Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 10 of 84
Found at i:1609268 original size:32 final size:31
Alignment explanation
Indices: 1609222--1609281 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
1609212 AATAATCTTG
* *
1609222 ATAATAATATTAATAATAACATTAAAAATTA
1 ATAATAAAATTAATAATAACAATAAAAATTA
*
1609253 ATAATTAAAATTAATAATAATAATAAAAA
1 ATAA-TAAAATTAATAATAACAATAAAAA
1609282 AAAGAGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (31 bp):
ATAATAAAATTAATAATAACAATAAAAATTA
Found at i:1609372 original size:20 final size:20
Alignment explanation
Indices: 1609347--1609384 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1609337 TCTACTTGAC
1609347 CCCATCAGACAGCCACCTTA
1 CCCATCAGACAGCCACCTTA
*
1609367 CCCATCAGATAGCCACCT
1 CCCATCAGACAGCCACCT
1609385 ATTAGTCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.45, G:0.11, T:0.16
Consensus pattern (20 bp):
CCCATCAGACAGCCACCTTA
Found at i:1610280 original size:18 final size:17
Alignment explanation
Indices: 1610235--1610281 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
1610225 TTTTTTTTAT
* *
1610235 TTTTTTATATATTATTA
1 TTTTTTATATTTTAGTA
1610252 TTTTTGT-TATTTTGAGTA
1 TTTTT-TATATTTT-AGTA
1610270 TTTTTTATATTT
1 TTTTTTATATTT
1610282 ATGCATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTTTATATTTTAGTA
Found at i:1610707 original size:16 final size:16
Alignment explanation
Indices: 1610695--1610796 Score: 63
Period size: 15 Copynumber: 6.6 Consensus size: 16
1610685 TATAAAACTC
*
1610695 CTAAAATTCAAAATCT
1 CTAAAATCCAAAATCT
* *
1610711 CTAAAATCC-AAACCC
1 CTAAAATCCAAAATCT
*
1610726 CATAAAATCCGAAA-CT
1 C-TAAAATCCAAAATCT
* *
1610742 TTAAAA-CCTTAAAA-CC
1 CTAAAATCC--AAAATCT
* *
1610758 CTTAAATCC-AAATCC
1 CTAAAATCCAAAATCT
1610773 CTAAAATCCAAAAT-T
1 CTAAAATCCAAAATCT
1610788 CTAAAATCC
1 CTAAAATCC
1610797 CTTAAATCCA
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
14 5 0.07
15 29 0.43
16 29 0.43
17 5 0.07
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (16 bp):
CTAAAATCCAAAATCT
Found at i:1610800 original size:39 final size:38
Alignment explanation
Indices: 1610751--1610824 Score: 130
Period size: 39 Copynumber: 1.9 Consensus size: 38
1610741 TTTAAAACCT
*
1610751 TAAAACCCTTAAATCCAAATCCCTAAAATCCAAAATTC
1 TAAAACCCTTAAATCCAAACCCCTAAAATCCAAAATTC
1610789 TAAAATCCCTTAAATCCAAACCCCTAAAATCCAAAA
1 TAAAA-CCCTTAAATCCAAACCCCTAAAATCCAAAA
1610825 CCTTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (38 bp):
TAAAACCCTTAAATCCAAACCCCTAAAATCCAAAATTC
Found at i:1610815 original size:24 final size:24
Alignment explanation
Indices: 1610767--1610820 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1610757 CCTTAAATCC
**
1610767 AAATCCCTAAAATCCAAAATTCTA
1 AAATCCCTAAAATCCAAAACCCTA
* *
1610791 AAATCCCTTAAATCCAAACCCCTA
1 AAATCCCTAAAATCCAAAACCCTA
1610815 AAATCC
1 AAATCC
1610821 AAAACCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (24 bp):
AAATCCCTAAAATCCAAAACCCTA
Found at i:1613241 original size:29 final size:27
Alignment explanation
Indices: 1613203--1613267 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
1613193 AAAACATTTG
* * *
1613203 AATTGATATTTAAATTTTAAAATTTTTT
1 AATTAATATTTAAATTAT-AAATTTATT
1613231 AATATAATATTTAAATTATAAATTTATT
1 AAT-TAATATTTAAATTATAAATTTATT
1613259 AATTAATAT
1 AATTAATAT
1613268 GATATTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 6 0.18
28 14 0.42
29 13 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
AATTAATATTTAAATTATAAATTTATT
Found at i:1613273 original size:32 final size:29
Alignment explanation
Indices: 1613206--1613275 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
1613196 ACATTTGAAT
*
1613206 TGATATTTAAATTTTAAAATTTTTTAATA
1 TGATATTTAAATTATAAAATTTTTTAATA
* *
1613235 TAATATTTAAATTATAAATTTATTAATTAATA
1 TGATATTTAAATTATAAAATT-TT--TTAATA
1613267 TGATATTTA
1 TGATATTTA
1613276 TAAAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.53
30 2 0.06
32 14 0.41
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TGATATTTAAATTATAAAATTTTTTAATA
Found at i:1613281 original size:28 final size:29
Alignment explanation
Indices: 1613215--1613282 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
1613205 TTGATATTTA
* *
1613215 AATTT-TAAAATTTTTTAATATAATATTT
1 AATTTATAAAATTTATTAATATAATATAT
*
1613243 AAATTAT-AAATTTATTAAT-TAATATGAT
1 AATTTATAAAATTTATTAATATAATAT-AT
1613271 -ATTTATAAAATT
1 AATTTATAAAATT
1613283 ATTTATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 11 0.33
28 21 0.64
29 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
AATTTATAAAATTTATTAATATAATATAT
Found at i:1613632 original size:19 final size:19
Alignment explanation
Indices: 1613600--1613643 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1613590 ATATTTTATT
*
1613600 TTTTTA-TAATATATATAA
1 TTTTTATTAAAATATATAA
*
1613618 TTTTTATTAAAATATATTA
1 TTTTTATTAAAATATATAA
1613637 TTTTTAT
1 TTTTTAT
1613644 ATTATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATTAAAATATATAA
Found at i:1613646 original size:21 final size:20
Alignment explanation
Indices: 1613584--1613647 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
1613574 ACGTTAAATA
*
1613584 TAAAATATATT-TTATTTTTT
1 TAAAATATATTATT-TTTTAT
* *
1613604 TATAATATATATAATTTTTAT
1 TAAAATATAT-TATTTTTTAT
1613625 TAAAATATATTATTTTTATAT
1 TAAAATATATTATTTTT-TAT
1613646 TA
1 TA
1613648 TATTTTGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 15 0.42
21 20 0.56
22 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAAATATATTATTTTTTAT
Found at i:1614425 original size:21 final size:21
Alignment explanation
Indices: 1614400--1614439 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1614390 TCATTCGACA
* *
1614400 ATAAATAAATTAAATTTTATC
1 ATAAATAAACTAAAATTTATC
1614421 ATAAATAAACTAAAATTTA
1 ATAAATAAACTAAAATTTA
1614440 GGGATGAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAATAAACTAAAATTTATC
Found at i:1615849 original size:12 final size:12
Alignment explanation
Indices: 1615817--1615849 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1615807 TCTTTTCTGG
1615817 TTTT-TTTTTGT
1 TTTTATTTTTGT
*
1615828 TTTTAGTTTTGT
1 TTTTATTTTTGT
1615840 TTTTATTTTT
1 TTTTATTTTT
1615850 TATTTATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (12 bp):
TTTTATTTTTGT
Found at i:1615849 original size:19 final size:18
Alignment explanation
Indices: 1615801--1615851 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
1615791 TATTTTAAAA
*
1615801 TTTTTATCTTTTCTGGTTTT
1 TTTTTAT-TTTT-TAGTTTT
*
1615821 TTTTT-GTTTTTAGTTTT
1 TTTTTATTTTTTAGTTTT
1615838 GTTTTTATTTTTTA
1 -TTTTTATTTTTTA
1615852 TTTATAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 6 0.23
20 5 0.19
ACGTcount: A:0.08, C:0.04, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTAGTTTT
Found at i:1630995 original size:2 final size:2
Alignment explanation
Indices: 1630939--1630976 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1630929 ATGTGTAGGT
1630939 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1630977 CACACACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1635439 original size:29 final size:30
Alignment explanation
Indices: 1635382--1635439 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1635372 AATGCTAAAA
*
1635382 TAATAAAAATTTAAATTTTATTATTTTATT
1 TAATAAAAATTTAAATTTTATTATCTTATT
*
1635412 TAAT-AAAATTTATATTTTTATTA-CTTAT
1 TAATAAAAATTTA-AATTTTATTATCTTAT
1635440 AAATAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TAATAAAAATTTAAATTTTATTATCTTATT
Found at i:1635809 original size:23 final size:23
Alignment explanation
Indices: 1635783--1635827 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1635773 AAATTAATTA
*
1635783 AATATGTTTGAAAGTGACATTTG
1 AATAAGTTTGAAAGTGACATTTG
1635806 AATAAGTTTGAAAGTGACATTT
1 AATAAGTTTGAAAGTGACATTT
1635828 AATGTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (23 bp):
AATAAGTTTGAAAGTGACATTTG
Found at i:1636334 original size:16 final size:17
Alignment explanation
Indices: 1636307--1636349 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1636297 ATTTAATCAC
1636307 AAATTT-AATTCAA-TA
1 AAATTTAAATTCAAGTA
1636322 AAATTTAAATTCAAGTA
1 AAATTTAAATTCAAGTA
**
1636339 TCATTTAAATT
1 AAATTTAAATT
1636350 AAATGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 11 0.46
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (17 bp):
AAATTTAAATTCAAGTA
Found at i:1637378 original size:20 final size:19
Alignment explanation
Indices: 1637333--1637379 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
1637323 TTTTTTACAT
1637333 ATTATTTTAATATATTTAA
