGTCAGGTAGTTACTCATCAGGATGAGGTATTCAATATTGTTGT
1 GGACTTCGATTCGAGTTGCATCGTCAGGTAGTTAATCATCAGGATGAGGTATTCAATATTGTTGT
1522777 TTAGAGAGCAAAATACGTGGAGGAAGTCGAGGCTTCTACACCTGATAGTGATAGGGTAGATCAAA
66 TTAGAGAGCAAAATACGTGGAGGAAGTCGAGGCTTCTACACCTGATAGTGATAGGGTAGATCAAA
1522842 ATCGATATAGGAGGCCTTATGGTCAGTCTGCACCTTCCGCACACTCTGATTAAAGAACTCATATT
131 ATCGATATAGGAGGCCTTATGGTCAGTCTGCACCTTCCGCACACTCTGATTAAAGAACTCA-ATT
1522907 GTTTCTCATCAGATGATTTATTCTGGTTCGAGGCTTGCGTCTCCTCCACCTAATATA
195 GTTTCTCATCAGATGATTTATTCTGGTTCGAGGCTTGCG-CTCCTCCACCTAATATA
1522964 G
1 G
1522965 CTAGTTGAGA
Statistics
Matches: 244, Mismatches: 1, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
245 189 0.77
247 1 0.00
248 2 0.01
249 21 0.09
250 15 0.06
251 1 0.00
252 15 0.06
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (250 bp):
GGACTTCGATTCGAGTTGCATCGTCAGGTAGTTAATCATCAGGATGAGGTATTCAATATTGTTGT
TTAGAGAGCAAAATACGTGGAGGAAGTCGAGGCTTCTACACCTGATAGTGATAGGGTAGATCAAA
ATCGATATAGGAGGCCTTATGGTCAGTCTGCACCTTCCGCACACTCTGATTAAAGAACTCAATTG
TTTCTCATCAGATGATTTATTCTGGTTCGAGGCTTGCGCTCCTCCACCTAATATA
Found at i:1527427 original size:12 final size:12
Alignment explanation
Indices: 1527410--1527438 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1527400 ACCAAATGAA
1527410 TTTAATATTGAT
1 TTTAATATTGAT
1527422 TTTAATATTGAT
1 TTTAATATTGAT
1527434 TTTAA
1 TTTAA
1527439 CACCAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (12 bp):
TTTAATATTGAT
Found at i:1532021 original size:87 final size:87
Alignment explanation
Indices: 1531875--1532048 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
1531865 GACACATAAA
1531875 TACAAGAGTATAGCAGCTACTTTCTCATCAATTTTTATATAATTTATGGTGATTTTCTGAATCTA
1 TACAAGAGTATAGCAGCTACTTTCTCATCAATTTTTATATAATTTATGGTGATTTTCTGAATCTA
1531940 TTATCAAGATCATAAAGTCTAG
66 TTATCAAGATCATAAAGTCTAG
1531962 TACAAGAGTATAGCAGCTACTTTCTCATCAATTTTTATATAATTTATGGTGATTTTCTGAATCTA
1 TACAAGAGTATAGCAGCTACTTTCTCATCAATTTTTATATAATTTATGGTGATTTTCTGAATCTA
1532027 TTATCAAGATCATAAAGTCTAG
66 TTATCAAGATCATAAAGTCTAG
1532049 GAAAATTTTA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (87 bp):
TACAAGAGTATAGCAGCTACTTTCTCATCAATTTTTATATAATTTATGGTGATTTTCTGAATCTA
TTATCAAGATCATAAAGTCTAG
Found at i:1533242 original size:13 final size:13
Alignment explanation
Indices: 1533224--1533248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1533214 GTAGCATTTA
1533224 ACAAAAATTTCGC
1 ACAAAAATTTCGC
1533237 ACAAAAATTTCG
1 ACAAAAATTTCG
1533249 GGTAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
ACAAAAATTTCGC
Found at i:1547570 original size:27 final size:25
Alignment explanation
Indices: 1547533--1547582 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
1547523 CTTTTTATAA
* *
1547533 CATAAGGGTATTTTTGTAATTTTAC
1 CATAAGGGTATTCTTATAATTTTAC
1547558 CATACAGGAGTATTCTTATAATTTT
1 CATA-AGG-GTATTCTTATAATTTT
1547583 TCATCCAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 3 0.14
27 14 0.67
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (25 bp):
CATAAGGGTATTCTTATAATTTTAC
Found at i:1550419 original size:2 final size:2
Alignment explanation
Indices: 1550391--1550583 Score: 99
Period size: 2 Copynumber: 100.5 Consensus size: 2
1550381 ACTTATGTGC
* *
1550391 AT AT -T AT AT AT GT AT A- AGT AT AT -T AT AT AT AT A- AT -T AA
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
1550429 AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** ** * * * *
1550468 AT A- ACT AT A- AT GG AT GC A- AA AGT GT A- AT GT AC AT -T AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * * *
1550507 AT AC AC AT GT AT CAT A- AC AT TT AT CAT CAT 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
1550549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1550584 GTTGTTTTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
1 14 0.10
2 124 0.84
3 9 0.06
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1551772 original size:35 final size:35
Alignment explanation
Indices: 1551732--1551801 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
1551722 CTTTTGACTA
1551732 TTAATTCTTACTCTCTTTTTTTGTAGACTTTAGTT
1 TTAATTCTTACTCTCTTTTTTTGTAGACTTTAGTT
1551767 TTAATTCTTACTCTCTTTTTTTGTAGACTTTAGTT
1 TTAATTCTTACTCTCTTTTTTTGTAGACTTTAGTT
1551802 GTCATGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (35 bp):
TTAATTCTTACTCTCTTTTTTTGTAGACTTTAGTT
Found at i:1552037 original size:2 final size:2
Alignment explanation
Indices: 1552030--1552063 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1552020 AAATAAATAA
1552030 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
1552064 TTATTAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1556642 original size:24 final size:24
Alignment explanation
Indices: 1556571--1556642 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
1556561 GATTTTTGAC
* * *
1556571 TTGAATTATATTCTGATACATGAC
1 TTGAATTATGTTCTGATATATGAT
* * * *
1556595 CTGGATTCTGTTCTGATATCTGAT
1 TTGAATTATGTTCTGATATATGAT
*
1556619 TTGAATTATGTTTTGATATATGAT
1 TTGAATTATGTTCTGATATATGAT
1556643 ATCTCTGTTT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (24 bp):
TTGAATTATGTTCTGATATATGAT
Found at i:1556811 original size:2 final size:2
Alignment explanation
Indices: 1556804--1556836 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1556794 TGGATGGTGG
1556804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1556837 GTTTTTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1561310 original size:24 final size:24
Alignment explanation
Indices: 1561283--1561344 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
1561273 TCCGAATTGA
1561283 ATTCTATTCTGATACATGACCTGG
1 ATTCTATTCTGATACATGACCTGG
** *
1561307 ATTCTATTCTGATTTATGATCTGG
1 ATTCTATTCTGATACATGACCTGG
*
1561331 ATTCTGTTCTGATA
1 ATTCTATTCTGATA
1561345 TCTTATTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTCTATTCTGATACATGACCTGG
Found at i:1566921 original size:2 final size:2
Alignment explanation
Indices: 1566914--1566943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1566904 AAATTAATTA
1566914 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
1566944 GCTTTAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1573397 original size:17 final size:17
Alignment explanation
Indices: 1573375--1573412 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1573365 AAAGTTGAGT
*
1573375 AAAACATGACTTGATAC
1 AAAACAGGACTTGATAC
*
1573392 AAAACAGGACTTGATGC
1 AAAACAGGACTTGATAC
1573409 AAAA
1 AAAA
1573413 TTGAGGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (17 bp):
AAAACAGGACTTGATAC
Found at i:1581410 original size:43 final size:43
Alignment explanation
Indices: 1581353--1581435 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
1581343 TTTTAAATCA
* * * *
1581353 TATTTAATTTAAAACTCTTTTAAATTAAATGATAACAAAATTAT
1 TATTTAATGTAAAACACTTTT-AAGTAAATAATAACAAAATTAT
*
1581397 TATTT-ATGTAAAACACTTTTAAGTAAATAATAATAAAAT
1 TATTTAATGTAAAACACTTTTAAGTAAATAATAACAAAAT
1581436 ATATCTTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 16 0.47
43 13 0.38
44 5 0.15
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (43 bp):
TATTTAATGTAAAACACTTTTAAGTAAATAATAACAAAATTAT
Found at i:1591929 original size:21 final size:20
Alignment explanation
Indices: 1591879--1591932 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
1591869 GTTTCCAAAA
*
1591879 AAAGGATTGATCTCTTAGGG
1 AAAGGATTGATCCCTTAGGG
*
1591899 AAATGATTGATCCCTT-GGTG
1 AAAGGATTGATCCCTTAGG-G
1591919 AGAAGGATTGATCC
1 A-AAGGATTGATCC
1591933 AAAACCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 16 0.55
21 11 0.38
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (20 bp):
AAAGGATTGATCCCTTAGGG
Found at i:1594659 original size:27 final size:28
Alignment explanation
Indices: 1594623--1594676 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
1594613 TTGATTGTCA
* *
1594623 TTCTTATTCCTCC-TTTAGCTCTCCCTC
1 TTCTTATTCCCCCTTTTAGCACTCCCTC
1594650 TTCTTATTCCCCCTTTTAGCACTCCCT
1 TTCTTATTCCCCCTTTTAGCACTCCCT
1594677 TGCACACTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.09, C:0.41, G:0.04, T:0.46
Consensus pattern (28 bp):
TTCTTATTCCCCCTTTTAGCACTCCCTC
Found at i:1604820 original size:26 final size:25
Alignment explanation
Indices: 1604784--1604839 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 25
1604774 CTCATAATTT
1604784 TTTTTCAAAAATTTAAAACAAAATA
1 TTTTTCAAAAATTTAAAACAAAATA
1604809 GTTTTTCAAAAATTTAAAACAAAATA
1 -TTTTTCAAAAATTTAAAACAAAATA
1604835 TTTTT
1 TTTTT
1604840 AATATAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTTTCAAAAATTTAAAACAAAATA
Found at i:1605344 original size:47 final size:46
Alignment explanation
Indices: 1605292--1605440 Score: 156
Period size: 46 Copynumber: 3.2 Consensus size: 46
1605282 TATTCTTTAA
* *
1605292 TTTCATTTATGGCATGTTTTCATGCTTATAATGCACCGTTAAGCATT
1 TTTCATTTATGGCATCTTTTCATGCTTATAATGCACCGTTATGCA-T
* * * * ** * *
1605339 TTTCATTTATAGCATCCTTTCATGCCTACAATGCACTATTATGTAA
1 TTTCATTTATGGCATCTTTTCATGCTTATAATGCACCGTTATGCAT
* * *
1605385 TTTCATTGATGGCATCTATTCATG-TAGATAATGCACCGTTATGCAT
1 TTTCATTTATGGCATCTTTTCATGCT-TATAATGCACCGTTATGCAT
1605431 TTTCATTTAT
1 TTTCATTTAT
1605441 TCATTCATTT
Statistics
Matches: 79, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
46 43 0.54
47 36 0.46
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (46 bp):
TTTCATTTATGGCATCTTTTCATGCTTATAATGCACCGTTATGCAT
Found at i:1612051 original size:46 final size:46
Alignment explanation
