Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 32
Found at i:3963530 original size:21 final size:21
Alignment explanation
Indices: 3963504--3963551 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
3963494 GCACCGGAAC
*
3963504 GGTTCCGATGAACCATAGACA
1 GGTTCCGATGAACCACAGACA
3963525 GGTTCCGATGAACCACAGACA
1 GGTTCCGATGAACCACAGACA
*
3963546 GATTCC
1 GGTTCC
3963552 AACGAACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (21 bp):
GGTTCCGATGAACCACAGACA
Found at i:3963558 original size:21 final size:21
Alignment explanation
Indices: 3963513--3963558 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
3963503 CGGTTCCGAT
* * * *
3963513 GAACCATAGACAGGTTCCGAT
1 GAACCACAGACAGATTCCAAC
3963534 GAACCACAGACAGATTCCAAC
1 GAACCACAGACAGATTCCAAC
3963555 GAAC
1 GAAC
3963559 TTTTGGATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.28, G:0.20, T:0.13
Consensus pattern (21 bp):
GAACCACAGACAGATTCCAAC
Found at i:3964039 original size:31 final size:31
Alignment explanation
Indices: 3964001--3964062 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
3963991 AACTCTTGAA
3964001 AAATAGGTAATTGATGCATTCTAATATATTT
1 AAATAGGTAATTGATGCATTCTAATATATTT
3964032 AAATAGGTAATTGATGCATTCTAATATATTT
1 AAATAGGTAATTGATGCATTCTAATATATTT
3964063 CTCAATTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (31 bp):
AAATAGGTAATTGATGCATTCTAATATATTT
Found at i:3964664 original size:2 final size:2
Alignment explanation
Indices: 3964657--3964682 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3964647 CCTTATCGTG
3964657 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
3964683 ACAAGTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3967526 original size:21 final size:21
Alignment explanation
Indices: 3967501--3967545 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
3967491 AAACAAAGTA
3967501 AAAGTAGGACTCTC-ATCGATT
1 AAAGTAGGACTCTCAAT-GATT
3967522 AAAGTAGGACTCTCAATGATT
1 AAAGTAGGACTCTCAATGATT
3967543 AAA
1 AAA
3967546 AGATCGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
AAAGTAGGACTCTCAATGATT
Found at i:3970927 original size:22 final size:20
Alignment explanation
Indices: 3970901--3970954 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
3970891 AATTTTTATT
*
3970901 TATTTTTAAAATTTCAAAAG
1 TATTTTTAAAATTTCAAAAA
* *
3970921 TATATTTTATCAATTTTAAAAA
1 TAT-TTTTA-AAATTTCAAAAA
3970943 TATTTTTAAAAT
1 TATTTTTAAAAT
3970955 ACAATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 12 0.43
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTTTTAAAATTTCAAAAA
Found at i:3971721 original size:19 final size:21
Alignment explanation
Indices: 3971684--3971722 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
3971674 TCGAAAATTA
3971684 GATAATAAAATTAACATTTTT
1 GATAATAAAATTAACATTTTT
*
3971705 GATAA-AAAA-TAATATTTT
1 GATAATAAAATTAACATTTT
3971723 AAATAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (21 bp):
GATAATAAAATTAACATTTTT
Found at i:3971728 original size:12 final size:12
Alignment explanation
Indices: 3971711--3971735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3971701 TTTTGATAAA
3971711 AAATAATATTTT
1 AAATAATATTTT
3971723 AAATAATATTTT
1 AAATAATATTTT
3971735 A
1 A
3971736 CCAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:3974376 original size:54 final size:54
Alignment explanation
Indices: 3974294--3974457 Score: 274
Period size: 54 Copynumber: 3.0 Consensus size: 54
3974284 ATCGATCCAT
* *
3974294 GATATCAATGATACATATATGATAGAAAAGTTGTACAGAATTTACCTTAAAGTA
1 GATATCAATGATACATATATGATAGAAAAGTTGTACATAATTTGCCTTAAAGTA
*
3974348 GATATCAATGATGCATATATGATAGAAAAGTTGTACATAATTTGCCTTAAAGTA
1 GATATCAATGATACATATATGATAGAAAAGTTGTACATAATTTGCCTTAAAGTA
* * *
3974402 GATATCAATGATACATATATGATAGAAAACTTATACATAATTTGCCTCAAAGTA
1 GATATCAATGATACATATATGATAGAAAAGTTGTACATAATTTGCCTTAAAGTA
3974456 GA
1 GA
3974458 AATAGTTCTA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (54 bp):
GATATCAATGATACATATATGATAGAAAAGTTGTACATAATTTGCCTTAAAGTA
Found at i:3976255 original size:16 final size:16
Alignment explanation
Indices: 3976234--3976283 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
3976224 TTACCCGACC
*
3976234 TGTTTTCAATCTGACA
1 TGTTTTCAACCTGACA
*
3976250 TGTTTTCAACCTGACC
1 TGTTTTCAACCTGACA
3976266 TGTTTT-AACCTGACA
1 TGTTTTCAACCTGACA
3976281 TGT
1 TGT
3976284 AAATGATCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:3976516 original size:24 final size:21
Alignment explanation
Indices: 3976456--3976516 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
3976446 AAATAGACCT
3976456 ATTATATAAAATTATTTAATAAA
1 ATTA-ATAAAA-TATTTAATAAA
* *
3976479 ATTAATAAATTATTTAAATGTAA
1 ATTAATAAAATATTT-AAT-AAA
3976502 ATTAGATAAAATATT
1 ATTA-ATAAAATATT
3976517 ATTAATAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 5 0.16
22 8 0.25
23 10 0.31
24 9 0.28
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
ATTAATAAAATATTTAATAAA
Found at i:3976568 original size:23 final size:24
Alignment explanation
Indices: 3976534--3976583 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
3976524 ATGCAAAGGA
3976534 AAATTAATATAGCTTAATTTATAT
1 AAATTAATATAGCTTAATTTATAT
*
3976558 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGCTTAATTTATAT
3976581 AAA
1 AAA