1 ATTATTTTAATATATTTAA
**
1637352 AGAATTTTAA-ATATGTTATA
1 ATTATTTTAATATAT-TTA-A
1637372 ATTATTTT
1 ATTATTTT
1637380 TATTTTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTATTTTAATATATTTAA
Found at i:1657399 original size:19 final size:19
Alignment explanation
Indices: 1657375--1657419 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1657365 TTATTCTGTA
1657375 TCCAAACCCATTTTTTGTT
1 TCCAAACCCATTTTTTGTT
1657394 TCCAAACCCATTTTTTGTT
1 TCCAAACCCATTTTTTGTT
1657413 TCCAAAC
1 TCCAAAC
1657420 ACATATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.42
Consensus pattern (19 bp):
TCCAAACCCATTTTTTGTT
Found at i:1659547 original size:2 final size:2
Alignment explanation
Indices: 1659534--1659565 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1659524 AGCAATGATG
*
1659534 AT AT AT AA 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
1659566 CCATTGTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1662091 original size:27 final size:23
Alignment explanation
Indices: 1662032--1662084 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
1662022 AAGCGAAATC
1662032 AAATAATTAATCAAATATATAAG
1 AAATAATTAATCAAATATATAAG
*
1662055 AGATAATTAATCAAATATATAAG
1 AAATAATTAATCAAATATATAAG
1662078 AAATAAT
1 AAATAAT
1662085 AATTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (23 bp):
AAATAATTAATCAAATATATAAG
Found at i:1662585 original size:13 final size:13
Alignment explanation
Indices: 1662564--1662598 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
1662554 ACCTATTAAG
1662564 AAATTTTTTTT-T
1 AAATTTTTTTTAT
1662576 AAATTTTTTTTAT
1 AAATTTTTTTTAT
1662589 AAATTTTTTT
1 AAATTTTTTT
1662599 GTCCATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
AAATTTTTTTTAT
Found at i:1666245 original size:18 final size:19
Alignment explanation
Indices: 1666217--1666256 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1666207 ATTTAACACG
* *
1666217 TTTTTTAATAAACTTATTA
1 TTTTTTAATAAAATGATTA
1666236 TTTTTT-ATAAAATGATTA
1 TTTTTTAATAAAATGATTA
1666254 TTT
1 TTT
1666257 AAAGTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTTTAATAAAATGATTA
Found at i:1666475 original size:82 final size:80
Alignment explanation
Indices: 1666334--1666535 Score: 194
Period size: 82 Copynumber: 2.5 Consensus size: 80
1666324 ATTTTTGAAC
* * * * * *
1666334 CAAAAATACCTTAAATAATAT-TTTTATAAAAATATTAACCTTAAACTTTAAATTCTAAAATATA
1 CAAAAATA-CTTAAATAAT-TCTTTTATAAAAATATTAACATAAAACTCTAAAATATAAAAAATA
*
1666398 AAAAAAT-TATTTAAGATA
64 AAAAAATACATTT--GATA
*
1666416 CAAAAATACTTTAAATAATTCTTTTATAAAAATATTAATCATAAAAC-CTAAAATATAAAAAATT
1 CAAAAATAC-TTAAATAATTCTTTTATAAAAATATTAA-CATAAAACTCTAAAATATAAAAAATA
*** *
1666480 ATTTAATACATTTTATA
64 AAAAAATACATTTGATA
*
1666497 CAGAAAATAACTTAAATAATACTTTTATAAAAATATTAA
1 CA-AAAAT-ACTTAAATAATTCTTTTATAAAAATATTAA
1666536 AAAAATATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
81 7 0.07
82 82 0.81
83 12 0.12
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (80 bp):
CAAAAATACTTAAATAATTCTTTTATAAAAATATTAACATAAAACTCTAAAATATAAAAAATAAA
AAAATACATTTGATA
Found at i:1666545 original size:62 final size:63
Alignment explanation
Indices: 1666465--1666598 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 63
1666455 CATAAAACCT
* *
1666465 AAAATA-TAAAAAATTATTTAATACATTTTATACAGAAAAT-AACTTAAATAATACTTTTATA
1 AAAATATTAAAAAAATATTTAAAACATTTTATACAGAAAATCAACTTAAATAATACTTTTATA
* * * * * **
1666526 AAAATATTAAAAAAATATTTAAAACGTTTTTTATATAAAATCACCTTAAATAATTTTTTTATA
1 AAAATATTAAAAAAATATTTAAAACATTTTATACAGAAAATCAACTTAAATAATACTTTTATA
1666589 AAAATATTAA
1 AAAATATTAA
1666599 TCTTAAACCC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 6 0.10
62 28 0.45
63 28 0.45
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (63 bp):
AAAATATTAAAAAAATATTTAAAACATTTTATACAGAAAATCAACTTAAATAATACTTTTATA
Found at i:1677181 original size:16 final size:16
Alignment explanation
Indices: 1677158--1677199 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
1677148 TATTATTTCA
1677158 TAAATATATT-AATAT
1 TAAATATATTAAATAT
1677173 TAAATTATATTAAATAT
1 TAAA-TATATTAAATAT
1677190 TAAATATATT
1 TAAATATATT
1677200 TATTCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.16
16 12 0.48
17 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATATATTAAATAT
Found at i:1677346 original size:16 final size:17
Alignment explanation
Indices: 1677305--1677347 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1677295 ATTAATTGAG
1677305 TTTATAAATATTATAGA
1 TTTATAAATATTATAGA
*
1677322 TTCATAAATATCTA-A-A
1 TTTATAAATAT-TATAGA
1677338 TTTATAAATA
1 TTTATAAATA
1677348 ATCAAAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 10 0.43
17 11 0.48
18 2 0.09
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTATAAATATTATAGA
Found at i:1679916 original size:75 final size:77
Alignment explanation
Indices: 1679817--1679966 Score: 241
Period size: 79 Copynumber: 1.9 Consensus size: 77
1679807 TTAGCATGGT
* *
1679817 AAAAGAGACATTAACTTTGAAAAA-A-AAAGGAATTACATAGACAGTCACAATGCAGTATGAGTG
1 AAAAGAGACATTAACTTTGAAAAACAGAAAGGAAATACATAGACAATCACAATGCAGTATGAGTG
1679880 CAGGGTACCTCA
66 CAGGGTACCTCA
1679892 AAAAGAGACATTTAACTTTGAAAAAACAGAAAGGAAATACATAGACAATCACAATGCAGTATGAG
1 AAAAGAGACA-TTAACTTTG-AAAAACAGAAAGGAAATACATAGACAATCACAATGCAGTATGAG
*
1679957 TGGAGGGTAC
64 TGCAGGGTAC
1679967 TTTAAAGTGG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 10 0.15
76 9 0.13
77 5 0.07
78 1 0.01
79 43 0.63
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (77 bp):
AAAAGAGACATTAACTTTGAAAAACAGAAAGGAAATACATAGACAATCACAATGCAGTATGAGTG
CAGGGTACCTCA
Found at i:1681460 original size:12 final size:12
Alignment explanation
Indices: 1681445--1681471 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1681435 ACCAGCAATG
1681445 TCACCAACATTA
1 TCACCAACATTA
1681457 TCACCAACATTA
1 TCACCAACATTA
1681469 TCA
1 TCA
1681472 GCAATGACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (12 bp):
TCACCAACATTA
Found at i:1684573 original size:22 final size:23
Alignment explanation
Indices: 1684538--1684583 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1684528 AATTTTAAAA
**
1684538 AAAATTAATTAATAAATT-TAAT
1 AAAATTAAAAAATAAATTATAAT
*
1684560 AAAATTAAAAAATATATTATAAT
1 AAAATTAAAAAATAAATTATAAT
1684583 A
1 A
1684584 CATAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATTAAAAAATAAATTATAAT
Found at i:1686560 original size:29 final size:27
Alignment explanation
Indices: 1686528--1686592 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 27
1686518 TGTTATCAAT
* *
1686528 TTTTTAATCTGGTATTTAAATTTTATAAA
1 TTTTTAATATGATATTTAAA--TTATAAA
1686557 TTTTTAATATGATATTTAAATTATAAA
1 TTTTTAATATGATATTTAAATTATAAA
1686584 TTTATTAAT
1 TTT-TTAAT
1686593 TAATAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 5 0.15
29 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTTTAATATGATATTTAAATTATAAA
Found at i:1686602 original size:27 final size:27
Alignment explanation
Indices: 1686550--1686602 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1686540 TATTTAAATT
* *
1686550 TTATAAATTTTTAATATGATATTTAAA
1 TTATAAATTTTTAATATAATAATTAAA
1686577 TTATAAATTTATTAAT-TAATAATTAA
1 TTATAAATTT-TTAATATAATAATTAA
1686603 TATAATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TTATAAATTTTTAATATAATAATTAAA
Found at i:1693282 original size:13 final size:14
Alignment explanation
Indices: 1693246--1693283 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
1693236 TAACCATAAG
*
1693246 AAAATAATATATTT
1 AAAATAATATAATT
1693260 AAAATTAATATAATT
1 AAAA-TAATATAATT
1693275 AAAA-AATAT
1 AAAATAATAT
1693284 TTTATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 4 0.18
15 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAATATAATT
Found at i:1693293 original size:27 final size:29
Alignment explanation
Indices: 1693246--1693299 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
1693236 TAACCATAAG
1693246 AAAATAATATATTTAAAATTAATATAATT
1 AAAATAATATATTTAAAATTAATATAATT
*
1693275 AAAA-AATAT-TTTATAATTAATATAA
1 AAAATAATATATTTAAAATTAATATAA
1693300 AAATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 5 0.21
29 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATAATATATTTAAAATTAATATAATT
Found at i:1693310 original size:27 final size:26
Alignment explanation
Indices: 1693246--1693312 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
1693236 TAACCATAAG
1693246 AAAATA-ATATATTTAAAATTAATATA
1 AAAATATATAT-TTTAAAATTAATATA
* *
1693272 ATTAAA-AAATATTTTATAATTAATATA
1 A--AAATATATATTTTAAAATTAATATA
1693299 AAAATTATATATTT