Indices: 1611999--1612194 Score: 218
Period size: 46 Copynumber: 4.3 Consensus size: 46
1611989 ATTATTCTTT
* *
1611999 ATTTTCATTTATGGCATCTTTTCATGCCTATAATGCACTGTTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATAC
* * *
1612045 ATTTTCATTTATGGCA-CCATTCATGCCTATAATGTACCGTTA-AGGG
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATA--C
* * * ** *
1612091 TTTTTCATTTATAGCATCCTTTCATGCCTACAATGCACTATTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATAC
* * *
1612137 ATTTTCATTTATGACATCCTTTCAT-CTCGATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGC-CTATAATGCACCGTTATAC
1612183 ATTTTCATTTAT
1 ATTTTCATTTAT
1612195 TCATTAATTT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 23 0.19
46 79 0.64
47 21 0.17
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.43
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATAC
Found at i:1612188 original size:92 final size:92
Alignment explanation
Indices: 1611999--1612194 Score: 252
Period size: 92 Copynumber: 2.1 Consensus size: 92
1611989 ATTATTCTTT
* * * * *
1611999 ATTTTCATTTATGGCATCTTTTCATGCCTATAATGCACTGTTATACATTTTCATTTATGGCACCA
1 ATTTTCATTTATAGCATCCTTTCATGCCTACAATGCACTATTATACATTTTCATTTATGACACCA
* * *
1612064 TTCATGCCTATAATGTACCGTTAAGGG
66 TTCATGCCGATAATGCACCGTTAAGGC
* *
1612091 TTTTTCATTTATAGCATCCTTTCATGCCTACAATGCACTATTATGCATTTTCATTTATGACATCC
1 ATTTTCATTTATAGCATCCTTTCATGCCTACAATGCACTATTATACATTTTCATTTATGACA-CC
* *
1612156 TTTCAT-CTCGATAATGCACCGTT-ATGC
65 ATTCATGC-CGATAATGCACCGTTAAGGC
1612183 ATTTTCATTTAT
1 ATTTTCATTTAT
1612195 TCATTAATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
92 69 0.78
93 20 0.22
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.43
Consensus pattern (92 bp):
ATTTTCATTTATAGCATCCTTTCATGCCTACAATGCACTATTATACATTTTCATTTATGACACCA
TTCATGCCGATAATGCACCGTTAAGGC
Found at i:1642712 original size:23 final size:23
Alignment explanation
Indices: 1642682--1642736 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
1642672 GCAAGGTGCA
1642682 AGGTGAATGGAAAGAAAAATTAT
1 AGGTGAATGGAAAGAAAAATTAT
1642705 AGGTGAATGGAAAGAAAAATTAT
1 AGGTGAATGGAAAGAAAAATTAT
*
1642728 AAGTGAATG
1 AGGTGAATG
1642737 AAAATCGCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (23 bp):
AGGTGAATGGAAAGAAAAATTAT
Found at i:1643534 original size:44 final size:43
Alignment explanation
Indices: 1643486--1643574 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
1643476 ATCTGTCTAT
* * *
1643486 ATCTATGTTGGAGCTATTACCAGCTTTTCCAACTTATTCCCTAA
1 ATCTAGGTTGGAGCTATTACAAACTTTTCCAACTTATT-CCTAA
*
1643530 ATCTAGGTTGGAGCTTTTACAAACTTTTCCAACTTATTCCTAA
1 ATCTAGGTTGGAGCTATTACAAACTTTTCCAACTTATTCCTAA
1643573 AT
1 AT
1643575 TTTAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 7 0.17
44 34 0.83
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.39
Consensus pattern (43 bp):
ATCTAGGTTGGAGCTATTACAAACTTTTCCAACTTATTCCTAA
Found at i:1656014 original size:57 final size:57
Alignment explanation
Indices: 1655953--1656066 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
1655943 AATTTCAAAA
*
1655953 CAAATTTTGAAAAGATATTCTCTATTTTATGAAAAATATATCACATTTGGGTTAAAT
1 CAAATTTTGAAAAGATATTCTCTATTTGATGAAAAATATATCACATTTGGGTTAAAT
1656010 CAAATTTTGAAAAGATATTCTCTATTTGATGAAAAATATATCACATTTGGGTTAAAT
1 CAAATTTTGAAAAGATATTCTCTATTTGATGAAAAATATATCACATTTGGGTTAAAT
1656067 ATTCGTACAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (57 bp):
CAAATTTTGAAAAGATATTCTCTATTTGATGAAAAATATATCACATTTGGGTTAAAT
Found at i:1658728 original size:33 final size:33
Alignment explanation
Indices: 1658672--1658743 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
1658662 CATCCATTAT
* ** *
1658672 TGAAGAGGCATGACTTGAGATGACA-CCTTTTGA
1 TGAAGAGGCATGAATCAAAATGACATCC-TTTGA
*
1658705 TGAAGAGGCATGAATCAAAATGACATCCTTTGG
1 TGAAGAGGCATGAATCAAAATGACATCCTTTGA
1658738 TGAAGA
1 TGAAGA
1658744 AGCGTGACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (33 bp):
TGAAGAGGCATGAATCAAAATGACATCCTTTGA
Found at i:1660863 original size:21 final size:21
Alignment explanation
Indices: 1660837--1660886 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1660827 TTCCAGCAAT
*
1660837 TGGCCACAACATCTCTATTTG
1 TGGCCACAACATCTCCATTTG
1660858 TGGCCACAACATCTCCATTTG
1 TGGCCACAACATCTCCATTTG
*
1660879 TTGCCACA
1 TGGCCACA
1660887 TCACACTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (21 bp):
TGGCCACAACATCTCCATTTG
Found at i:1663823 original size:25 final size:25
Alignment explanation
Indices: 1663789--1663840 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1663779 CATGGCAAAT
1663789 CCATAGAGCCACAAAGAATACTAAA
1 CCATAGAGCCACAAAGAATACTAAA
1663814 CCATAGAGCCACAAAGAATACTAAA
1 CCATAGAGCCACAAAGAATACTAAA
1663839 CC
1 CC
1663841 CAGTGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.27, G:0.12, T:0.12
Consensus pattern (25 bp):
CCATAGAGCCACAAAGAATACTAAA
Found at i:1667887 original size:20 final size:20
Alignment explanation
Indices: 1667862--1667900 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1667852 AAGGCCCATA
1667862 TAGGATCATATAGATGCATT
1 TAGGATCATATAGATGCATT
* *
1667882 TAGGATCTTATAGTTGCAT
1 TAGGATCATATAGATGCAT
1667901 GTGGTGGATA
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:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
TAGGATCATATAGATGCATT
Found at i:1669542 original size:46 final size:46
Alignment explanation
Indices: 1669400--1669565 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 46
1669390 TATATGTCGT
* * * ** * *
1669400 TAATATACCATTATGTATTTTCATTGGTGGCATCATTTCATGCCAA
1 TAATACACCGTTATGCATTTTCATTTATGTCATCCTTTCATGCCAA
* * * **
1669446 TTATACACCGTTAAGCATTTTTCATGTATTGT-ATCCTTTCATGCTTA
1 TAATACACCGTTATGCA-TTTTCATTTA-TGTCATCCTTTCATGCCAA
* * *
1669493 TAATACACTGTTATGCATTTTCATTTATGTCATCCTTTAATGCCGA
1 TAATACACCGTTATGCATTTTCATTTATGTCATCCTTTCATGCCAA
* *
1669539 TAATGCACCGTTATGAATTTTCATTTA
1 TAATACACCGTTATGCATTTTCATTTA
1669566 CGATATCCTT
Statistics
Matches: 95, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
45 3 0.03
46 57 0.60
47 33 0.35
48 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (46 bp):
TAATACACCGTTATGCATTTTCATTTATGTCATCCTTTCATGCCAA
Found at i:1669715 original size:81 final size:81
Alignment explanation
Indices: 1669572--1670258 Score: 903
Period size: 81 Copynumber: 8.5 Consensus size: 81
1669562 TTTACGATAT
* * *
1669572 CCTTTCTATCAAATGTACAACAAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
** **
1669637 ACTGTAATGATTTCCA
66 ACTGGCATGATTGACA
* * *
1669653 TCTTTTTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTACCCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
1669718 ACTGGCATGATTAACA
66 ACTGGCATGATTGACA
* * * *
1669734 CCTTTATGTCAAATTCACAGCTAGCCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
1669799 AC-GTGTATGATTGACA
66 ACTG-GCATGATTGACA
* * * * *
1669815 CCTTTATGTTAAATGCACAACTAGGCAATTAATCTTTTACTCATAGGTATTTAATCTTTCATATA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1669880 ACTGGCATGATTGACA
66 ACTGGCATGATTGACA
* * * * *
1669896 CCTTTCTATCAAATGCACAGCTAGGTAATTAATCTTTCACTCAAAGGTATTTAACTTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
1669961 ACGGGCATGATTGACA
66 ACTGGCATGATTGACA
* * * * ** * * *
1669977 CTTTTTTGTTAAATGCACAGCTAGTTAGTTAATCTTTTACTCAAGGGTATTTAACATTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
** *
1670042 ACTATCATGATTGATA
66 ACTGGCATGATTGACA
* * * *
1670058 CCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAATGTACTTAACATTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1670123 ACT-GCAATGATTGACA
66 ACTGGC-ATGATTGACA
* *
1670139 CATTTCTGTCAAATGCACAACTATGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
1670204 ACTAGCATGATTGACA
66 ACTGGCATGATTGACA
*
1670220 CCTTGT-TGTCAAATGTACAACTAGGCAATTAATCTTTTA
1 CCTT-TCTGTCAAATGCACAACTAGGCAATTAATCTTTTA
1670259 TTTAAAACAG
Statistics
Matches: 529, Mismatches: 72, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
80 2 0.00
81 523 0.99
82 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
ACTGGCATGATTGACA
Found at i:1670794 original size:18 final size:19
Alignment explanation
Indices: 1670752--1670799 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
1670742 ATAATCCATG
* *
1670752 GTATCGATACCTTCATTTTA
1 GTATCGATACC-TCATATCA
1670772 GTATCGATACC-CATATCA
1 GTATCGATACCTCATATCA
1670790 GTATCGATAC
1 GTATCGATAC
1670800 TAATTGCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 15 0.58
20 11 0.42
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (19 bp):
GTATCGATACCTCATATCA
Found at i:1670812 original size:21 final size:19
Alignment explanation
Indices: 1670786--1670829 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
1670776 CGATACCCAT
*
1670786 ATCAGTATCGATACTAATTGC
1 ATCAGTATCGACACT-ATT-C
1670807 ATCAGTATCGACACTATTC
1 ATCAGTATCGACACTATTC
1670826 ATCA
1 ATCA
1670830 TAATTCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (19 bp):
ATCAGTATCGACACTATTC
Found at i:1677132 original size:46 final size:46
Alignment explanation
Indices: 1677025--1677191 Score: 208
Period size: 46 Copynumber: 3.6 Consensus size: 46
1677015 TAATATACCA
* * * *
1677025 TTATGTATTTTCATTGATGGCATCCTTTCATGCCAATTATGCATCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCATTG
* * * * * * *
1677071 TTAAGAATTTCCATTTATGGAATCCTTTTATGCCTATAATGTATTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCATTG
* *
1677117 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCATTG
*
1677163 TTATGCATTTTCATTTATGGCAGCCTTTC
1 TTATGCATTTTCATTTATGGCATCCTTTC
1677192 TTTCAAATGC
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCATTG
Found at i:1677326 original size:81 final size:81
Alignment explanation
Indices: 1677186--1677708 Score: 674
Period size: 81 Copynumber: 6.5 Consensus size: 81
1677176 TTTATGGCAG
* * *
1677186 CCTTTCTTTCAAATGCACATCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTG
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1677251 ACTGGCATGATTGACA
66 ACTGGCATGATTGACA
* * * **
1677267 CCTTTCTGTCAAATGCACAGCTAGGAAATTAATCTTTTACTCAAAGTTATTTATTCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1677332 ACTGGCATGATTGACA
66 ACTGGCATGATTGACA
* * * * * *
1677348 CCTTT-TTTCAAATACACAGA-TAGGCAATTAATATTTTACTCAAAGGAATTTAA-CTTTTATTT
1 CCTTTCTGTCAAATGCACA-ACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
* *
1677410 AACTAGTATGATTGACA
65 AACTGGCATGATTGACA
* * * * * *
1677427 CATGTCTGTCAAATACACATCTAGGTAATTAATCTTTTACCCAAAGGTATTTAACCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
1677492 ACTGGTATGATTGACA
66 ACTGGCATGATTGACA
* * * * * * *
1677508 CATTTCTGTCAAATGTACAATTAGACAATTAATATTTCACTCAAATGTATTTAACCTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
1677573 ACTGGCATGATTGATA
66 ACTGGCATGATTGACA
* *
1677589 CATTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACTTTTCATCTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
1677654 ACTAGCATCATTGACA
66 ACTGGCATGATTGACA
* * *
1677670 CCTTTCTGTCAAATGAATAACTAGGCAATTAATTTTTTA
1 CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTA
1677709 TTTAAAACAG
Statistics
Matches: 381, Mismatches: 57, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
79 25 0.07
80 80 0.21
81 276 0.72
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (81 bp):
CCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
ACTGGCATGATTGACA
Found at i:1680982 original size:273 final size:274
Alignment explanation
Indices: 1680495--1681041 Score: 1087
Period size: 273 Copynumber: 2.0 Consensus size: 274
1680485 TCAAAACTCT
1680495 GGCCACCATCTGATCTAAAAAATACACGTTTTTCTTTAAAACCTTGGTTAGCAGCAAAGCTAACG
1 GGCCACCATCTGATCTAAAAAATACACGTTTTTCTTTAAAACCTTGGTTAGCAGCAAAGCTAACG
1680560 TAGACATGTTCTTCACTAATCTTTGAGACAAAATTGTTGACGTCACATTGCCAGCTGTCCAATAT
66 TAGACATGTTCTTCACTAATCTTTGAGACAAAATTGTTGACGTCACATTGCCAGCTGTCCAATAT
1680625 ACCTCGTGTATAATCATGCCCTCATCAAGGAATTTGAGACCACTACAAACTGCTATGTTACTCAC
131 ACCTCGTGTATAATCATGCCCTCATCAAGGAATTTGAGACCACTACAAACTGCTATGTTACTCAC
1680690 AAAAAGGGTTTAACTTAAAGGGTATTTAGGGAACTTCCAAGGGCACTAAACTCTATAAATTACCA
196 AAAAAGGGTTTAACTTAAAGGGTATTTAGGGAACTTCCAAGGGCACTAAACTCTATAAATTACCA
1680755 CTATAAA-ACCCCA
261 CTATAAATACCCCA
1680768 GGCCACCATCTGATCTAAAAAATACACGTTTTTCTTTAAAACCTTGGTTAGCAGCAAAGCTAACG
1 GGCCACCATCTGATCTAAAAAATACACGTTTTTCTTTAAAACCTTGGTTAGCAGCAAAGCTAACG
1680833 TAGACATGTTCTTCACTAATCTTTGAGACAAAATTGTTGACGTCACATTGCCAGCTGTCCAATAT
66 TAGACATGTTCTTCACTAATCTTTGAGACAAAATTGTTGACGTCACATTGCCAGCTGTCCAATAT
1680898 ACCTCGTGTATAATCATGCCCTCATCAAGGAATTTGAGACCACTACAAACTGCTATGTTACTCAC
131 ACCTCGTGTATAATCATGCCCTCATCAAGGAATTTGAGACCACTACAAACTGCTATGTTACTCAC
1680963 AAAAAGGGTTTAACTTAAAGGGTATTTAGGGAACTTCCAAGGGCACTAAACTCTATAAATTACCA
196 AAAAAGGGTTTAACTTAAAGGGTATTTAGGGAACTTCCAAGGGCACTAAACTCTATAAATTACCA
1681028 CTATAAATACCCCA
261 CTATAAATACCCCA
1681042 TTATAAATCT
Statistics
Matches: 273, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
273 267 0.98
274 6 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (274 bp):
GGCCACCATCTGATCTAAAAAATACACGTTTTTCTTTAAAACCTTGGTTAGCAGCAAAGCTAACG
TAGACATGTTCTTCACTAATCTTTGAGACAAAATTGTTGACGTCACATTGCCAGCTGTCCAATAT
ACCTCGTGTATAATCATGCCCTCATCAAGGAATTTGAGACCACTACAAACTGCTATGTTACTCAC
AAAAAGGGTTTAACTTAAAGGGTATTTAGGGAACTTCCAAGGGCACTAAACTCTATAAATTACCA
CTATAAATACCCCA
Found at i:1684850 original size:22 final size:23
Alignment explanation
Indices: 1684810--1684854 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1684800 ATTTAACCAT
1684810 TCATAAATCCAAACAAATTCAAAG
1 TCATAAATCC-AACAAATTCAAAG
1684834 TCATAAATCC-ACAAATTCAAA
1 TCATAAATCCAACAAATTCAAA
1684855 CATTCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.22
Consensus pattern (23 bp):
TCATAAATCCAACAAATTCAAAG
Found at i:1686866 original size:20 final size:21
Alignment explanation
Indices: 1686820--1686880 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1686810 TTCCCCTGTG
1686820 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1686843 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1686863 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1686881 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1687955 original size:27 final size:27
Alignment explanation
Indices: 1687917--1687975 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
1687907 CTTAGCTTGA
1687917 TTGATGAAGATGCCATCTTTTCTTTGC
1 TTGATGAAGATGCCATCTTTTCTTTGC
1687944 TTGATGAAGATGCCATCTTTTCTTTGC
1 TTGATGAAGATGCCATCTTTTCTTTGC
1687971 TTGAT
1 TTGAT
1687976 TTGGAGTCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.46
Consensus pattern (27 bp):
TTGATGAAGATGCCATCTTTTCTTTGC
Found at i:1693862 original size:19 final size:20
Alignment explanation
Indices: 1693823--1693866 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
1693813 GAAACCCCTT
1693823 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGA-TTTTAAA
1693844 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
1693863 TGAA
1 TGAA
1693867 GATATATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
21 13 0.57
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1698083 original size:66 final size:66
Alignment explanation
Indices: 1697974--1698100 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
1697964 GTCCAAAAGG
** * * *
1697974 AATTACCAGTCGGTGTTGAACATATAAAAAGAATTACCGGCAGCGATTGAACCTGCCAGAGATAG
1 AATTACCAGTCGGTGCAGAACATATAAAAAGAATTACCCGCAGCGACTGAACCTACCAGAGATAG
1698039 A
66 A
* * * *
1698040 AATTACTAGTCGGTGCAGAACTTATACAAGGAATTACCCGCAGCGACTGAACCTACCAGAG
1 AATTACCAGTCGGTGCAGAACATATAAAAAGAATTACCCGCAGCGACTGAACCTACCAGAG
1698101 TCTTCATACC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (66 bp):
AATTACCAGTCGGTGCAGAACATATAAAAAGAATTACCCGCAGCGACTGAACCTACCAGAGATAG
A
Found at i:1709868 original size:138 final size:137
Alignment explanation
Indices: 1709613--1709893 Score: 359
Period size: 138 Copynumber: 2.0 Consensus size: 137
1709603 ACCAAAGTGC
* * * * *
1709613 CGAAATAGAAATTCACAAACTCATTATGAATTCCATGGATGTACACATAGTGTCGAAAGTACATA
1 CGAAATAGAAATTCACAAACTCATTATGAATACCATGGATGCACACATAATGCCGAAAGTACACA
**
1709678 TAGTACTGATAAGAAAATGCACTGTTATGCATTAAACAAAATCAATCAATAACTTTTATACACAA
66 TAGTACTGATAAGAAAATGCACCATTATGCATTAAACAAAATCAATCAATAACTTTTATACACAA
*
1709743 TTTTATGT
131 -TTTATAT
* * * * *
1709751 CGAAATTGTAATTCACATACTCATTATGAATACCATGGTTGCACATC-TAATGCCGAAAGTATAC
1 CGAAATAGAAATTCACAAACTCATTATGAATACCATGGATGCACA-CATAATGCCGAAAGTACAC
* * * * *
1709815 ATAGTACTGATACA-AAAATGCACCATTATGTATTATACAAAATCGATCGATAACTTTTATATAC
65 ATAGTACTGATA-AGAAAATGCACCATTATGCATTAAACAAAATCAATCAATAACTTTTATACAC
1709879 AATTTATAT
129 AATTTATAT
1709888 CGAAAT
1 CGAAAT
1709894 GCACCTATGA
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
137 12 0.10
138 109 0.89
139 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (137 bp):
CGAAATAGAAATTCACAAACTCATTATGAATACCATGGATGCACACATAATGCCGAAAGTACACA
TAGTACTGATAAGAAAATGCACCATTATGCATTAAACAAAATCAATCAATAACTTTTATACACAA
TTTATAT
Found at i:1712278 original size:17 final size:18
Alignment explanation
Indices: 1712243--1712289 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
1712233 AATAAATTAA
*
1712243 TAAGCATGCTA-CTTCATT
1 TAAGCATGATATC-TCATT
1712261 TAAGCAT-ATATCTCATT
1 TAAGCATGATATCTCATT
1712278 TAAGCATGATAT
1 TAAGCATGATAT
1712290 TATTAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (18 bp):
TAAGCATGATATCTCATT
Found at i:1715871 original size:17 final size:17
Alignment explanation
Indices: 1715849--1715895 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
1715839 AGCAAGTTGC
*
1715849 TTCATTTAAGTATATAT
1 TTCATTTAAGCATATAT
1715866 TTCATTTAAGCATATAT
1 TTCATTTAAGCATATAT
1715883 TTCATTTAAGCAT
1 TTCATTTAAGCAT
1715896 GAGTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (17 bp):
TTCATTTAAGCATATAT
Found at i:1722601 original size:2 final size:2
Alignment explanation
Indices: 1722594--1722630 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1722584 TATTAGTTAT
1722594 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1722631 TAAATGTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1724012 original size:2 final size:2
Alignment explanation
Indices: 1724005--1724039 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1723995 TCAATCTACA
1724005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1724040 ATTTACGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1729557 original size:20 final size:20
Alignment explanation
Indices: 1729529--1729570 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1729519 AAGGATTGAG
* *
1729529 AACCAATTTTCAGGTTTTCC
1 AACCAATTTACAGGTCTTCC
*
1729549 AACCGATTTACAGGTCTTCC
1 AACCAATTTACAGGTCTTCC
1729569 AA
1 AA
1729571 ATAAGTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (20 bp):
AACCAATTTACAGGTCTTCC
Found at i:1734784 original size:19 final size:19
Alignment explanation
Indices: 1734760--1734796 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1734750 GTCAACGGTC