1 AAAA-TATATATTT
1693313 ATCTTGCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 23 0.68
28 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATATATATTTTAAAATTAATATA
Found at i:1696165 original size:2 final size:2
Alignment explanation
Indices: 1696148--1696183 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1696138 AACTTTCCTC
*
1696148 TA TA TC TA TA TA -A 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
1696184 TTGTGCTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1712203 original size:18 final size:18
Alignment explanation
Indices: 1712169--1712203 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1712159 ATTTTGATAT
*
1712169 AATTTTTAAATATATTTA
1 AATTTTTAAATAAATTTA
*
1712187 AATTTTTAATTAAATTT
1 AATTTTTAAATAAATTT
1712204 TGAATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTTAAATAAATTTA
Found at i:1713001 original size:25 final size:24
Alignment explanation
Indices: 1712973--1713031 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
1712963 CAAATTTAAA
* *
1712973 TTATAAATAATATTTT-AAATTATTT
1 TTATAAAT--TATTTTAAAAATAATT
1712998 TTATTAAATTATTTTAAAAATAATT
1 TTA-TAAATTATTTTAAAAATAATT
1713023 TTATAAATT
1 TTATAAATT
1713032 TTACTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 12 0.40
25 13 0.43
26 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATAAATTATTTTAAAAATAATT
Found at i:1713018 original size:26 final size:25
Alignment explanation
Indices: 1712989--1713044 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
1712979 ATAATATTTT
*
1712989 AAATTATTTTTATTAAATTATT-TTAA
1 AAATTAATTTTA-TAAATT-TTATTAA
1713015 AAA-TAATTTTATAAATTTTACTTAA
1 AAATTAATTTTATAAATTTTA-TTAA
1713040 AAATT
1 AAATT
1713045 TTTATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 14 0.54
26 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATTAATTTTATAAATTTTATTAA
Found at i:1713052 original size:25 final size:24
Alignment explanation
Indices: 1712974--1713054 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 24
1712964 AAATTTAAAT
*
1712974 TATAAATAATATTTTAAATTATTTTTA
1 TATAAAT--TATTTTAAA-AATTTTTA
*
1713001 T-TAAATTATTTTAAAAATAATTT-
1 TATAAATTATTTTAAAAAT-TTTTA
1713024 TATAAATT-TTACTTAAAAATTTTTA
1 TATAAATTATT--TTAAAAATTTTTA
1713049 TATAAA
1 TATAAA
1713055 GTTTGTCGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 5 0.11
24 21 0.46
25 14 0.30
26 5 0.11
27 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
TATAAATTATTTTAAAAATTTTTA
Found at i:1714394 original size:25 final size:25
Alignment explanation
Indices: 1714366--1714414 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1714356 GCATATTTAT
1714366 TCATA-ATTAATTGAATTTATAAATA
1 TCATAGATTAA-TGAATTTATAAATA
*
1714391 TCATAGATTAATGAATTTCTAAAT
1 TCATAGATTAATGAATTTATAAAT
1714415 TAATGAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (25 bp):
TCATAGATTAATGAATTTATAAATA
Found at i:1717070 original size:26 final size:25
Alignment explanation
Indices: 1717020--1717074 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
1717010 AAGATGCAAG
*
1717020 AAAAAATAAAATAAAAACATCATAA
1 AAAAAAGAAAATAAAAACATCATAA
* * *
1717045 TAAAAAAGAAAATAAATAGATTATAA
1 -AAAAAAGAAAATAAAAACATCATAA
1717071 AAAA
1 AAAA
1717075 CTTAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (25 bp):
AAAAAAGAAAATAAAAACATCATAA
Found at i:1725737 original size:21 final size:21
Alignment explanation
Indices: 1725713--1725820 Score: 101
Period size: 21 Copynumber: 5.1 Consensus size: 21
1725703 TGGCCATGAG
* *
1725713 CTTGAAATGGAAGGGAATGGC
1 CTTGAAATTGAAGGCAATGGC
* *
1725734 CTTGAAATTGAAGGGAATGAC
1 CTTGAAATTGAAGGCAATGGC
* *
1725755 GTTGATATTG-AGAGCAATGGC
1 CTTGAAATTGAAG-GCAATGGC
* * *
1725776 CTTGAGATAGAAGGAAATGGC
1 CTTGAAATTGAAGGCAATGGC
* *
1725797 CTTGACATTGAAAGCAATGGC
1 CTTGAAATTGAAGGCAATGGC
1725818 CTT
1 CTT
1725821 CAGAATGATT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
20 2 0.03
21 67 0.94
22 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (21 bp):
CTTGAAATTGAAGGCAATGGC
Found at i:1725789 original size:42 final size:42
Alignment explanation
Indices: 1725728--1725820 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
1725718 AATGGAAGGG
* * * * *
1725728 AATGGCCTTGAAATTGAAGGGAATGACGTTGATATTGAGAGC
1 AATGGCCTTGAAATAGAAGGAAATGACCTTGACATTGAAAGC
* *
1725770 AATGGCCTTGAGATAGAAGGAAATGGCCTTGACATTGAAAGC
1 AATGGCCTTGAAATAGAAGGAAATGACCTTGACATTGAAAGC
1725812 AATGGCCTT
1 AATGGCCTT
1725821 CAGAATGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (42 bp):
AATGGCCTTGAAATAGAAGGAAATGACCTTGACATTGAAAGC
Found at i:1741550 original size:15 final size:15
Alignment explanation
Indices: 1741532--1741676 Score: 128
Period size: 15 Copynumber: 9.7 Consensus size: 15
1741522 CTTGAGAAGG
* *
1741532 TACTTCTTGAGGGGC
1 TACTTCTTGATGGGA
** *
1741547 TACTTCCAGATGGGG
1 TACTTCTTGATGGGA
*
1741562 TACTTCTTGATGAGA
1 TACTTCTTGATGGGA
*
1741577 TACTTCATGATGGGA
1 TACTTCTTGATGGGA
* * * *
1741592 TTCGTCTTGATGAGC
1 TACTTCTTGATGGGA
*
1741607 TACTTCATGATGGGA
1 TACTTCTTGATGGGA
* *
1741622 TACTTCTTGATGAGC
1 TACTTCTTGATGGGA
*
1741637 TACTTCATGATGGGA
1 TACTTCTTGATGGGA
* * *
1741652 TATTTCTTGATGAGC
1 TACTTCTTGATGGGA
1741667 TACTTCTTGA
1 TACTTCTTGA
1741677 GATGGTCCTT
Statistics
Matches: 99, Mismatches: 31, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 99 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (15 bp):
TACTTCTTGATGGGA
Found at i:1741691 original size:30 final size:30
Alignment explanation
Indices: 1741532--1741672 Score: 203
Period size: 30 Copynumber: 4.7 Consensus size: 30
1741522 CTTGAGAAGG
* * *
1741532 TACTTCTTGAGGGGCTACTTCCA-GATGGGG
1 TACTTCTTGATGAGCTACTT-CATGATGGGA
*
1741562 TACTTCTTGATGAGATACTTCATGATGGGA
1 TACTTCTTGATGAGCTACTTCATGATGGGA
* *
1741592 TTCGTCTTGATGAGCTACTTCATGATGGGA
1 TACTTCTTGATGAGCTACTTCATGATGGGA
1741622 TACTTCTTGATGAGCTACTTCATGATGGGA
1 TACTTCTTGATGAGCTACTTCATGATGGGA
*
1741652 TATTTCTTGATGAGCTACTTC
1 TACTTCTTGATGAGCTACTTC
1741673 TTGAGATGGT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 2 0.02
30 98 0.98
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (30 bp):
TACTTCTTGATGAGCTACTTCATGATGGGA
Found at i:1741700 original size:15 final size:15
Alignment explanation
Indices: 1741669--1741764 Score: 68
Period size: 15 Copynumber: 6.4 Consensus size: 15
1741659 TGATGAGCTA
*
1741669 CTTCTTGAGATGG-TC
1 CTTCTTGA-AGGGATC
*
1741684 CTTCTTGAAGGAATC
1 CTTCTTGAAGGGATC
* * *
1741699 CTTCTTCAGGGGGTC
1 CTTCTTGAAGGGATC
* *
1741714 CCTCTTGAAGGTATC
1 CTTCTTGAAGGGATC
* * *
1741729 CTTCTTCAGGGGGTC
1 CTTCTTGAAGGGATC
* *
1741744 CCTCTTGAAGGTATC
1 CTTCTTGAAGGGATC
1741759 CTTCTT
1 CTTCTT
1741765 CAGGGGGTTC
Statistics
Matches: 58, Mismatches: 22, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
14 2 0.03
15 56 0.97
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (15 bp):
CTTCTTGAAGGGATC
Found at i:1741703 original size:30 final size:30
Alignment explanation
Indices: 1741680--1741772 Score: 168
Period size: 30 Copynumber: 3.1 Consensus size: 30
1741670 TTCTTGAGAT
* *
1741680 GGTCCTTCTTGAAGGAATCCTTCTTCAGGG
1 GGTCCCTCTTGAAGGTATCCTTCTTCAGGG
1741710 GGTCCCTCTTGAAGGTATCCTTCTTCAGGG
1 GGTCCCTCTTGAAGGTATCCTTCTTCAGGG
1741740 GGTCCCTCTTGAAGGTATCCTTCTTCAGGG
1 GGTCCCTCTTGAAGGTATCCTTCTTCAGGG
1741770 GGT
1 GGT
1741773 TCAGTTTTGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.14, C:0.25, G:0.28, T:0.33
Consensus pattern (30 bp):
GGTCCCTCTTGAAGGTATCCTTCTTCAGGG
Found at i:1745323 original size:15 final size:15
Alignment explanation
Indices: 1745303--1745331 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1745293 CAAAGGCAAA
1745303 AAGTTTAGAGCTTTG
1 AAGTTTAGAGCTTTG
1745318 AAGTTTAGAGCTTT
1 AAGTTTAGAGCTTT
1745332 TTTTCGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (15 bp):
AAGTTTAGAGCTTTG
Found at i:1758359 original size:2 final size:2
Alignment explanation
Indices: 1758352--1758396 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1758342 GTTCAAGTCT
1758352 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1758394 TC T
1 TC T
1758397 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1758401 original size:2 final size:2
Alignment explanation
Indices: 1758396--1758432 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1758386 TCTCTCTCTC
1758396 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
1758433 CTCAATTGAA
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:1768528 original size:2 final size:2
Alignment explanation
Indices: 1768523--1768559 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1768513 GTTTTGTAAA