1734760 AGGTCAAAG-TCAATGGTTT
1 AGGTC-AAGTTCAATGGTTT
1734779 AGGTCAAGTTCAATGGTT
1 AGGTCAAGTTCAATGGTT
1734797 ATACTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (19 bp):
AGGTCAAGTTCAATGGTTT
Found at i:1745589 original size:16 final size:16
Alignment explanation
Indices: 1745568--1745608 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1745558 TTGACTATTT
1745568 CTAGAAGGAGCTACGA
1 CTAGAAGGAGCTACGA
* *
1745584 CTAGAAGGAACTAGGA
1 CTAGAAGGAGCTACGA
1745600 CTAG-AGGAG
1 CTAGAAGGAG
1745609 GAGCCCACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.39, C:0.15, G:0.34, T:0.12
Consensus pattern (16 bp):
CTAGAAGGAGCTACGA
Found at i:1755640 original size:2 final size:2
Alignment explanation
Indices: 1755633--1755676 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1755623 CACTTAAAGC
1755633 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
1755675 AT
1 AT
1755677 TAGTTTTACA
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:1756772 original size:31 final size:29
Alignment explanation
Indices: 1756724--1756782 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
1756714 ATTTCAAAAT
1756724 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
1756755 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
1756783 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Found at i:1756895 original size:120 final size:116
Alignment explanation
Indices: 1756747--1756983 Score: 305
Period size: 120 Copynumber: 2.0 Consensus size: 116
1756737 AAAATATATT
* * * *
1756747 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAT-GACTTCTAGG
1 AATTGATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGG
* *
1756811 TGTCTTAAGACAACTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAAC
66 TGTCTTAAGACAAC-CATTTC-TTAATATTAAAAAATAAATAAAT-ATTAAAAC
**
1756865 AATTGATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTGATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
* * ** *
1756930 GTTGTTTTAAGACTGCCATTTCTTAATATTGAAAAATAAATAAATATTAAAAC
64 GGTGTCTTAAGACAACCATTTCTTAATATTAAAAAATAAATAAATATTAAAAC
1756983 A
1 A
1756984 TGATTAAAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 19 0.18
119 27 0.26
120 39 0.38
121 18 0.17
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (116 bp):
AATTGATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGG
TGTCTTAAGACAACCATTTCTTAATATTAAAAAATAAATAAATATTAAAAC
Found at i:1758076 original size:14 final size:14
Alignment explanation
Indices: 1758042--1758076 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1758032 GCTGTTGGTC
1758042 TCCTCTTTTTTTTT
1 TCCTCTTTTTTTTT
**
1758056 TTGTCTTTTTTTTT
1 TCCTCTTTTTTTTT
1758070 TCCTCTT
1 TCCTCTT
1758077 CTTCCTCTTG
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (14 bp):
TCCTCTTTTTTTTT
Found at i:1758489 original size:3 final size:3
Alignment explanation
Indices: 1758475--1758544 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
1758465 TTTGTATCTG
** *
1758475 TAA TAA -AA TAA TAA T-A TTT TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1758521 TAA TAA TAA CAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA
1758545 AACCCAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
2 5 0.09
3 51 0.89
4 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1759100 original size:113 final size:113
Alignment explanation
Indices: 1758899--1759308 Score: 561
Period size: 113 Copynumber: 3.6 Consensus size: 113
1758889 AAAAGGTTGA
* *
1758899 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAA
1 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAA
* ** * *
1758964 AAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAG
66 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
** * * * * **
1759012 ACGAGTTCTTCTCGTTATGAACTCTAC-CTGGTAATGTTGATCCATTAAATGATGAATTTAAGCA
1 ATAAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCA
* *
1759076 AAAGGTTGAAGAAGCTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAG
65 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * * * *
1759125 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATTCATCGAGTGATGGATTTGAGCAA
1 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAA
1759190 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
66 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
1759238 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAA
1 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAA
1759303 AAGGTT
66 AAGGTT
1759309 TTGAAAACAT
Statistics
Matches: 260, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
112 2 0.01
113 256 0.98
114 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (113 bp):
ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAA
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
Found at i:1759434 original size:76 final size:76
Alignment explanation
Indices: 1759303--1759525 Score: 410
Period size: 76 Copynumber: 2.9 Consensus size: 76
1759293 ATTTGAGCAA
*
1759303 AAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
1759368 CAGATGACCCT
66 CAGATGACCCT
**
1759379 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAATCTTTTTGGAAACATCATGCACTGTAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
1759444 CAGATGACCCT
66 CAGATGACCCT
*
1759455 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
1759520 CAGATG
66 CAGATG
1759526 TGAGAAATAG
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 141 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (76 bp):
AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
CAGATGACCCT
Found at i:1759806 original size:20 final size:20
Alignment explanation
Indices: 1759781--1759830 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1759771 TAAGGTATTC
1759781 TTCATCATGAATCTTCTTTT
1 TTCATCATGAATCTTCTTTT
1759801 TTCATCATGAATCTTCTTTT
1 TTCATCATGAATCTTCTTTT
1759821 TTCAT-ATGAA
1 TTCATCATGAA
1759831 GATCTGCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (20 bp):
TTCATCATGAATCTTCTTTT
Found at i:1760273 original size:22 final size:22
Alignment explanation
Indices: 1760222--1760273 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
1760212 AATAAAGCTT
**
1760222 TCATCTTCGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
1760244 TCATCTTTAAAAAGAGAATTTA
1 TCATCTTTAAAAAGAGAATCTA
*
1760266 TTATCTTT
1 TCATCTTT
1760274 GAAGAATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:1761740 original size:36 final size:34
Alignment explanation
Indices: 1761700--1761773 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 34
1761690 CATTACTTCT
1761700 TATTGAGATGAGCCTCCAAGAATGCCCAAATATTC
1 TATTGAGATGAGCCTCCAA-AATGCCCAAATATTC
** * *
1761735 ATATTGTTATGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGAGATGAGCCTCCAAAATGCCCAAATATTC
1761770 TATT
1 TATT
1761774 TCTAGTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 4 0.12
35 14 0.41
36 16 0.47
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (34 bp):
TATTGAGATGAGCCTCCAAAATGCCCAAATATTC
Found at i:1761767 original size:35 final size:35
Alignment explanation
Indices: 1761707--1761773 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
1761697 TCTTATTGAG
1761707 ATGAGCCTCCAAGAATGCCCAAATATTCATATTGTT
1 ATGAGCCTCCAAGAATGCCCAAATATTC-TATTGTT
* *
1761743 ATGAGCCTTCAA-AATGCCCCAATATTCTATT
1 ATGAGCCTCCAAGAATGCCCAAATATTCTATT
1761774 TCTAGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.14
35 14 0.48
36 11 0.38
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
ATGAGCCTCCAAGAATGCCCAAATATTCTATTGTT
Found at i:1764932 original size:17 final size:16
Alignment explanation
Indices: 1764929--1765012 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 16
1764919 TTTTCCCTTT
*
1764929 TTTTTCCTTTTTTCTC
1 TTTTTCCTTTTTTTTC
**
1764945 ATTTTTCCTTTTTCATC
1 -TTTTTCCTTTTTTTTC
* *
1764962 TTTTTTC-TTTTTTCC
1 TTTTTCCTTTTTTTTC
**
1764977 TTTTTCCTCATTTTTC
1 TTTTTCCTTTTTTTTC
* *
1764993 TTTTTTCATATTTTTTC
1 -TTTTTCCTTTTTTTTC
1765010 TTT
1 TTT
1765013 CTTTGCTGGA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
15 11 0.21
16 14 0.27
17 27 0.52
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTCCTTTTTTTTC
Found at i:1764939 original size:7 final size:7
Alignment explanation
Indices: 1764910--1764984 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
1764900 CAATTTCTCC
1764910 CCTTTTT
1 CCTTTTT
1764917 -CTTTTT
1 CCTTTTT
*
1764923 CC-CTTT
1 CCTTTTT
1764929 --TTTTT
1 CCTTTTT
1764934 CCTTTTTT
1 CC-TTTTT
1764942 CTCATTTTT
1 C-C-TTTTT
1764951 CCTTTTT
1 CCTTTTT
1764958 CATCTTTTTT
1 C--C-TTTTT
*
1764968 CTTTTTT
1 CCTTTTT
1764975 CCTTTTT
1 CCTTTTT
1764982 CCT
1 CCT
1764985 CATTTTTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
5 3 0.06
6 9 0.17
7 21 0.39
8 7 0.13
9 8 0.15
10 6 0.11
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (7 bp):
CCTTTTT
Found at i:1764956 original size:24 final size:22
Alignment explanation
Indices: 1764929--1764999 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 22
1764919 TTTTCCCTTT
1764929 TTTTTCCTTTTTTCTCATTTTTCC
1 TTTTTCCTTTTTTCT--TTTTTCC
1764953 TTTTTCATCTTTTTTCTTTTTTCC
1 TTTTTC--CTTTTTTCTTTTTTCC
1764977 TTTTTCCTCATTTTTCTTTTTTC
1 TTTTTCCT--TTTTTCTTTTTTC
1765000 ATATTTTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.05
24 32 0.74
26 9 0.21
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTCCTTTTTTCTTTTTTCC
Found at i:1764973 original size:41 final size:41
Alignment explanation
Indices: 1764928--1765012 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
1764918 TTTTTCCCTT
* *
1764928 TTTTTTCCTTTTTTCTCATTTTTCCTTTTTCATCTTTTTTC
1 TTTTTTCCTTTTTCCTCATTTTTCCTTTTTCATATTTTTTC
*
1764969 TTTTTTCCTTTTTCCTCATTTTTCTTTTTTCATATTTTTTC
1 TTTTTTCCTTTTTCCTCATTTTTCCTTTTTCATATTTTTTC
1765010 TTT
1 TTT
1765013 CTTTGCTGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (41 bp):
TTTTTTCCTTTTTCCTCATTTTTCCTTTTTCATATTTTTTC
Found at i:1769764 original size:22 final size:21
Alignment explanation
Indices: 1769726--1769790 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 21
1769716 TTAATACTTC
1769726 AATAA-AATAAATAAATAAAAA
1 AATAATAATAAAT-AATAAAAA
*
1769747 AATAATAATAATATAATATAAA
1 AATAATAATAA-ATAATAAAAA
*
1769769 AATAATAATAAGTAATAAAAA
1 AATAATAATAAATAATAAAAA
1769790 A
1 A
1769791 TTTGAAAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 14 0.36
22 23 0.59
23 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
AATAATAATAAATAATAAAAA
Found at i:1770421 original size:20 final size:19
Alignment explanation
Indices: 1770382--1770423 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1770372 TTTCTTTGAT
1770382 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1770401 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
1770421 ATT
1 ATT
1770424 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1770534 original size:120 final size:120
Alignment explanation
Indices: 1770295--1770527 Score: 294
Period size: 120 Copynumber: 2.0 Consensus size: 120
1770285 TATATTAATT
* * *
1770295 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
* * *
1770360 TAAGACAACTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAACTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAAAAATTAA
** * *
1770415 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATTGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-TGACATCCAGGTGC
* ** *
1770479 TTTAAGACTGC-CCTTTC-TTAATATTGAAAAATAAATAAAT-ATTAAAAAA
64 CTTAAGACAACTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAAAA
1770528 GGATTAAAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 8 0.08
119 27 0.28
120 44 0.45
121 18 0.19
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
TAAGACAACTCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAAAAATTAA
Found at i:1770586 original size:24 final size:27
Alignment explanation
Indices: 1770552--1770610 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 27
1770542 TAAAAGTAAT
*
1770552 TAAATAATATTT-TAATA-AATAAA-A
1 TAAATATTATTTATAATATAATAAATA
*
1770576 TAAATATTATTTATTATATAATAAATA
1 TAAATATTATTTATAATATAATAAATA
*
1770603 TATATATT
1 TAAATATT
1770611 TATGGCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.38
25 4 0.14
26 6 0.21
27 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAATATTATTTATAATATAATAAATA
Found at i:1771446 original size:12 final size:12
Alignment explanation
Indices: 1771429--1771458 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1771419 AAATCGAAGG
1771429 TTTTACCTTCGA
1 TTTTACCTTCGA
*
1771441 TTTTACCTTCGG
1 TTTTACCTTCGA
1771453 TTTTAC
1 TTTTAC
1771459 AATGATTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.53
Consensus pattern (12 bp):
TTTTACCTTCGA
Found at i:1772047 original size:3 final size:3
Alignment explanation
Indices: 1772033--1772093 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
1772023 TTTGTATATG
** * *
1772033 TAA TAA -AA TAA TAA T-A TTT TAA AAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1772079 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
1772094 CCAAATGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1778907 original size:81 final size:81
Alignment explanation
Indices: 1778801--1779299 Score: 619
Period size: 81 Copynumber: 6.2 Consensus size: 81
1778791 CTTTTAGCCT
* * * *
1778801 TTAATCTTTTACACTAAGTTGTTTAACCTTTCATCTAACTGGAATAATTGACACCTTTTTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTTTGCCAA
1778866 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * *
1778882 TTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACT-TACATGATTGACA-CTTTTATGCC
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGA-ATAATTGACACCTTTT-TGCC
***
1778945 AAATGCACCTATAGGCCA
64 AAATGCACAGCTAGGCCA
* *
1778963 TTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACCTTTTTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTTTGCCAA
* * *
1779028 ATGTAAAGCTAGTCCA
66 ATGCACAGCTAGGCCA
* * * * * *
1779044 TTAATCTTTTATTCAAAGGTATTTAACATTTCATTTAATTGGCATAATTAACA-CTGTTTTGCCA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCT-TTTTGCCA
* * *
1779108 AATTCACAACTAGGACA
65 AATGCACAGCTAGGCCA
* * * *
1779125 TCAATCTTTTAGTCAAATGTATTTAACCTTTCATCTAACT-GACATAATTGACACCTTTCTGCCA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGA-ATAATTGACACCTTTTTGCCA
*
1779189 AATGCATAGCTAGGCCA
65 AATGCACAGCTAGGCCA
* * * *
1779206 TTAATCTTTTACTCAATGGTATTTAACCTTTCGTCTAACTGGCATAATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTTTGCCAA
**
1779271 ATGCACAGCTAGATCA
66 ATGCACAGCTAGGCCA
1779287 TTAATCTTTTACT
1 TTAATCTTTTACT
1779300 TTAGAACATA
Statistics
Matches: 357, Mismatches: 53, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
80 9 0.03
81 340 0.95
82 8 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTTTGCCAA
ATGCACAGCTAGGCCA
Found at i:1779229 original size:243 final size:242
Alignment explanation
Indices: 1778822--1779297 Score: 688
Period size: 243 Copynumber: 2.0 Consensus size: 242
1778812 CACTAAGTTG
* * * * *
1778822 TTTAACCTTTCATCTAACTGGAATAATTGACACCTTTTTGCCAAATGCACAGCTAGGCCATTAAT
1 TTTAACATTTCATCTAACTGGAATAATTAACACCTTTTTGCCAAATGCACAACTAGGACATCAAT
* * *
1778887 CTTTTACTCAAAGGTATTTAACCTTCCATCTAACTTACATGATTGACACTTTTATGCCAAATGCA
66 CTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGACATAATTGACACCTTTATGCCAAATGCA
1778952 CCTATAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACAC
131 -CTATAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACAC
* *
1779017 CTTTTTGCCAAATGTAAAGCTAG-TCCATTAATCTTTTATTCAAAGGTA
195 CTTTCTGCCAAATGCAAAGCTAGAT-CATTAATCTTTTATTCAAAGGTA
* * * *
1779065 TTTAACATTTCATTTAATTGGCATAATTAACA-CTGTTTTGCCAAATTCACAACTAGGACATCAA
1 TTTAACATTTCATCTAACTGGAATAATTAACACCT-TTTTGCCAAATGCACAACTAGGACATCAA
* * * *
1779129 TCTTTTAGTCAAATGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGC
65 TCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGACATAATTGACACCTTTATGCCAAATGC
* * *
1779194 A-TAGCTAGGCCATTAATCTTTTACTCAATGGTATTTAACCTTTCGTCTAACTGGCATAATTGAC
130 ACTA--TAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGAC
*
1779258 ACCTTTCTGCCAAATGCACAGCTAGATCATTAATCTTTTA
193 ACCTTTCTGCCAAATGCAAAGCTAGATCATTAATCTTTTA
1779298 CTTTAGAACA
Statistics
Matches: 207, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
241 2 0.01
242 2 0.01
243 202 0.98
244 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (242 bp):
TTTAACATTTCATCTAACTGGAATAATTAACACCTTTTTGCCAAATGCACAACTAGGACATCAAT
CTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGACATAATTGACACCTTTATGCCAAATGCA
CTATAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACC
TTTCTGCCAAATGCAAAGCTAGATCATTAATCTTTTATTCAAAGGTA
Found at i:1779713 original size:46 final size:46
Alignment explanation
Indices: 1779641--1779824 Score: 248
Period size: 46 Copynumber: 4.0 Consensus size: 46
1779631 TTATTCGTTA
*
1779641 ATTTCATTTATGGC-TCCCTTTGATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCAT-CCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
1779687 ATTTCAATTATGGCATCCTTTCATGCCTTAATGCATTCTTTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
1779733 ATTTCATTTAAT-ACATCCTTTCATGCCTTAATGCAT-CTTGTCATAC
1 ATTTCATTT-ATGGCATCCTTTCATGCCTTAATGCATCCTT-TCATGC
* *
1779779 TTTTCATTTATGGCATCCTTTCATGCCATAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1779825 CTTAATGTAT
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
45 5 0.04
46 110 0.91
47 6 0.05
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.44
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:1779817 original size:66 final size:66
Alignment explanation
Indices: 1779741--1779890 Score: 230
Period size: 66 Copynumber: 2.3 Consensus size: 66
1779731 GCATTTCATT
* * *
1779741 TAATACATCCTTTCATGCCTTAATGCAT-CTTGTCATACTTTTCATTTATGGCATCCTTTCATGC
1 TAATGCATCCTTTCATGCCTTAATGCATCCTT-TCATACATTTCATTTATGACATCCTTTCATGC
1779805 CA
65 CA
* *
1779807 TAATGCATCCTTTCATGCCTTAATGTATCCTTTCATGCATTTCATTTATGACATCCTTTCATGCC
1 TAATGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGACATCCTTTCATGCC
*
1779872 T
66 A
1779873 TAATGCATCCTTTCATGC
1 TAATGCATCCTTTCATGC
1779891 ATTTTTAGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 74 0.96
67 3 0.04
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (66 bp):
TAATGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGACATCCTTTCATGCC
A
Found at i:1780331 original size:19 final size:21
Alignment explanation
Indices: 1780278--1780332 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
1780268 AAACCCCTAC
*
1780278 CATGGTATCGATACTACTATA
1 CATGGTATCGATACTACCATA
1780299 CTATGGTA-CTGATACT-CCAT-
1 C-ATGGTATC-GATACTACCATA
1780319 CATGGTATCGATAC
1 CATGGTATCGATAC
1780333 CATTTCTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 5 0.17
22 12 0.40
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
CATGGTATCGATACTACCATA
Found at i:1784194 original size:81 final size:81