1768523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1768560 CAAAAAGCAG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1777299 original size:7 final size:7
Alignment explanation
Indices: 1777268--1777315 Score: 60
Period size: 7 Copynumber: 6.3 Consensus size: 7
1777258 TTTTTTAAAA
1777268 ATAATTAT
1 ATAATT-T
1777276 ATAATTT
1 ATAATTT
1777283 AATTTAATTT
1 -A--TAATTT
1777293 ATAATTT
1 ATAATTT
1777300 ATAATTT
1 ATAATTT
1777307 ATAATTT
1 ATAATTT
1777314 AT
1 AT
1777316 TTTTATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 23 0.62
8 7 0.19
9 1 0.03
10 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATAATTT
Found at i:1785362 original size:21 final size:21
Alignment explanation
Indices: 1785338--1785378 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1785328 ATGTCTATAA
*
1785338 TTTTTTATAAAATATATGCAC
1 TTTTTAATAAAATATATGCAC
* *
1785359 TTTTTAATAAATTTTATGCA
1 TTTTTAATAAAATATATGCA
1785379 TATAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTTTAATAAAATATATGCAC
Found at i:1786326 original size:22 final size:24
Alignment explanation
Indices: 1786292--1786336 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1786282 AATTTGCACC
*
1786292 AAAAAATATTAAAA-AATATTTTT
1 AAAAAATAATAAAATAATATTTTT
*
1786315 AAAAAA-AATAAAATATTATTTT
1 AAAAAATAATAAAATAATATTTT
1786337 ATATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATAATAAAATAATATTTTT
Found at i:1786329 original size:20 final size:19
Alignment explanation
Indices: 1786304--1786354 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1786294 AAAATATTAA
1786304 AAAATATTTTTAAAAAAAAT
1 AAAATATTTTT-AAAAAAAT
* * *
1786324 AAAATATTATTTTATATAAT
1 AAAATATT-TTTAAAAAAAT
1786344 AAAATATTTTT
1 AAAATATTTTT
1786355 TAAATCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATTTTTAAAAAAAT
Found at i:1788240 original size:2 final size:2
Alignment explanation
Indices: 1788233--1788263 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1788223 CATTTTCGTG
1788233 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 T
1788264 TATTTATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1794205 original size:166 final size:166
Alignment explanation
Indices: 1793926--1794263 Score: 606
Period size: 166 Copynumber: 2.0 Consensus size: 166
1793916 ATTTGGGCAA
* *
1793926 ATCTATAACTCAATTTGAAATTTGGGATATCAAAATTTTAAGGCTGATTTCTCTATCAATGATGC
1 ATCTATAACTCAATTTGAAATTTGGGATATAAAAAATTTAAGGCTGATTTCTCTATCAATGATGC
**
1793991 TAATGAGTTGTGAATTGCCCTTGTTTGACTGTAGAACTAAATCCTCCCAACTCCCAGCTATAGAT
66 TAATGAGTTGTGAATTGCCCCGGTTTGACTGTAGAACTAAATCCTCCCAACTCCCAGCTATAGAT
1794056 GAGGTTACTGACAGATTGATCCGTACTTCGGAATCC
131 GAGGTTACTGACAGATTGATCCGTACTTCGGAATCC
*
1794092 ATCTGTAACTCAATTTGAAATTTGGGATATAAAAAATTTAAGGCTGATTTCTCTATCAATGATGC
1 ATCTATAACTCAATTTGAAATTTGGGATATAAAAAATTTAAGGCTGATTTCTCTATCAATGATGC
*
1794157 TATTGAGTTGTGAATTGCCCCGGTTTGACTGTAGAACTAAATCCTCCCAACTCCCAGCTATAGAT
66 TAATGAGTTGTGAATTGCCCCGGTTTGACTGTAGAACTAAATCCTCCCAACTCCCAGCTATAGAT
*
1794222 GAGGTTACTGATAGATTGATCCGTACTTCGGAATCC
131 GAGGTTACTGACAGATTGATCCGTACTTCGGAATCC
1794258 AT-TATA
1 ATCTATA
1794264 TAACAATAGC
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
165 3 0.02
166 161 0.98
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (166 bp):
ATCTATAACTCAATTTGAAATTTGGGATATAAAAAATTTAAGGCTGATTTCTCTATCAATGATGC
TAATGAGTTGTGAATTGCCCCGGTTTGACTGTAGAACTAAATCCTCCCAACTCCCAGCTATAGAT
GAGGTTACTGACAGATTGATCCGTACTTCGGAATCC
Found at i:1798901 original size:2 final size:2
Alignment explanation
Indices: 1798896--1798930 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1798886 ATATATATAT
1798896 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1798931 TGCGAGTCAC
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:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1801712 original size:14 final size:15
Alignment explanation
Indices: 1801672--1801713 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
1801662 AAAATAATAT
1801672 TTAAAATTTAATTGA
1 TTAAAATTTAATTGA
**
1801687 TTAAAAAATAATT-A
1 TTAAAATTTAATTGA
*
1801701 TTAAATTTTAATT
1 TTAAAATTTAATT
1801714 CAAAACAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTAAAATTTAATTGA
Found at i:1809081 original size:14 final size:15
Alignment explanation
Indices: 1809062--1809090 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1809052 TGTTTTCTAA
1809062 TGGCATTTT-CTCTT
1 TGGCATTTTCCTCTT
1809076 TGGCATTTTCCTCTT
1 TGGCATTTTCCTCTT
1809091 GTTACAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.24, G:0.14, T:0.55
Consensus pattern (15 bp):
TGGCATTTTCCTCTT
Found at i:1817852 original size:17 final size:17
Alignment explanation
Indices: 1817830--1817864 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1817820 CAGTAAAACA
1817830 AAATGAAGA-TGAAGAAG
1 AAATGAAGAGT-AAGAAG
1817847 AAATGAAGAGTAAGAAG
1 AAATGAAGAGTAAGAAG
1817864 A
1 A
1817865 GCATAAGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (17 bp):
AAATGAAGAGTAAGAAG
Found at i:1818416 original size:29 final size:30
Alignment explanation
Indices: 1818354--1818419 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
1818344 GATATTTGAG
* *
1818354 AATTTAATTAATTTTAAATAAAAAATTTAA
1 AATTTAATTAATTGTAAATAAAAAATTCAA
*
1818384 AATTTAATTAATTGT-AATAAAATA-TCAA
1 AATTTAATTAATTGTAAATAAAAAATTCAA
1818412 TAATTTAA
1 -AATTTAA
1818420 ATGATCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 15 0.47
30 14 0.44
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
AATTTAATTAATTGTAAATAAAAAATTCAA
Found at i:1820015 original size:20 final size:20
Alignment explanation
Indices: 1819987--1820047 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
1819977 TTAATATTAT
1819987 AATAT-ATATTTTTATATAA
1 AATATAATATTTTTATATAA
***
1820006 AATATAATATAAATATATAA
1 AATATAATATTTTTATATAA
* *
1820026 ATTTTTAATA-TTTTATATAA
1 A-ATATAATATTTTTATATAA
1820046 AA
1 AA
1820048 CAAATACACA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 5 0.16
20 20 0.65
21 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATAATATTTTTATATAA
Found at i:1820021 original size:26 final size:26
Alignment explanation
Indices: 1819967--1820016 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
1819957 AAATATATTT
*
1819967 TATTTTTATATTAATATTATAATATA
1 TATTTTTATATTAATAATATAATATA
1819993 TATTTTTATA-TAA-AATATAATATA
1 TATTTTTATATTAATAATATAATATA
1820017 AATATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 3 0.13
26 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTTTATATTAATAATATAATATA
Found at i:1820600 original size:17 final size:16
Alignment explanation
Indices: 1820552--1820601 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
1820542 ACAGTGACAT
*
1820552 AAAATGAATATATGTAA
1 AAAAT-AATATATTTAA
1820569 AAAATAATATGATTTAA
1 AAAATAATAT-ATTTAA
*
1820586 ACAATAATTATATTTA
1 AAAATAA-TATATTTA
1820602 GATTTAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 21 0.72
18 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (16 bp):
AAAATAATATATTTAA
Found at i:1828669 original size:12 final size:12
Alignment explanation
Indices: 1828652--1828682 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1828642 CTCCACCTCA
*
1828652 GATGGATGCGAC
1 GATGGATGCAAC
1828664 GATGGATGCAAC
1 GATGGATGCAAC
1828676 GATGGAT
1 GATGGAT
1828683 CCAGGGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.39, T:0.19
Consensus pattern (12 bp):
GATGGATGCAAC
Found at i:1830589 original size:13 final size:12
Alignment explanation
Indices: 1830558--1830618 Score: 70
Period size: 13 Copynumber: 5.0 Consensus size: 12
1830548 TTTGTACATA
*
1830558 ATAATTTAAAAT
1 ATAATATAAAAT
*
1830570 ATGATATAATAAT
1 ATAATATAA-AAT
1830583 ATAATAT-AAAT
1 ATAATATAAAAT
1830594 ATAATATAAAAAT
1 ATAATAT-AAAAT
*
1830607 ATAAAATAAAAT
1 ATAATATAAAAT
1830619 GATATAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
11 10 0.24
12 13 0.31
13 19 0.45
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:1830593 original size:24 final size:24
Alignment explanation
Indices: 1830566--1830626 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
1830556 TAATAATTTA
*
1830566 AAATATGATATAATAATATAATAT
1 AAATATGATATAATAATATAAAAT
* *
1830590 AAATATAATATAAAAATATAAAAT
1 AAATATGATATAATAATATAAAAT
1830614 AAA-ATGATATAAT
1 AAATATGATATAAT
1830627 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (24 bp):
AAATATGATATAATAATATAAAAT
Found at i:1830631 original size:15 final size:14
Alignment explanation
Indices: 1830573--1830633 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
1830563 TTAAAATATG
1830573 ATATAATAATATAATA
1 ATAT-ATAATATAA-A
*
1830589 TAAATATAATATAAA
1 -ATATATAATATAAA
*
1830604 A-ATATAAAATAAA
1 ATATATAATATAAA
*
1830617 ATGATATAATTTAAA
1 AT-ATATAATATAAA
1830632 AT
1 AT
1830634 TTTAATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
15 13 0.34
16 9 0.24
17 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATATAATATAAA
Found at i:1833944 original size:15 final size:15
Alignment explanation
Indices: 1833924--1833955 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1833914 GCTCCAGCCC
1833924 CAGCACCACTTACGG
1 CAGCACCACTTACGG
1833939 CAGCACCACTTACGG
1 CAGCACCACTTACGG
1833954 CA
1 CA
1833956 TCTCTTGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.41, G:0.19, T:0.12
Consensus pattern (15 bp):
CAGCACCACTTACGG
Found at i:1859583 original size:16 final size:17
Alignment explanation
Indices: 1859562--1859599 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1859552 TTTCCTTGGA
*
1859562 TTTTTTATATAA-TTAT
1 TTTTTTATAAAATTTAT
1859578 TTTTTTATAAAATTTAT
1 TTTTTTATAAAATTTAT
1859595 TTTTT
1 TTTTT
1859600 AAGTACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTATAAAATTTAT
Found at i:1860477 original size:24 final size:24
Alignment explanation
Indices: 1860450--1860499 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1860440 GTAACATTTT
1860450 TTATTTATTTTAAACTACAAAACA
1 TTATTTATTTTAAACTACAAAACA
1860474 TTATTTATTTTAAACTACAAAACA
1 TTATTTATTTTAAACTACAAAACA
1860498 TT
1 TT
1860500 CTTAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATTTATTTTAAACTACAAAACA
Found at i:1862512 original size:61 final size:60
Alignment explanation
Indices: 1862441--1862587 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 60
1862431 GCTTTTATAC
* * *
1862441 AAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAT-GTTTTTCTTGATAATTTTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTCTTGA-AA-TTTTAATTTT
* * * * * *
1862502 AAGGGAAATTGGTACTTCCAACTTTTTCTCAAAAATATTTTTTTTTGAAATTTTAATTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTCTTGAAATTTTAATTTT
* * *
1862562 AAGAAAAATTGATATTTTTAACTTTT
1 AAGGAAAATTGATACTTTCAACTTTT
1862588 TTTCAAAATG
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
60 29 0.41
61 32 0.46
62 9 0.13
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.49
Consensus pattern (60 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTCTTGAAATTTTAATTTT
Found at i:1862585 original size:60 final size:61
Alignment explanation
Indices: 1862445--1862595 Score: 162
Period size: 60 Copynumber: 2.5 Consensus size: 61
1862435 TTATACAAGG
* * * * *
1862445 AAAATTGATACTTTCAACTTTTCCTTAAAGATGTTTTTCTTGATAATTTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATGTTTTTCTTGATAATTTTTAATTTTAAGA
* * * * *
1862506 GAAATTGGTACTTCCAACTTTTTCTCAAAAATATTTTTTTTTGA-AA-TTTTAATTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAT-GTTTTTCTTGATAATTTTTAATTTTAAGA
* * *
1862566 AAAATTGATATTTTTAACTTTTTTTCAAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAA
1862596 TGCTTTTGAA
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
60 36 0.49
61 28 0.38
62 9 0.12
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATGTTTTTCTTGATAATTTTTAATTTTAAGA
Found at i:1862687 original size:56 final size:57
Alignment explanation
Indices: 1862614--1862787 Score: 192
Period size: 56 Copynumber: 3.0 Consensus size: 57
1862604 AAAATTTTTA
*
1862614 TTTTAGAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTCTTCCTTTAAAAATTT
1 TTTTA-AAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTTTAAAAATTT
* * * * *
1862672 TTTT-AAGTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAGAAATATTTTTT
1 TTTTAAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTTTA-AAA-A---TTT
*
1862733 TTTTGAAAATTTTATTTTTATGAAAAATTGATACTTTT-AACTTTTCC-TTAAAAAT
1 TTTT-AAAATTTTATTTTTAAGAAAAATTGATA-TTTTCAACTTTTCCTTTAAAAAT
1862788 ATATATTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
56 39 0.41
57 4 0.04
58 5 0.05
60 1 0.01
61 10 0.10
62 2 0.02
63 32 0.33
64 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (57 bp):
TTTTAAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTTTAAAAATTT
Found at i:1862742 original size:17 final size:17
Alignment explanation
Indices: 1862721--1862758 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
1862711 TTTTTCTTAA
1862721 GAAATATTTT-TTTTT-T
1 GAAA-ATTTTATTTTTAT
1862737 GAAAATTTTATTTTTAT
1 GAAAATTTTATTTTTAT
1862754 GAAAA
1 GAAAA
1862759 ATTGATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (17 bp):
GAAAATTTTATTTTTAT
Found at i:1862749 original size:63 final size:60
Alignment explanation
Indices: 1862604--1862786 Score: 221
Period size: 63 Copynumber: 3.0 Consensus size: 60
1862594 AATGCTTTTG
* * * *
1862604 AAAATTTTTATTTTAGAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTCTTCCTTTA
1 AAAATTTTTTTTTTA-AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAA
* * *
1862665 AAAA---TTTTTTT-AAGTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTTAA
1 AAAATTTTTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAA
* *
1862721 GAAATATTTTTTTTTTGAAAATTTTATTTTTATGAAAAATTGATACTTTTAACTTTTCCTTAA
1 -AAA-ATTTTTTTTTT-AAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAA
1862784 AAA
1 AAA
1862787 TATATATTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
56 39 0.38
57 3 0.03
58 7 0.07
61 11 0.11
62 3 0.03
63 40 0.39
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (60 bp):
AAAATTTTTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAA
Found at i:1864020 original size:42 final size:42
Alignment explanation
Indices: 1863931--1864070 Score: 187
Period size: 41 Copynumber: 3.4 Consensus size: 42
1863921 ATTTTTTGAA
* * * *
1863931 AAAAAATAACAAAGCTCCTCTAAACAGAGGCACAACAACTTTG
1 AAAAAATAA-AATGCTCCTATAAACAGAGGCTCCACAACTTTG
*
1863974 -AAAAATAAAATGCTCCTATAAACAGAAGCTCCACAACTTTG
1 AAAAAATAAAATGCTCCTATAAACAGAGGCTCCACAACTTTG
*
1864015 AAAAAAT-AAATGCTCCTTTAAACAGAGGCTCCACAACTTT-
1 AAAAAATAAAATGCTCCTATAAACAGAGGCTCCACAACTTTG
*
1864055 AAAAAATAAATTGCTC
1 AAAAAATAAAATGCTC
1864071 ATCGATAATC
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 7 0.08
41 66 0.76
42 14 0.16
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.21
Consensus pattern (42 bp):
AAAAAATAAAATGCTCCTATAAACAGAGGCTCCACAACTTTG
Found at i:1864285 original size:15 final size:16
Alignment explanation
Indices: 1864255--1864289 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1864245 TTTTAGGTAC
1864255 GCAAGAATTCAAATTT
1 GCAAGAATTCAAATTT
*
1864271 GCAAG-ATTCACATTT
1 GCAAGAATTCAAATTT
1864286 GCAA
1 GCAA
1864290 ATTGCAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (16 bp):
GCAAGAATTCAAATTT
Found at i:1864630 original size:114 final size:114
Alignment explanation
Indices: 1864347--1864863 Score: 797
Period size: 114 Copynumber: 4.5 Consensus size: 114
1864337 ACATCCCAAA
* * * * *
1864347 AGTTTAAAGTTTTTCATTTGAATTTTGAAGGTTCACATTCAAAAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTTTGAAGGTTCACATCCAAGAAATCTTAGAGTTTCACATCTA
* *
1864412 AGTTCAAAGGTTCTTACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
66 AGTTCAAATGTTCTCACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
* * *
1864461 AGTTCAAAG-TTTTCGTTTGAATTTTAAAAGTTCACATCCAAGAAATCTTAGAGTTTCGCATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTTTGAAGGTTCACATCCAAGAAATCTTAGAGTTTCACATCTA
* * * *
1864525 AGTTCAAATGTTCTCACTCAAAAATTTAGAGATTCACCTCCAAAAGTTA
66 AGTTCAAATGTTCTCACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
**
1864574 AGTTCAAAGCTTTTCGTTTGAATTTTGAAGGTTCACATTTAAGAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTTTGAAGGTTCACATCCAAGAAATCTTAGAGTTTCACATCTA
* *
1864639 AGTTC-AATGGTTCTCACTAAAAAATTTAGAGATTCGCCTTCAAAAGTTG
66 AGTTCAAAT-GTTCTCACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
* *
1864688 AGTTCAAAGCTTTTCGTTTGAATTTT-AGAGATTCACATCTAAGAAATCTTAGAGTTTCACATCT
1 AGTTCAAAGCTTTTCGTTTGAATTTTGA-AGGTTCACATCCAAGAAATCTTAGAGTTTCACATCT
1864752 AAGTTCAAATGTTCTCACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
65 AAGTTCAAATGTTCTCACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
* *
1864802 AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACAT
1 AGTTCAAAGCTTTTCGTTTGAATTTTGAAGGTTCACATCCAAGAAATCTTAGAGTTTCACAT
1864864 TCAAAGATTC
Statistics
Matches: 370, Mismatches: 28, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
113 105 0.28
114 262 0.71
115 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (114 bp):