Alignment explanation
Indices: 1784054--1784528 Score: 633
Period size: 81 Copynumber: 6.0 Consensus size: 81
1784044 CTTTTAGCCT
* * *
1784054 TTAATCTTTTAGTCGAAGG-AGTTTAACCTTTCATTTAACTGGCATAATTGACACCTTTCTGCCA
1 TTAATCTTTTACTCAAAGGTA-TTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
*
1784118 AATGAACAGCTAGGCCA
65 AATGCACAGCTAGGCCA
* * * *
1784135 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCAAACTTGCATGATTGACACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
1784200 AAGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
1784216 TTAATCTTTTACTCAAAGCTATTTTACCTTCCATCTAACTGGCAT-A-T-----CTTTCTACCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
1784274 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
1784290 CTAATCTTTTACTCAAAGGTATTTAACATTTCATATAACTGGCATAATTGACACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
1784355 ATGCATAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
1784371 TTAATCATTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATCGACACCTTTCTTCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* * *
1784436 ATGAAAAGCTAGGACA
66 ATGCACAGCTAGGCCA
* *
1784452 TTAATCTATTACTCAAAGTTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
1784517 ATGCACAGCTAG
66 ATGCACAGCTAG
1784529 AAAATTAATA
Statistics
Matches: 339, Mismatches: 47, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
74 62 0.18
75 1 0.00
76 1 0.00
79 1 0.00
80 1 0.00
81 272 0.80
82 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:1784343 original size:155 final size:157
Alignment explanation
Indices: 1784107--1784528 Score: 580
Period size: 155 Copynumber: 2.7 Consensus size: 157
1784097 ATAATTGACA
*
1784107 CCTTTCTGCCAAATGAACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCA-
1 CCTTTCTACCAAATGAACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCAT-AT
* * * * *
1784171 AACTTGCATGATTGACACTTTTCTGCCAAAAGCACAACTAGGCCATTAATCTTTTACTCAAAGCT
65 AACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAATCATTTACTCAAAGCT
* *
1784236 ATTTTACCTTCCATCTAACTGGCAT-AT
130 ATTTAACCTTCCATCTAACTGACATAAT
* * *
1784263 -CTTTCTACCAAATGCACAGCTAGGCCACTAATCTTTTACTCAAAGGTATTTAACATTTCATATA
1 CCTTTCTACCAAATGAACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATATA
* *
1784327 ACTGGCATAATTGACACTTTTCTGCCAAATGCATAGCTAGGCCATTAATCATTTACTCAAAGGTA
66 ACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAATCATTTACTCAAAGCTA
*
1784392 TTTAACCTTTCATCTAACTGACATAAT
131 TTTAACCTTCCATCTAACTGACATAAT
* * * * *
1784419 CGACACCTTTCTTCCAAATGAAAAGCTAGGACATTAATCTATTACTCAAAGTTATTTAACCTTTC
1 -----CCTTTCTACCAAATGAACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTC
* *
1784484 ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAG
61 ATATAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAG
1784529 AAAATTAATA
Statistics
Matches: 233, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
154 1 0.00
155 137 0.59
156 2 0.01
162 93 0.40
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (157 bp):
CCTTTCTACCAAATGAACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATATA
ACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAATCATTTACTCAAAGCTA
TTTAACCTTCCATCTAACTGACATAAT
Found at i:1784468 original size:236 final size:236
Alignment explanation
Indices: 1784055--1784497 Score: 658
Period size: 236 Copynumber: 1.9 Consensus size: 236
1784045 TTTTAGCCTT
* * * *
1784055 TAATCTTTTAGTCGAAGGAGTTTAACCTTTCATTTAACTGGCATAATTGACACCTTTCTGCCAAA
1 TAATCTTTTACTCAAAGGAGTTTAACATTTCATATAACTGGCATAATTGACACCTTTCTGCCAAA
* * *
1784120 TGAACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCAAACTTGCATGATTG
66 TGAACAGCTAGGCCATTAATCATTTACTCAAAGGTATTTAACCTTTCATCAAACTTGCATAATCG
* * * * *
1784185 ACACTTTTCTGCCAAAAGCACAACTAGGCCATTAATCTTTTACTCAAAGCTATTTTACCTTCCAT
131 ACACCTTTCTGCCAAAAGCAAAACTAGGACATTAATCTATTACTCAAAGCTATTTAACCTTCCAT
1784250 CTAACTGGCATATCTTTCTACCAAATGCACAGCTAGGCCAC
196 CTAACTGGCATATCTTTCTACCAAATGCACAGCTAGGCCAC
*
1784291 TAATCTTTTACTCAAAGGTA-TTTAACATTTCATATAACTGGCATAATTGACACTTTTCTGCCAA
1 TAATCTTTTACTCAAAGG-AGTTTAACATTTCATATAACTGGCATAATTGACACCTTTCTGCCAA
* * *
1784355 ATGCATAGCTAGGCCATTAATCATTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGACATAAT
65 ATGAACAGCTAGGCCATTAATCATTTACTCAAAGGTATTTAACCTTTCATCAAACTTG-CATAAT
* * * *
1784419 CGACACCTTTCTTCCAAATG-AAAAGCTAGGACATTAATCTATTACTCAAAGTTATTTAACCTTT
129 CGACACCTTTCTGCCAAAAGCAAAA-CTAGGACATTAATCTATTACTCAAAGCTATTTAACCTTC
1784483 CATCTAACTGGCATA
193 CATCTAACTGGCATA
1784498 ATTGACACCT
Statistics
Matches: 184, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
235 5 0.03
236 178 0.97
237 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (236 bp):
TAATCTTTTACTCAAAGGAGTTTAACATTTCATATAACTGGCATAATTGACACCTTTCTGCCAAA
TGAACAGCTAGGCCATTAATCATTTACTCAAAGGTATTTAACCTTTCATCAAACTTGCATAATCG
ACACCTTTCTGCCAAAAGCAAAACTAGGACATTAATCTATTACTCAAAGCTATTTAACCTTCCAT
CTAACTGGCATATCTTTCTACCAAATGCACAGCTAGGCCAC
Found at i:1784943 original size:46 final size:46
Alignment explanation
Indices: 1784891--1785070 Score: 243
Period size: 46 Copynumber: 3.9 Consensus size: 46
1784881 TCGTTAATTG
* * *
1784891 CATTTATGGCACCCTTTCATGCCTTGATGCATCCTTTCATGTATTT
1 CATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
* *
1784937 CATTTATGGCATCCTTTTATGCCTTAATGCATCTTTTCATGCATTT
1 CATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
*** * * *
1784983 CATTTGCAGCATCATTTCATGCCTTAATGTATCCTTTCATACATTT
1 CATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
* *
1785029 CATTTATGGCATCCTTTCATGCCTTGATGCATCATTTCATGC
1 CATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1785071 CTTAATGTAT
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (46 bp):
CATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
Found at i:1785062 original size:66 final size:66
Alignment explanation
Indices: 1784991--1785136 Score: 256
Period size: 66 Copynumber: 2.2 Consensus size: 66
1784981 TTCATTTGCA
*
1784991 GCATCATTTCATGCCTTAATGTATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTGA
1 GCATCATTTCATGCCTTAATGTATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTAA
1785056 T
66 T
*
1785057 GCATCATTTCATGCCTTAATGTATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAA
1 GCATCATTTCATGCCTTAATGTATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTAA
1785122 T
66 T
* *
1785123 GCACCCTTTCATGC
1 GCATCATTTCATGC
1785137 ATTTTTAGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (66 bp):
GCATCATTTCATGCCTTAATGTATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTAA
T
Found at i:1785568 original size:20 final size:20
Alignment explanation
Indices: 1785543--1785592 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1785533 TGACTAAATA
*
1785543 GTATCGATTCCCCTACCATG
1 GTATCGATACCCCTACCATG
1785563 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
1785583 GTATCGATAC
1 GTATCGATAC
1785593 TACTATACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:1785612 original size:22 final size:19
Alignment explanation
Indices: 1785559--1785626 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
1785549 ATTCCCCTAC
* * *
1785559 CATGGTATCGATACCCCTAC
1 CATGGTACCGATA-CTCTAT
*
1785579 CATGGTATCGATACTACTAT
1 CATGGTACCGATACT-CTAT
1785599 ACTATGGTACCGATACTCTAT
1 -C-ATGGTACCGATACTCTAT
1785620 CATGGTA
1 CATGGTA
1785627 TCAATACCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.17
20 17 0.40
21 5 0.12
22 13 0.31
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGGTACCGATACTCTAT
Found at i:1801939 original size:16 final size:16
Alignment explanation
Indices: 1801918--1801979 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
1801908 GACCAGATTG
1801918 TTGACTAGAGTTGACT
1 TTGACTAGAGTTGACT
*
1801934 TTGACTAGGGTTGACT
1 TTGACTAGAGTTGACT
* *
1801950 TCGACT----TCGACT
1 TTGACTAGAGTTGACT
*
1801962 TTGACTAGAGTTAACT
1 TTGACTAGAGTTGACT
1801978 TT
1 TT
1801980 TTTAAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
12 10 0.28
16 26 0.72
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (16 bp):
TTGACTAGAGTTGACT
Found at i:1805748 original size:2 final size:2
Alignment explanation
Indices: 1805696--1805729 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1805686 ATTAAGCTTA
1805696 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
1805730 TTAAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1805773 original size:21 final size:20
Alignment explanation
Indices: 1805749--1805841 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 20
1805739 AAACTATATA
1805749 ATATATTATATTTTCAAAATC
1 ATATATTATATTTTCAAAA-C
* *
1805770 ATATAATATGTTTTCAAAAC
1 ATATATTATATTTTCAAAAC
*
1805790 A-ATATGT-T-TTTTGAAAAC
1 ATATAT-TATATTTTCAAAAC
1805808 -TATATTATATATTTTCAAAAAC
1 ATATA-T-TATATTTTC-AAAAC
1805830 TATATATTATAT
1 -ATATATTATAT
1805842 GTTTTTTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
18 12 0.21
19 6 0.10
20 4 0.07
21 21 0.36
22 10 0.17
23 1 0.02
24 4 0.07
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (20 bp):
ATATATTATATTTTCAAAAC
Found at i:1805822 original size:22 final size:22
Alignment explanation
Indices: 1805797--1805875 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
1805787 AACAATATGT
*
1805797 TTTTTGAAAACTATATTATATA
1 TTTTTAAAAACTATATTATATA
* *
1805819 TTTTCAAAAACTATATATTATATGTT
1 TTTTTAAAAAC--TATATTATA--TA
* *
1805845 TTTTTAAAAACTATATAATATG
1 TTTTTAAAAACTATATTATATA
*
1805867 TTTTCAAAA