AGTTCAAAGCTTTTCGTTTGAATTTTGAAGGTTCACATCCAAGAAATCTTAGAGTTTCACATCTA
AGTTCAAATGTTCTCACTAAAAAATTTAGAGATTCGCATCCAAAAGTTG
Found at i:1864926 original size:58 final size:58
Alignment explanation
Indices: 1864830--1864939 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
1864820 TGAATTTTGG
*
1864830 AGATTCACATCCAAGAAATCTTAGAGTTTCACATTCAAAGATTCTCATTTGAATTCGA
1 AGATTCACATCCAAGAAATCTTAGAGTTTCACACTCAAAGATTCTCATTTGAATTCGA
* * * * *
1864888 AGATTCACATTCGATAAAT-TTTGAGTTTCACACCTCAAAGATTCTTATTTGA
1 AGATTCACATCCAAGAAATCTTAGAGTTTCACA-CTCAAAGATTCTCATTTGA
1864940 CACTTAAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 12 0.27
58 33 0.73
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (58 bp):
AGATTCACATCCAAGAAATCTTAGAGTTTCACACTCAAAGATTCTCATTTGAATTCGA
Found at i:1865006 original size:46 final size:46
Alignment explanation
Indices: 1864942--1865077 Score: 191
Period size: 46 Copynumber: 3.0 Consensus size: 46
1864932 TTATTTGACA
* *
1864942 CTTAAAGATTTTCATTTAAGATTCAGAGATTCTCATTTGAAGATCT
1 CTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTGAAAATCT
* * * * *
1864988 CTTACAGATTTTAATTTAAGACTCAAAGATTGTCATTTGAAAATGT
1 CTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTGAAAATCT
* *
1865034 CTTAAAGATTCTCATTTAAAATTCAAAGATTCTCATTTGAAAAT
1 CTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTGAAAAT
1865078 TTAGGACTTC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (46 bp):
CTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTGAAAATCT
Found at i:1865040 original size:25 final size:22
Alignment explanation
Indices: 1864922--1865078 Score: 115
Period size: 21 Copynumber: 7.0 Consensus size: 22
1864912 GTTTCACACC
* * *
1864922 TCAAAGATTCTTATTTGACACT
1 TCAAAGATTCTCATTTGAAAAT
* *
1864944 T-AAAGATTTTCATTT-AAGAT
1 TCAAAGATTCTCATTTGAAAAT
* *
1864964 TCAGAGATTCTCATTTGAAGAT
1 TCAAAGATTCTCATTTGAAAAT
* * * * *
1864986 CTCTTACAGATTTTAATTT-AAGAC
1 -TC--AAAGATTCTCATTTGAAAAT
*
1865010 TCAAAGATTGTCATTTGAAAAT
1 TCAAAGATTCTCATTTGAAAAT
1865032 GTCTTAAAGATTCTCATTT-AAAAT
1 -TC--AAAGATTCTCATTTGAAAAT
1865056 TCAAAGATTCTCATTTGAAAAT
1 TCAAAGATTCTCATTTGAAAAT
1865078 T
1 T
1865079 TAGGACTTCA
Statistics
Matches: 108, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.03
21 49 0.45
22 15 0.14
23 8 0.07
24 9 0.08
25 24 0.22
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAAAT
Found at i:1866286 original size:12 final size:11
Alignment explanation
Indices: 1866267--1866317 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
1866257 TAATTTGAAT
1866267 ATTTTTTTTTC
1 ATTTTTTTTTC
1866278 ATCTTTTTTTTC
1 AT-TTTTTTTTC
1866290 ATTTTCTTTTT-
1 ATTTT-TTTTTC
1866301 -TTTTTCTTTT-
1 ATTTTT-TTTTC
1866311 ATTTTTT
1 ATTTTTT
1866318 CATCCATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.03
10 9 0.25
11 10 0.28
12 16 0.44
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:1866326 original size:33 final size:34
Alignment explanation
Indices: 1866289--1866356 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
1866279 TCTTTTTTTT
** *
1866289 CATTTTCTTTTTTTTTTCTTTTA-TTTTTTCATC
1 CATTTTCCCTTTTTTTTCTCTTACTTTTTTCATC
1866322 CATTTTCCCTTTTTTTTCTCTTACCTTTTTTCATC
1 CATTTTCCCTTTTTTTTCTCTTA-CTTTTTTCATC
1866357 TTTTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 20 0.67
35 10 0.33
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (34 bp):
CATTTTCCCTTTTTTTTCTCTTACTTTTTTCATC
Found at i:1870148 original size:15 final size:15
Alignment explanation
Indices: 1870113--1870145 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1870103 CTCAAAATGC
*
1870113 TTTTGAAAATTTTGA
1 TTTTAAAAATTTTGA
1870128 TTTTAAAAATTTT-A
1 TTTTAAAAATTTTGA
1870142 TTTT
1 TTTT
1870146 TAAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTAAAAATTTTGA
Found at i:1870277 original size:61 final size:59
Alignment explanation
Indices: 1870118--1870318 Score: 226
Period size: 60 Copynumber: 3.3 Consensus size: 59
1870108 AATGCTTTTG
* * * *
1870118 AAAATTTTGATTTTAAAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTTTA
1 AAAATTTT-TTTTTTAAAATTTTATTTTTAAAGAAAATTGATACTTTCAAC-TTTTCCTTA
* * * *
1870179 AAAATATTTTTCTTT-AAGTTTTATTTTT-AAGAAAAATTGGTACTTTCAACTTATCCTTA
1 AAAAT-TTTTTTTTTAAAATTTTATTTTTAAAG-AAAATTGATACTTTCAACTTTTCCTTA
*
1870238 AGAAATTTCTTTTTTTAAAATTTTATTTTTAAAGAAAATTGATACTTTTAACTTTTCCTTA
1 A-AAATTT-TTTTTTTAAAATTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTTA
* *
1870299 AAAATATATTTTTTTGAAAT
1 AAAAT-TTTTTTTTTAAAAT
1870319 GTTTTTCTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
59 12 0.10
60 54 0.46
61 46 0.39
62 6 0.05
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (59 bp):
AAAATTTTTTTTTTAAAATTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTTA
Found at i:1873462 original size:16 final size:16
Alignment explanation
Indices: 1873441--1873476 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1873431 TATTAATTAT
1873441 TAAAAAAATAAGAAAA
1 TAAAAAAATAAGAAAA
*
1873457 TAAAAAACTAAGAAAA
1 TAAAAAAATAAGAAAA
1873473 -AAAA
1 TAAAA
1873477 TAAAAAGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.11
Consensus pattern (16 bp):
TAAAAAAATAAGAAAA
Found at i:1874155 original size:15 final size:15
Alignment explanation
Indices: 1874132--1874161 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1874122 ATTTTTTTTT
1874132 TGAAACAAAAAAGAA
1 TGAAACAAAAAAGAA
*
1874147 TGAACCAAAAAAGAA
1 TGAAACAAAAAAGAA
1874162 ATCTTTAGTT
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:0.70, C:0.10, G:0.13, T:0.07
Consensus pattern (15 bp):
TGAAACAAAAAAGAA
Found at i:1874527 original size:26 final size:25
Alignment explanation
Indices: 1874467--1874527 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
1874457 GTAAAAAATT
1874467 TTTTTTTAATTTTTTAATTTTATATA
1 TTTTTTT-ATTTTTTAATTTTATATA
* * *
1874493 TATTATTATTTTTGTTATTTTA-AGTA
1 TTTTTTTATTTTT-TAATTTTATA-TA
1874519 TTTTTTTAT
1 TTTTTTTAT
1874528 ATTAATGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTTTTATTTTTTAATTTTATATA
Found at i:1874993 original size:21 final size:21
Alignment explanation
Indices: 1874968--1875008 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1874958 CCAAACCCTA
1874968 AAACCCTCAAAACTT-AAATCC
1 AAACCCTCAAAA-TTCAAATCC
*
1874989 AAACCCTTAAAATTCAAATC
1 AAACCCTCAAAATTCAAATC
1875009 TTCAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTCAAAATTCAAATCC
Found at i:1876840 original size:21 final size:21
Alignment explanation
Indices: 1876808--1876847 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1876798 GTCCTAGTTC
1876808 TTTTGTTTTTCAT-TTTTAAA
1 TTTTGTTTTTCATATTTTAAA
*
1876828 TTTTTTTTCTTCATATTTTA
1 TTTTGTTT-TTCATATTTTA
1876848 TTTCATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTGTTTTTCATATTTTAAA
Found at i:1881525 original size:12 final size:11
Alignment explanation
Indices: 1881508--1881555 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
1881498 GATGGGGCAT
1881508 AAAAAAATAACA
1 AAAAAAATAA-A
*
1881520 AAAAAAGTAAA
1 AAAAAAATAAA
*
1881531 AAAAAAAAAAA
1 AAAAAAATAAA
1881542 GAAAAAAATAAA
1 -AAAAAAATAAA
1881554 AA
1 AA
1881556 GGATATATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 12 0.39
12 19 0.61
ACGTcount: A:0.88, C:0.02, G:0.04, T:0.06
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:1881540 original size:16 final size:16
Alignment explanation
Indices: 1881519--1881555 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1881509 AAAAAATAAC
1881519 AAAAAAAGTAAAAAAA-
1 AAAAAAAG-AAAAAAAT
1881535 AAAAAAAGAAAAAAAT
1 AAAAAAAGAAAAAAAT
1881551 AAAAA
1 AAAAA
1881556 GGATATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.89, C:0.00, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAT
Found at i:1883258 original size:41 final size:41
Alignment explanation
Indices: 1883212--1883308 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
1883202 TTCAAGTATA
* *
1883212 TGTTTAAGAGGAACC-GTTCTTAATCAAGATTTCAAAGCCTC
1 TGTTTAAGAGGAACCAATT-TCAATCAAGATTTCAAAGCCTC
1883253 TGTTTAAGAGGAACCAATTTCAATCAAGATTTCAAAGCCTC
1 TGTTTAAGAGGAACCAATTTCAATCAAGATTTCAAAGCCTC
1883294 TGTTT-AGAGGGAACC
1 TGTTTAAGA-GGAACC
1883309 TTCCTCAGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
40 3 0.06
41 47 0.90
42 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
TGTTTAAGAGGAACCAATTTCAATCAAGATTTCAAAGCCTC
Found at i:1883645 original size:150 final size:150
Alignment explanation
Indices: 1883367--1883646 Score: 377
Period size: 150 Copynumber: 1.9 Consensus size: 150
1883357 AGTCATGTTT
* * * *
1883367 TAAAAGATTTTTAAATTTTTAAAGTTTTATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