1 TTTTTAAAA
1805876 TCGTGTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
22 18 0.39
24 17 0.37
26 11 0.24
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (22 bp):
TTTTTAAAAACTATATTATATA
Found at i:1805823 original size:39 final size:39
Alignment explanation
Indices: 1805770--1806026 Score: 144
Period size: 39 Copynumber: 6.5 Consensus size: 39
1805760 TTTCAAAATC
* *
1805770 ATATAATATGTTTTCAAAACAAT-ATGTTTTTTGAAAACT
1 ATATTATATGTTTTCAAAA-AATCATGTTTTTTAAAAACT
* *
1805809 ATATTATATATTTTCAAAAACTATATATTATATGTTTTTTTAAAAACT
1 ATATTATATGTTTTC--AAA--A-A-A-T-CATG-TTTTTTAAAAACT
* * **
1805857 ATATAATATGTTTTC--AAAATCGTGTTTTTGGAAAACT
1 ATATTATATGTTTTCAAAAAATCATGTTTTTTAAAAACT
* *
1805894 ATACTATATATTTTC-AAAAATCAT-TTTTTTAAAAACACT
1 ATATTATATGTTTTCAAAAAATCATGTTTTTT-AAAA-ACT
* * *
1805933 ATATTATACGTTTTC--AAAAT--T-TATTTTAAAAAAT
1 ATATTATATGTTTTCAAAAAATCATGTTTTTTAAAAACT
*
1805967 GTATTATATACGTTTTC-AAAAATC--GATTTTTTAAAAACTAT
1 ATATTATAT--GTTTTCAAAAAATCATG-TTTTTTAAAAAC--T
1806008 ATATTATATGTTTTCAAAA
1 ATATTATATGTTTTCAAAA
1806027 CTATTTTCAA
Statistics
Matches: 171, Mismatches: 26, Indels: 41
0.72 0.11 0.17
Matches are distributed among these distances:
34 9 0.05
35 4 0.02
36 12 0.07
37 33 0.19
38 17 0.10
39 45 0.26
40 4 0.02
41 13 0.08
42 1 0.01
43 2 0.01
44 2 0.01
45 1 0.01
47 3 0.02
48 25 0.15
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (39 bp):
ATATTATATGTTTTCAAAAAATCATGTTTTTTAAAAACT
Found at i:1805832 original size:87 final size:85
Alignment explanation
Indices: 1805737--1805913 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 85
1805727 TATTTAAAAG
*
1805737 AAAAACTATATAATATAT-TATATTTTCAAAATC-ATATAATATGTTTTCAAAA-CAATATGTTT
1 AAAAACTATATAATATATGT-T-TTTTCAAAAACTATATAATATGTTTTCAAAATC---ATGTTT
* *
1805799 TTTGAAAACTATATTATATATTTTC
61 TTGGAAAACTATACTATATATTTTC
* * *
1805824 AAAAACTATATATTATATGTTTTTTTAAAAACTATATAATATGTTTTCAAAATCGTGTTTTTGGA
1 AAAAACTATATAATATATGTTTTTTCAAAAACTATATAATATGTTTTCAAAATCATGTTTTTGGA
1805889 AAACTATACTATATATTTTC
66 AAACTATACTATATATTTTC
1805909 AAAAA
1 AAAAA
1805914 TCATTTTTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
85 33 0.41
86 9 0.11
87 37 0.46
88 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (85 bp):
AAAAACTATATAATATATGTTTTTTCAAAAACTATATAATATGTTTTCAAAATCATGTTTTTGGA
AAACTATACTATATATTTTC
Found at i:1805840 original size:24 final size:24
Alignment explanation
Indices: 1805808--1805875 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 24
1805798 TTTTGAAAAC
1805808 TATATTATATATTTTCAAAAACTA
1 TATATTATATATTTTCAAAAACTA
* *
1805832 TATATTATATGTTTTTTTAAAAACTA
1 TATATTATA--TATTTTCAAAAACTA
*
1805858 TATA--ATATGTTTTCAAAA
1 TATATTATATATTTTCAAAA
1805876 TCGTGTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 9 0.24
24 12 0.32
26 17 0.45
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (24 bp):
TATATTATATATTTTCAAAAACTA
Found at i:1805892 original size:37 final size:36
Alignment explanation
Indices: 1805844--1806050 Score: 133
Period size: 38 Copynumber: 5.6 Consensus size: 36
1805834 TATTATATGT
* *
1805844 TTTTTTAAAAACTATATAATATGTTTTCAAAATCGTG
1 TTTTTAAAAAACTATAT-ATATGTTTTCAAAATCATG
** * *
1805881 TTTTTGGAAAACTATACTATATATTTTCAAAAATCATT
1 TTTTTAAAAAACTATA-TATATGTTTTC-AAAATCATG
*
1805919 TTTTTAAAAACACTATATTATACGTTTTCAAAAT--T-
1 TTTTTAAAAA-ACTATA-TATATGTTTTCAAAATCATG
* *
1805954 TATTTTAAAAAATGTATTATATACGTTTTCAAAAATCGAT-
1 T-TTTTAAAAAA-CTA-TATATATGTTTTC-AAAATC-ATG
1805994 TTTTT-AAAAACTATATATTATATGTTTTCAAAA-C-T-
1 TTTTTAAAAAAC--TATA-TATATGTTTTCAAAATCATG
* *
1806029 ATTTTCAAAAACTATAATATAT
1 TTTTTAAAAAACTAT-ATATAT
1806051 ATTATTATAT
Statistics
Matches: 141, Mismatches: 14, Indels: 33
0.75 0.07 0.18
Matches are distributed among these distances:
34 8 0.06
35 8 0.06
36 29 0.21
37 31 0.22
38 32 0.23
39 31 0.22
40 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTTTAAAAAACTATATATATGTTTTCAAAATCATG
Found at i:1805962 original size:36 final size:33
Alignment explanation
Indices: 1805843--1806049 Score: 108
Period size: 39 Copynumber: 5.7 Consensus size: 33
1805833 ATATTATATG
* * *
1805843 TTTTTTTAAAAACTATATAATATGTTTTCAAAA
1 TTTTTTTAAAAAATATATTATACGTTTTCAAAA
* * * **
1805876 TCGTGTTTTTGGAAAACTATACTATATATTTTCAAAAATCA
1 T--T-TTTTT-AAAAAATATATTATACGTTTTC--AAA--A
1805917 TTTTTTTAAAAACACTATATTATACGTTTTCAAAA
1 TTTTTTTAAAAA-A-TATATTATACGTTTTCAAAA
*
1805952 TTTATTTTAAAAAATGTATTATATACGTTTTCAAAAA
1 TTT-TTTTAAAAAATATA-T-TATACGTTTTC-AAAA
*
1805989 TCGATTTTTTAAAAACTATATATTATATGTTTTCAAAA
1 T---TTTTTTAAAAA--ATATATTATACGTTTTCAAAA
* * * *
1806027 CTATTTTCAAAAACTATAATATA
1 -TTTTTTTAAAAAATATATTATA
1806050 TATTATTATA
Statistics
Matches: 138, Mismatches: 16, Indels: 39
0.72 0.08 0.20
Matches are distributed among these distances:
33 1 0.01
34 11 0.08
35 7 0.05
36 34 0.25
37 30 0.22
38 9 0.07
39 37 0.27
40 3 0.02
41 6 0.04
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (33 bp):
TTTTTTTAAAAAATATATTATACGTTTTCAAAA
Found at i:1806011 original size:75 final size:73
Alignment explanation
Indices: 1805843--1806053 Score: 227
Period size: 75 Copynumber: 2.8 Consensus size: 73
1805833 ATATTATATG
* *
1805843 TTTTTTTAAAAACTATATA--ATATGTTTTCAAAATCGTGT-TTTTGGAAAACTATACTATATAT
1 TTTTTTTAAAAACTATATATTATATGTTTTCAAAAT--T-TATTTT-AAAAAATATACTATATAT
1805905 TTTCAAAAATCA
62 TTTCAAAAATCA
* * *
1805917 TTTTTTTAAAAAC-ACTATATTATACGTTTTCAAAATTTATTTTAAAAAATGTATTATATACGTT
1 TTTTTTTAAAAACTA-TATATTATATGTTTTCAAAATTTATTTTAAAAAATATACTATATA--TT
1805981 TTCAAAAATCGA
63 TTCAAAAATC-A
* * *
1805993 -TTTTTTAAAAACTATATATTATATGTTTTCAAAA-CTATTTTCAAAAACTATAATATATATT
1 TTTTTTTAAAAACTATATATTATATGTTTTCAAAATTTATTTT-AAAAAATATACTATATATT
1806054 ATTATATATA
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
73 17 0.14
74 28 0.24
75 57 0.48
76 16 0.14
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (73 bp):
TTTTTTTAAAAACTATATATTATATGTTTTCAAAATTTATTTTAAAAAATATACTATATATTTTC
AAAAATCA
Found at i:1806049 original size:39 final size:37
Alignment explanation
Indices: 1805846--1806050 Score: 112
Period size: 37 Copynumber: 5.5 Consensus size: 37
1805836 TTATATGTTT
* *
1805846 TTTTAAAAAC-TATATA--ATATGTTTTCAAAATCGTGT
1 TTTTAAAAACTTATATATTATACGTTTTCAAAATC-T-A
* *
1805882 TTTTGGAAAAC-TATACTA-TATA--TTTTCAAAAATCATTT
1 TTTT-AAAAACTTATA-TATTATACGTTTTC-AAAATC--TA
*
1805920 TTTTAAAAAC--ACTATATTATACGTTTTCAAAATTTA
1 TTTTAAAAACTTA-TATATTATACGTTTTCAAAATCTA
* *
1805956 TTTTAAAAAATGTAT-TA-TATACGTTTTCAAAAATCGATT
1 TTTTAAAAACT-TATATATTATACGTTTTC-AAAATC--TA
*
1805995 TTTTAAAAAC-TATATATTATATGTTTTCAAAA-CTA
1 TTTTAAAAACTTATATATTATACGTTTTCAAAATCTA
1806030 TTTTCAAAAACTATAATATAT
1 TTTT-AAAAACT-T-ATATAT
1806051 ATTATTATAT
Statistics
Matches: 137, Mismatches: 11, Indels: 39
0.73 0.06 0.21
Matches are distributed among these distances:
35 5 0.04
36 34 0.25
37 36 0.26
38 26 0.19
39 36 0.26
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.44
Consensus pattern (37 bp):
TTTTAAAAACTTATATATTATACGTTTTCAAAATCTA
Found at i:1806062 original size:12 final size:12
Alignment explanation
Indices: 1806045--1806077 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1806035 AAAAACTATA
*
1806045 ATATATATTATT
1 ATATATATTATC
1806057 ATATATATTATC
1 ATATATATTATC
1806069 ATATATATT
1 ATATATATT
1806078 GTATAAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATATATTATC
Found at i:1813932 original size:73 final size:72
Alignment explanation
Indices: 1813789--1813958 Score: 200
Period size: 73 Copynumber: 2.3 Consensus size: 72
1813779 TTAAACTCAA
* * * * *
1813789 ATTTAGGATAATATTTAAACATTATATTTTATCTTTGTATTTTAGTTTAAATAGTTTTTTAGTAT
1 ATTTAGGATATTATTT-TA-ATTTTATTTTATCTTTGTATTTTAGTTTAAATAGTGTTTTAATAT
1813854 TTAATTAAG
64 TTAATTAAG
*
1813863 TTTTAGGATATTATTTTATATTTTATCTTTATC-TTGTATTTTAGTTTAAATAG-GTTTTAATAT
1 ATTTAGGATATTATTTTA-ATTTTAT-TTTATCTTTGTATTTTAGTTTAAATAGTGTTTTAATA-
*
1813926 TTTAATTAGG
63 TTTAATTAAG
* *
1813936 ATTTAGAATATTATATTAATTTT
1 ATTTAGGATATTATTTTAATTTT
1813959 TTAGGTATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
72 12 0.14
73 51 0.61
74 20 0.24
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.56
Consensus pattern (72 bp):
ATTTAGGATATTATTTTAATTTTATTTTATCTTTGTATTTTAGTTTAAATAGTGTTTTAATATTT
AATTAAG
Found at i:1818990 original size:15 final size:15
Alignment explanation
Indices: 1818970--1818999 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1818960 TCAAACAATT
*
1818970 CAGTGCATAAAAAAA
1 CAGTGCAGAAAAAAA
1818985 CAGTGCAGAAAAAAA
1 CAGTGCAGAAAAAAA
1819000 TAGATTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (15 bp):
CAGTGCAGAAAAAAA
Found at i:1820744 original size:69 final size:70
Alignment explanation
Indices: 1820609--1820781 Score: 174
Period size: 62 Copynumber: 2.6 Consensus size: 70
1820599 TTTAAACATA
* *
1820609 TATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTATATTTTTTATATTT
1 TATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTAATATTTATTATATTT
1820674 TATCT
66 TATCT
*
1820679 TATC-TTGTATTTTAG-TTAAATAGG-TTTTAGT-TTTTAATTAGGATTTAGA-A--TATTATA-
1 TATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAG-TTTA-ATATTTATTATAT
1820736 -TTAT-T
64 TTTATCT
** * *
1820741 T-T-TAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTA
1 TATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTA
1820782 GGATTTAAGT
Statistics
Matches: 91, Mismatches: 6, Indels: 19
0.78 0.05 0.16
Matches are distributed among these distances:
61 11 0.12
62 15 0.16
63 13 0.14
65 6 0.07
66 10 0.11
67 11 0.12
68 10 0.11
69 11 0.12
70 4 0.04
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (70 bp):
TATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTAATATTTATTATATTT
TATCT
Found at i:1822445 original size:21 final size:18
Alignment explanation
Indices: 1822399--1822449 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
1822389 TACACTCTTC
*
1822399 TTTATTTTAATTTTTTTG
1 TTTATTTTAATTTTTTTA
1822417 TTTGATTTTAATATATTTTTAA
1 TTT-ATTTTAAT-T-TTTTT-A
1822439 TTTATTTTAAT
1 TTTATTTTAAT
1822450 GTCATTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 8 0.29
20 1 0.04
21 13 0.46
22 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTATTTTAATTTTTTTA
Found at i:1832175 original size:48 final size:48
Alignment explanation
Indices: 1832123--1832214 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
1832113 TCCGACTTGA
*
1832123 ATTCTGTTCTGATA-CATGATCTGAATTATGTTTTGATTTCTGATCTGG
1 ATTCTGTTCTGATATC-TGATATGAATTATGTTTTGATTTCTGATCTGG
* *
1832171 ATTCTGTTCTGATATCTGTTATGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATATCTGATATGAATTATGTTTTGATTTCTGAT
1832215 ATCTCATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (48 bp):
ATTCTGTTCTGATATCTGATATGAATTATGTTTTGATTTCTGATCTGG
Found at i:1832211 original size:12 final size:12
Alignment explanation
Indices: 1832151--1832212 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
1832141 ATCTGAATTA
1832151 TGTTTTGATTTC
1 TGTTTTGATTTC
* *
1832163 TGATCTGGA-TTC
1 TG-TTTTGATTTC
* *
1832175 TGTTCTGATATC
1 TGTTTTGATTTC
* *
1832187 TGTTATGAATTC
1 TGTTTTGATTTC
1832199 TGTTTTGATTTC
1 TGTTTTGATTTC
1832211 TG
1 TG
1832213 ATATCTCATT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
11 3 0.08
12 30 0.81
13 4 0.11
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.55
Consensus pattern (12 bp):
TGTTTTGATTTC
Found at i:1832212 original size:24 final size:24
Alignment explanation
Indices: 1832120--1832216 Score: 97
Period size: 24 Copynumber: 4.0 Consensus size: 24
1832110 ATTTCCGACT
* * *
1832120 TGAATTCTGTTCTGA-TACATGATC
1 TGAATTCTGTTTTGATTTC-TGATA
* *
1832144 TGAATTATGTTTTGATTTCTGATC
1 TGAATTCTGTTTTGATTTCTGATA
* * * *
1832168 TGGATTCTGTTCTGATATCTGTTA
1 TGAATTCTGTTTTGATTTCTGATA
1832192 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
1832216 T
1 T
1832217 CTCATTTACT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
24 57 0.97
25 2 0.03
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:1845272 original size:24 final size:24
Alignment explanation
Indices: 1845245--1845290 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1845235 AAAAGTTAAC
*
1845245 TTTTAAAAATCACTTTTAAAAGTT
1 TTTTAAAAATAACTTTTAAAAGTT
* * *
1845269 TTTTTATAATAATTTTTAAAAG
1 TTTTAAAAATAACTTTTAAAAG
1845291 CAATGCCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTTAAAAATAACTTTTAAAAGTT
Found at i:1849899 original size:20 final size:21
Alignment explanation
Indices: 1849862--1849900 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1849852 TATGAGAAAT
*
1849862 TGTTTTAAAATATAAAAAAGA
1 TGTTTCAAAATATAAAAAAGA
1849883 TGTTTCAAAAT-TAAAAAA
1 TGTTTCAAAATATAAAAAA
1849901 TGAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (21 bp):
TGTTTCAAAATATAAAAAAGA
Found at i:1853800 original size:19 final size:19
Alignment explanation
Indices: 1853776--1853812 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1853766 CACCCTTTGA
*
1853776 AGGGGAATCGATTCCCCCT
1 AGGGGAATCGATACCCCCT
1853795 AGGGGAATCGATACCCCC
1 AGGGGAATCGATACCCCC
1853813 CTGGGGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.16
Consensus pattern (19 bp):
AGGGGAATCGATACCCCCT
Found at i:1853818 original size:19 final size:19
Alignment explanation
Indices: 1853776--1853818 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1853766 CACCCTTTGA
*
1853776 AGGGGAATCGATTCCCCCT
1 AGGGGAATCGATCCCCCCT
1853795 AGGGGAATCGATACCCCCCT
1 AGGGGAATCGAT-CCCCCCT
1853815 -GGGG
1 AGGGG
1853819 TTATGGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (19 bp):
AGGGGAATCGATCCCCCCT
Found at i:1858462 original size:15 final size:15
Alignment explanation
Indices: 1858442--1858481 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1858432 TTTAGAATAA
1858442 AGTCAACTCGTG-TT
1 AGTCAACTCGTGCTT
*
1858456 GAGTCAACTTGTGCTT
1 -AGTCAACTCGTGCTT
1858472 AGTCAACTCG
1 AGTCAACTCG
1858482 AACCAGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTCAACTCGTGCTT
Found at i:1862103 original size:3 final size:3
Alignment explanation
Indices: 1862097--1862142 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
1862087 CTAAAAAAAT
*
1862097 TAA TAA TAA TATA TTA TAA T-A TAA TACA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
1862143 GCTTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 5 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1862198 original size:2 final size:2
Alignment explanation
Indices: 1862148--1862179 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1862138 AATAAGCTTA
1862148 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
1862180 TTAAAAGAAA
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:1862223 original size:21 final size:20
Alignment explanation
Indices: 1862199--1862289 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 20
1862189 AAACTATATA
*
1862199 ATATATTATATTTTCAAAATC
1 ATATATTATATTTTGAAAA-C
* *
1862220 ATATAATATGTTTTGAAAAC
1 ATATATTATATTTTGAAAAC
1862240 A-ATATT-T-TTTTGAAAAC
1 ATATATTATATTTTGAAAAC
*
1862257 -TATATTATATATTTTAAAAAC
1 ATATA-T-TATATTTTGAAAAC
*
1862278 TATATGTTATAT
1 -ATATATTATAT
1862290 GTTTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
17 13 0.23
18 2 0.04
19 5 0.09
20 3 0.05
21 30 0.53
22 1 0.02
23 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (20 bp):
ATATATTATATTTTGAAAAC
Found at i:1862252 original size:17 final size:17
Alignment explanation
Indices: 1862230--1862262 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1862220 ATATAATATG
1862230 TTTTGAAAACAATATTT
1 TTTTGAAAACAATATTT
*
1862247 TTTTGAAAACTATATT
1 TTTTGAAAACAATATT
1862263 ATATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTTGAAAACAATATTT
Found at i:1862315 original size:26 final size:26
Alignment explanation
Indices: 1862268--1862320 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1862258 ATATTATATA
*
1862268 TTTTAAAAACTATATGTTATATGTTTT
1 TTTTAAAAACTATA-GTAATATGTTTT
1862295 TTTTAAAAAACTATA-TAATATGTTTT
1 TTTT-AAAAACTATAGTAATATGTTTT
1862321 CAAAATTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 4 0.17
28 10 0.42
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTTAAAAACTATAGTAATATGTTTT
Found at i:1862334 original size:14 final size:14
Alignment explanation
Indices: 1862315--1862341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1862305 CTATATAATA
1862315 TGTTTTCAAAATTG
1 TGTTTTCAAAATTG
1862329 TGTTTTCAAAATT
1 TGTTTTCAAAATT
1862342 TATACTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (14 bp):
TGTTTTCAAAATTG
Found at i:1862402 original size:75 final size:75
Alignment explanation
Indices: 1862292--1862500 Score: 223
Period size: 75 Copynumber: 2.8 Consensus size: 75
1862282 TGTTATATGT
** * **
1862292 TTTTTTTAAAAAACTATATA--ATATGTTTTCAAAATTGTGTTTTCAAAATTTATACTATATA-T
1 TTTTTTT-AAAAACTATATATTATACATTTTCAAAATT-TATTTTCAAAA-ACATACTATATACT
*
1862354 TTTCAAAAATC-A
63 TTTCAAAAACCGA
* *
1862366 TTTTTTTAAAAACTATATATTATACATTTTGAAAATTTATTTTCAAAAACATATTATATACGTTT
1 TTTTTTTAAAAACTATATATTATACATTTTCAAAATTTATTTTCAAAAACATACTATATAC-TTT
1862431 TCAAAAACCGA
65 TCAAAAACCGA
** * *
1862442 -TTTTTTAAAAACTATATATTATATGTTTTCAAAA-ATATTTTCAAAAACTATAATATATA
1 TTTTTTTAAAAACTATATATTATACATTTTCAAAATTTATTTTCAAAAAC-ATACTATATA
1862501 TTATTATATA
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
73 21 0.18
74 30 0.26
75 64 0.55
76 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (75 bp):
TTTTTTTAAAAACTATATATTATACATTTTCAAAATTTATTTTCAAAAACATACTATATACTTTT
CAAAAACCGA
Found at i:1862474 original size:39 final size:39
Alignment explanation
Indices: 1862293--1862501 Score: 149
Period size: 36 Copynumber: 5.6 Consensus size: 39
1862283 GTTATATGTT
*
1862293 TTTTTTAAAAAACTATATA--ATATGTTTTC-AAAATTG-
1 TTTTTT-AAAAACTATATATTATATGTTTTCAAAAATCGA
* * * * *
1862329 TGTTTTCAAAA-TTTATACTATATATTTTCAAAAATC-A
1 TTTTTTAAAAACTATATATTATATGTTTTCAAAAATCGA
** * **
1862366 TTTTTTTAAAAACTATATATTATACATTTT-GAAAATTTA
1 -TTTTTTAAAAACTATATATTATATGTTTTCAAAAATCGA
* * *
1862405 -TTTTCAAAAAC-ATAT-TATATACGTTTTCAAAAACCGA
1 TTTTTTAAAAACTATATAT-TATATGTTTTCAAAAATCGA
1862442 TTTTTTAAAAACTATATATTATATGTTTTCAAAAAT--A
1 TTTTTTAAAAACTATATATTATATGTTTTCAAAAATCGA
*
1862479 -TTTTCAAAAACTATA-ATATATAT
1 TTTTTTAAAAACTATATAT-TATAT
1862502 TATTATATAT
Statistics
Matches: 138, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
34 5 0.04
35 7 0.05
36 46 0.33
37 21 0.15
38 24 0.17
39 34 0.25
40 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (39 bp):
TTTTTTAAAAACTATATATTATATGTTTTCAAAAATCGA
Found at i:1862513 original size:14 final size:14
Alignment explanation
Indices: 1862494--1862527 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1862484 AAAAACTATA
*
1862494 ATATATATTATTAT
1 ATATATATTATCAT
1862508 ATATATATTATCAT
1 ATATATATTATCAT
1862522 ATATAT
1 ATATAT
1862528 TGAATAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATATTATCAT
Done.