1 TAAAAGATTTTTAAATTTTTAAAGTTTCATTACCTCTGATTATGAGAAACATTCAAAGATTTTGA
* * * * *
1883432 GATTTGTAAGACCTCCGAGCATAACTTTCAAAACCTTCGAGCATAATCTCTAAAGCTTTCGGGCA
66 GATTTGTAAGACCTCAGAGCATAACTCTCAAAACCTTCGAGCACAATCTCTAAAGCCTCCGGGCA
1883497 CAACTTTCAAGATTTTTGGG
131 CAACTTTCAAGATTTTTGGG
1883517 TAAAAGATTTTTAAATTTTTAAAGTTTCATTACCTCTGATTATGAGAAACATTCAAAGATTTTGA
1 TAAAAGATTTTTAAATTTTTAAAGTTTCATTACCTCTGATTATGAGAAACATTCAAAGATTTTGA
* * * * * *
1883582 GATTTGTAAGACCTTCAG-GTATAA-TCTCTAATACTTTTGAGCACAA-CTTTCAAGACCTCCGG
66 GATTTGTAAGACC-TCAGAGCATAACTCTC-AAAACCTTCGAGCACAATCTCTAAAG-CCTCCGG
1883644 GCA
128 GCA
1883647 AAAGATTTTC
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
149 9 0.08
150 100 0.89
151 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (150 bp):
TAAAAGATTTTTAAATTTTTAAAGTTTCATTACCTCTGATTATGAGAAACATTCAAAGATTTTGA
GATTTGTAAGACCTCAGAGCATAACTCTCAAAACCTTCGAGCACAATCTCTAAAGCCTCCGGGCA
CAACTTTCAAGATTTTTGGG
Found at i:1883721 original size:131 final size:128
Alignment explanation
Indices: 1883472--1883794 Score: 362
Period size: 131 Copynumber: 2.5 Consensus size: 128
1883462 AAACCTTCGA
* ** ** * *
1883472 GCATAATCTCTAAAGCTTTCGGGCACAACTTTCAAGATTTTTGGGTAAAAGATTTTTAAATTTTT
1 GCATAATCTCTAAAGCTTTCGAGCACAACTTTCAAGACCTCCGGGCAAAAGATTTTAAAATTTTT
* * *
1883537 AAAGTTTCATTACCTCTGATTATGAGAAACATTCAAAGATTTTGAGATTTGTAAGACCTTCAG
66 AAAGTTTCATTACCTCTAATTACGAGAAACATTCAAAGATTTTGAGATTTGTAAGACCTCCAG
* *
1883600 GTATAATCTCTAATA-CTTTTGAGCACAACTTTCAAGACCTCCGGGCAAAAGATTTTCAAAATTT
1 GCATAATCTCTAA-AGCTTTCGAGCACAACTTTCAAGACCTCCGGGCAAAAGATTTT-AAAATTT
* * ***
1883664 TTAAAAAGTTTTATTACCTTTAATTACGAGAAGTGTTCAAAGATTTTGAGATTTGTAAGACCTCC
64 TT--AAAGTTTCATTACCTCTAATTACGAGAAACATTCAAAGATTTTGAGATTTGTAAGACCTCC
1883729 AG
127 AG
* * * * ** * *
1883731 GCGTAATCTCTAAAGCCTTCGGGCATAACTTTCAAGATTTTCGGGCAAAA-ATTTTTTAAATTTT
1 GCATAATCTCTAAAGCTTTCGAGCACAACTTTCAAGACCTCCGGGCAAAAGA-TTTTAAAATTTT
1883795 CAAAATTCAC
Statistics
Matches: 162, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
128 46 0.28
129 9 0.06
130 9 0.06
131 98 0.60
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (128 bp):
GCATAATCTCTAAAGCTTTCGAGCACAACTTTCAAGACCTCCGGGCAAAAGATTTTAAAATTTTT
AAAGTTTCATTACCTCTAATTACGAGAAACATTCAAAGATTTTGAGATTTGTAAGACCTCCAG
Found at i:1884034 original size:110 final size:110
Alignment explanation
Indices: 1883839--1884050 Score: 298
Period size: 110 Copynumber: 1.9 Consensus size: 110
1883829 AAATATGTGA
* *
1883839 TTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTACCCCGATGGATTTCTTATCTTTCGA
1 TTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTACCCCGATCGATTTCTTATCTTTCAA
* *
1883904 CTTGCGGTGTTATCCCAATCGATTCTGTAAGATCTCCAGGCATGG
66 CTAGCGGTGTTATCCCAATCGATTCTGTAAGACCTCCAGGCATGG
* * * * * * * *
1883949 TTTCTAAGACTTTCGGGCATAATTTCGATTCGTGGTGTTATCTCGATCGATTTTTTATTTTTTAA
1 TTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTACCCCGATCGATTTCTTATCTTTCAA
* *
1884014 CTAGTGGTGTTATCCGAATCGATTCTGTAAGACCTCC
66 CTAGCGGTGTTATCCCAATCGATTCTGTAAGACCTCC
1884051 GAGCATAATT
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (110 bp):
TTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTACCCCGATCGATTTCTTATCTTTCAA
CTAGCGGTGTTATCCCAATCGATTCTGTAAGACCTCCAGGCATGG
Found at i:1884113 original size:88 final size:88
Alignment explanation
Indices: 1883965--1884139 Score: 251
Period size: 88 Copynumber: 2.0 Consensus size: 88
1883955 AGACTTTCGG
* * * * * * * *
1883965 GCATAATTTCGATTCGTGGTGTTATCTCGATCGATTTTTTATTTTTTAACTAGTGGTGTTATCCG
1 GCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCAACTAGTGATGTTATCCC
1884030 AATCGATTCTGTAAGACCTCCGA
66 AATCGATTCTGTAAGACCTCCGA
* *
1884053 GCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTCGTGATGTTATCCC
1 GCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCAACTAGTGATGTTATCCC
*
1884118 AATCGATTCTGTAAGATCTCCG
66 AATCGATTCTGTAAGACCTCCG
1884140 GACATGATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (88 bp):
GCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCAACTAGTGATGTTATCCC
AATCGATTCTGTAAGACCTCCGA
Found at i:1884186 original size:110 final size:110
Alignment explanation
Indices: 1884041--1884248 Score: 335
Period size: 110 Copynumber: 1.9 Consensus size: 110
1884031 ATCGATTCTG
*
1884041 TAAGACCTCCGAGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTCG
1 TAAGACCTCCGAACATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTCG
* * *
1884106 TGATGTTATCCCAATCGATTCTGTAAGATCTCCGGACATGATTTT
66 CGATGTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTT
* * *
1884151 TAAGACCTCTGAACATAATTTTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCGACTCG
1 TAAGACCTCCGAACATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTCG
* *
1884216 CGATGTTATCCTAGTCAATTCTGTAAGACCTCC
66 CGATGTTATCCCAATCAATTCTGTAAGACCTCC
1884249 AGGTAAAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 89 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (110 bp):
TAAGACCTCCGAACATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTCG
CGATGTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTT
Found at i:1884188 original size:198 final size:195
Alignment explanation
Indices: 1883843--1884443 Score: 629
Period size: 198 Copynumber: 3.0 Consensus size: 195
1883833 ATGTGATTTC
* * *
1883843 TAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTACCCCGATGGATT-TCTTATCTTTCGACTT
1 TAAGACCTCCGAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCT-TTATCTTTCGAC-T
* * * **
1883907 GCGGTGTTATCCCAATCGATTCTGTAAGATCTCCAGG-CATGGTTTCTAAGACTTTCGGGCATAA
64 -CGGTGTTATCCCAATCGATTCTGTAAGATCTCC-GGACATGATTTTTAAGACCTT-GAACATAA
* * * * * * * * *
1883971 TTTCGATTCGTGGTGTTATCTCGATCGATTTTTTATTTTTTAACTAGTGGTGTTATCCGAATCGA
126 TTTTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCAACTAGCGATGTTATCCGAATCAA
1884036 TTCTG
191 TTCTG
*
1884041 TAAGACCTCCGAGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCGACTCG
1 TAAGACCTCCGAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCGACTCG
1884106 TGATGTTATCCCAATCGATTCTGTAAGATCTCCGGACATGATTTTTAAGACCTCTGAACATAATT
66 -G-TGTTATCCCAATCGATTCTGTAAGATCTCCGGACATGATTTTTAAGACCT-TGAACATAATT
* * * *
1884171 TTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCGACTCGCGATGTTATCCTAGTCAATT
128 TTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCAACTAGCGATGTTATCCGAATCAATT
1884236 CTG
193 CTG
* * * * * * *
1884239 TAAGACCTCC-AGGTAAAATTTTGATTCGTGGTATTATCCTGATCGATTCTTTATCTTTCAACTT
1 TAAGACCTCCGA-GCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCGAC-T
* * * * *
1884303 ACGGTGTTATCCCAATCGATTTTGTAAGACCTTC-AAGCATGATTTTTAAGACCTTCAAGCATAA
64 -CGGTGTTATCCCAATCGATTCTGTAAGATCTCCGGA-CATGATTTTTAAGACCTTGAA-CATAA
* * * ** ** * * *
1884367 TTTTGATTCGCGATATTATCACAAT-GATTCCTTATCTTTTGACTTGCGAT-TTATCCCAATCGA
126 TTTTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCAACTAGCGATGTTATCCGAATCAA
* *
1884430 TTTTA
191 TTCTG
1884435 TAAGACCTC
1 TAAGACCTC
1884444 AGGACATTAT
Statistics
Matches: 346, Mismatches: 47, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
196 24 0.07
197 30 0.09
198 286 0.83
199 4 0.01
200 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (195 bp):
TAAGACCTCCGAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTCGACTCG
GTGTTATCCCAATCGATTCTGTAAGATCTCCGGACATGATTTTTAAGACCTTGAACATAATTTTG
ATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCAACTAGCGATGTTATCCGAATCAATTCTG
Found at i:1884263 original size:88 final size:88
Alignment explanation
Indices: 1884167--1884334 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 88
1884157 CTCTGAACAT
* * * * * *
1884167 AATTTTGATTCGCGATGTTATCCCGATCGATTTTTTATCTTTCGACTCGCGATGTTATCCTAGTC
1 AATTTTGATTCGCGATATTATCCCGATCGATTCTTTATCTTTCAACTCACGATGTTATCCCAATC
1884232 AATTCTGTAAGACCTCCAGGTAA
66 AATTCTGTAAGACCTCCAGGTAA
* * * * *
1884255 AATTTTGATTCGTGGTATTATCCTGATCGATTCTTTATCTTTCAACTTACGGTGTTATCCCAATC
1 AATTTTGATTCGCGATATTATCCCGATCGATTCTTTATCTTTCAACTCACGATGTTATCCCAATC
* *
1884320 GATTTTGTAAGACCT
66 AATTCTGTAAGACCT
1884335 TCAAGCATGA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (88 bp):
AATTTTGATTCGCGATATTATCCCGATCGATTCTTTATCTTTCAACTCACGATGTTATCCCAATC
AATTCTGTAAGACCTCCAGGTAA
Found at i:1884348 original size:88 final size:88
Alignment explanation
Indices: 1884145--1884348 Score: 214
Period size: 88 Copynumber: 2.3 Consensus size: 88
1884135 CTCCGGACAT
* * *
1884145 GATTTT-TAAGACCTCTGAA-CATAATTTTGATTCGCGATGTTATCCCGATCGATTTTTTATCTT
1 GATTTTGTAAGACCT-TCAAGCATAATTTTGATTCGCGATATTATCCCGATCGATTCTTTATCTT
* * * *
1884208 TCGACTCGCGATGTTATCCTAGTC
65 TCAACTCACGATGTTATCCCAATC
* * * * * * * * *
1884232 AATTCTGTAAGACCTCCAGGTAAAATTTTGATTCGTGGTATTATCCTGATCGATTCTTTATCTTT
1 GATTTTGTAAGACCTTCAAGCATAATTTTGATTCGCGATATTATCCCGATCGATTCTTTATCTTT
* *
1884297 CAACTTACGGTGTTATCCCAATC
66 CAACTCACGATGTTATCCCAATC
*
1884320 GATTTTGTAAGACCTTCAAGCATGATTTT
1 GATTTTGTAAGACCTTCAAGCATAATTTT
1884349 TAAGACCTTC
Statistics
Matches: 90, Mismatches: 25, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
87 5 0.06
88 85 0.94
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (88 bp):
GATTTTGTAAGACCTTCAAGCATAATTTTGATTCGCGATATTATCCCGATCGATTCTTTATCTTT
CAACTCACGATGTTATCCCAATC
Found at i:1884354 original size:22 final size:23
Alignment explanation
Indices: 1884320--1884371 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
1884310 TATCCCAATC
1884320 GATTTTGTAAGACCTTCAAGCAT
1 GATTTTGTAAGACCTTCAAGCAT
1884343 GATTTT-TAAGACCTTCAAGCAT
1 GATTTTGTAAGACCTTCAAGCAT
*
1884365 AATTTTG
1 GATTTTG
1884372 ATTCGCGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (23 bp):
GATTTTGTAAGACCTTCAAGCAT
Found at i:1884568 original size:110 final size:109
Alignment explanation
Indices: 1884239--1884670 Score: 395
Period size: 110 Copynumber: 3.9 Consensus size: 109
1884229 GTCAATTCTG
* * ** **
1884239 TAAGACCTCCAGGTA-AAATTTTGATTCGTGGTATTATCCTGATCGATTCTTTATCTTTCAACTT
1 TAAGACCTCCAAGCATAAA-TTTGATTCACGGTATTATCCCAATCGATTC-TTATCTTTCAACTT
* * * ** *
1884303 ACGGTGTTATCCCAATCGATTTTGTAAGACCT-TCAAGCATGATTTT
64 ACGATGTTATCCCAATCGATTCTATAAGACCTCT-GGGCATGATTTC
* * * * * ** *
1884349 TAAGACCTTCAAGCATAATTTTGATTCGCGATATTATCACAAT-GATTCCTTATCTTTTGACTTG
1 TAAGACCTCCAAGCATAAATTTGATTCACGGTATTATCCCAATCGATT-CTTATCTTTCAACTTA
* * * *
1884413 CGAT-TTATCCCAATCGATTTTATAAGACCTCAGGACATTATTTC
65 CGATGTTATCCCAATCGATTCTATAAGACCTCTGGGCATGATTTC
** * * * **
1884457 TAAGACCTCCGGGCATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTGATTTTTTGACTTA
1 TAAGACCTCCAAGCATAAATTTGATTCACGGTATTATCCCAATCGATTCTT-ATCTTTCAACTTA
* * *
1884522 CGGTGTTGTCTCAATCGATTCTATAAGACCTCTGGGCATGATTTC
65 CGATGTTATCCCAATCGATTCTATAAGACCTCTGGGCATGATTTC
* ** * *
1884567 TAAGACCTCCGAGCATAAATTCAATTTACGGTATTATCCCAATCGATTTCTTATTTTTCAACTTA
1 TAAGACCTCCAAGCATAAATTTGATTCACGGTATTATCCCAATCGA-TTCTTATCTTTCAACTTA
* * * *
1884632 CGATATTATCCCAGTCGATTCTGTAAGACCTCCGGGCAT
65 CGATGTTATCCCAATCGATTCTATAAGACCTCTGGGCAT
1884671 AAATTCGATT
Statistics
Matches: 262, Mismatches: 53, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
108 69 0.26
109 37 0.14
110 149 0.57
111 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (109 bp):
TAAGACCTCCAAGCATAAATTTGATTCACGGTATTATCCCAATCGATTCTTATCTTTCAACTTAC
GATGTTATCCCAATCGATTCTATAAGACCTCTGGGCATGATTTC
Found at i:1885095 original size:19 final size:20
Alignment explanation
Indices: 1885063--1885101 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1885053 AATTAGTAAA
1885063 AAAAAGAAACAAAAAATAGG
1 AAAAAGAAACAAAAAATAGG
* *
1885083 AAAAA-AAATAAAAAGTAGG
1 AAAAAGAAACAAAAAATAGG
1885102 GTGGCCGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAAGAAACAAAAAATAGG
Found at i:1885414 original size:14 final size:13
Alignment explanation
Indices: 1885395--1885424 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1885385 ACCCATACTC
1885395 AAACAGAAACATAA
1 AAACAGAAACA-AA
1885409 AAACAGAAACAAA
1 AAACAGAAACAAA
1885422 AAA
1 AAA
1885425 TAAAGACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.13, G:0.07, T:0.03
Consensus pattern (13 bp):
AAACAGAAACAAA
Found at i:1885758 original size:15 final size:15
Alignment explanation
Indices: 1885735--1885764 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1885725 TTTTTTTTTT
1885735 TGAAACAAAAAAGAA
1 TGAAACAAAAAAGAA
*
1885750 TGAACCAAAAAAGAA
1 TGAAACAAAAAAGAA
1885765 ATCTTTAGTT
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:0.70, C:0.10, G:0.13, T:0.07
Consensus pattern (15 bp):
TGAAACAAAAAAGAA
Found at i:1886041 original size:9 final size:9
Alignment explanation
Indices: 1886027--1886070 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
1886017 GTAAAAAAAA
1886027 AATTTTTTT
1 AATTTTTTT
1886036 AATTTTTTT
1 AATTTTTTT
*
1886045 AAATTTTTAT
1 -AATTTTTTT
1886055 ATATTTTTTT
1 A-ATTTTTTT
*
1886065 TATTTT
1 AATTTT
1886071 AAGTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
AATTTTTTT
Found at i:1890482 original size:15 final size:17
Alignment explanation
Indices: 1890445--1890480 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1890435 ATACAAAGAT
*
1890445 AAAATATTATAAAATAA
1 AAAATATAATAAAATAA
1890462 AAAATATAAT-AAATAA
1 AAAATATAATAAAATAA
1890478 AAA
1 AAA
1890481 TAATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATATAATAAAATAA
Found at i:1899096 original size:13 final size:13
Alignment explanation
Indices: 1899080--1899106 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1899070 TAGATTTTGT
1899080 TTTATTATTTTTA
1 TTTATTATTTTTA
1899093 TTTATTATTTTTA
1 TTTATTATTTTTA
1899106 T
1 T
1899107 CAGGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTATTTTTA
Found at i:1901017 original size:30 final size:30
Alignment explanation
Indices: 1900912--1901017 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 30
1900902 TATAATATTA
* ** * *
1900912 TTATATCTAAATAAACCATTCACATTTAAT
1 TTATATTTAAATAAATAATTAACTTTTAAT
*
1900942 TTGA-ATTTAAATAAA-ATTTTAA-TCTTTAAT
1 TT-ATATTTAAATAAATA-ATTAACT-TTTAAT
1900972 TTATATTTAAATAAATAATTAACTTTTAAT
1 TTATATTTAAATAAATAATTAACTTTTAAT
1901002 TTATATTTAAATAAAT
1 TTATATTTAAATAAAT
1901018 TTCTAACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
29 1 0.02
30 60 0.94
31 3 0.05
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (30 bp):
TTATATTTAAATAAATAATTAACTTTTAAT
Found at i:1903936 original size:18 final size:19
Alignment explanation
Indices: 1903904--1903941 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1903894 TTCAAGAATT
1903904 ATAAAAAACATTTTT-TTC
1 ATAAAAAACATTTTTCTTC
1903922 ATAAAAAA-ATATTTTCTTC
1 ATAAAAAACAT-TTTTCTTC
1903941 A
1 A
1903942 ATTCATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 12 0.67
19 4 0.22
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAAAAACATTTTTCTTC
Found at i:1917224 original size:2 final size:2
Alignment explanation
Indices: 1917217--1917249 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1917207 TCTTTTGATC
1917217 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1917250 CATCGTTGCA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1920232 original size:3 final size:3
Alignment explanation
Indices: 1920224--1920258 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1920214 CTCTTCATGC
* *
1920224 TCT TCT TCT TCT TCT TCT TCC TCT TCT ACT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1920259 AGCATCCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:1927588 original size:52 final size:52
Alignment explanation
Indices: 1927502--1927658 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 52
1927492 TATAACCATA
* * * * * *
1927502 CAAACCTGCCCATTAAGAATCCCTCTCCTCTTAGAATTTTTTTCCT-GTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCT-CTGGTAAGT
*
1927554 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTGGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTGGTAAGT
* * * *
1927606 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTGGAATTCTTCTTTTGTAAGT
1 CAAACTTGCCTATTAAGAATC-TCTTTCCTCTTAGAATTCTTCTCTGGTAAGT
1927658 C
1 C
1927659 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.92
53 5 0.05
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTGGTAAGT
Found at i:1927701 original size:11 final size:11
Alignment explanation
Indices: 1927685--1927724 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
1927675 AATATCTGAT
1927685 AAATCTCAAAC
1 AAATCTCAAAC
*
1927696 AAATCTCTAAC
1 AAATCTCAAAC
1927707 AAATCTCAAAC
1 AAATCTCAAAC
1927718 AAATCTC
1 AAATCTC
1927725 TTATGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:1928019 original size:24 final size:25
Alignment explanation
Indices: 1927926--1928004 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
1927916 TAAGCTTACT
*
1927926 TCTTCCCATATCTCAAAC---CAAGC
1 TCTTCCCACATCTCAAACTTTC-AGC
* * *
1927949 ACTTCTCACATCTTAAACCTTT-AGC
1 TCTTCCCACATCTCAAA-CTTTCAGC
1927974 TCTTCCCACATCTCAAACTTTCAGC
1 TCTTCCCACATCTCAAACTTTCAGC
1927999 TCTTCC
1 TCTTCC
1928005 ATGTCTCGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
23 13 0.30
24 5 0.11
25 26 0.59
ACGTcount: A:0.25, C:0.38, G:0.04, T:0.33
Consensus pattern (25 bp):
TCTTCCCACATCTCAAACTTTCAGC
Done.