3976584 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTAATATAGCTTAATTTATAT
Found at i:3977100 original size:18 final size:17
Alignment explanation
Indices: 3977068--3977101 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3977058 TTACTTCTAA
*
3977068 ATTCTAAATTTTCCTAT
1 ATTCTAAAATTTCCTAT
3977085 ATTCTCAAAATTTCCTA
1 ATTCT-AAAATTTCCTA
3977102 ATTTCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTCTAAAATTTCCTAT
Found at i:3977187 original size:2 final size:2
Alignment explanation
Indices: 3977180--3977230 Score: 77
Period size: 2 Copynumber: 25.5 Consensus size: 2
3977170 ACTTTGAATA
*
3977180 AT AT AT AT AT AT AT AT AT A- AGT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
3977222 AT AT AT AT A
1 AT AT AT AT A
3977231 ATTAAACATA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.96
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3977675 original size:2 final size:2
Alignment explanation
Indices: 3977668--3977692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3977658 TATGTTTAAT
3977668 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 T
3977693 TATTCAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3977831 original size:19 final size:19
Alignment explanation
Indices: 3977761--3977835 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
3977751 TTGATTTTAT
3977761 TTGAGAATTTAGAGGGAAA
1 TTGAGAATTTAGAGGGAAA
*
3977780 TT-AGGAAATTTTGA--GAATA
1 TTGA-G-AATTTAGAGGGAA-A
* * *
3977799 TAGGGAAATTAGAGGGAAA
1 TTGAGAATTTAGAGGGAAA
3977818 TTGAGAATTTAGAGGGAA
1 TTGAGAATTTAGAGGGAA
3977836 TAGAAAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
18 10 0.24
19 22 0.52
20 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (19 bp):
TTGAGAATTTAGAGGGAAA
Found at i:3977844 original size:18 final size:19
Alignment explanation
Indices: 3977766--3977845 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 19
3977756 TTTATTTGAG
*
3977766 AATTTAGAGGGAAATTAGGA
1 AATTTAGAGGGAAA-TAGAA
* *
3977786 AATTTTGA--GAATATAGGGA
1 AATTTAGAGGGAA-ATA-GAA
* *
3977805 AA-TTAGAGGGAAATTGAG
1 AATTTAGAGGGAAATAGAA
3977823 AATTTAGAGGG-AATAGAA
1 AATTTAGAGGGAAATAGAA
3977841 AATTT
1 AATTT
3977846 GGGAAGTTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 22 0.46
19 16 0.33
20 10 0.21
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
AATTTAGAGGGAAATAGAA
Found at i:3978243 original size:2 final size:2
Alignment explanation
Indices: 3978174--3978234 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
3978164 ACACACACAC
* *
3978174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3978216 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
3978235 AACTATATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3978415 original size:15 final size:15
Alignment explanation
Indices: 3978395--3978430 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3978385 CTATATATTT
3978395 TATATAGTTTATACA
1 TATATAGTTTATACA
* *
3978410 TATATAGTTTTTATA
1 TATATAGTTTATACA
3978425 TATATA
1 TATATA
3978431 TATACACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:3978439 original size:2 final size:2
Alignment explanation
Indices: 3978434--3978458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3978424 ATATATATAT
3978434 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 A
3978459 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3978570 original size:2 final size:2
Alignment explanation
Indices: 3978458--3978555 Score: 166
Period size: 2 Copynumber: 50.0 Consensus size: 2
3978448 ACACACACAC
3978458 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
3978500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
3978543 -T A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT
3978556 TTTATAAACT
Statistics
Matches: 92, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.03
2 87 0.95
3 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3978578 original size:18 final size:18
Alignment explanation
Indices: 3978555--3978597 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3978545 ATATATAATA
3978555 TTTTATAAACTATATACT
1 TTTTATAAACTATATACT
***
3978573 TTTTATAGTTTATATACT
1 TTTTATAAACTATATACT
3978591 TTTTATA
1 TTTTATA
3978598 GTTTATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTATAAACTATATACT
Found at i:3978598 original size:18 final size:18
Alignment explanation
Indices: 3978565--3978604 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3978555 TTTTATAAAC
3978565 TATATACTTTTTATAGTT
1 TATATACTTTTTATAGTT
3978583 TATATACTTTTTATAGTT
1 TATATACTTTTTATAGTT
3978601 TATA
1 TATA
3978605 CATATATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TATATACTTTTTATAGTT
Found at i:3978626 original size:13 final size:13
Alignment explanation
Indices: 3978594--3978771 Score: 99
Period size: 13 Copynumber: 12.8 Consensus size: 13
3978584 ATATACTTTT
3978594 TATAGTTTATACATA
1 TATAGTTTAT--ATA
3978609 TATAGTTTATATA
1 TATAGTTTATATA
*
3978622 CATAGTTTATATA
1 TATAGTTTATATA
* *
3978635 TATAGTTCACATAAA
1 TATAGTT--TATATA
* *
3978650 CATAATTTATATA
1 TATAGTTTATATA
3978663 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-A-TA
3978681 TATAGTTTATA-A
1 TATAGTTTATATA
** *
3978693 TATA-AATATAGTT
1 TATAGTTTATA-TA
*
3978706 TATAATTTTATATA
1 TAT-AGTTTATATA
* *
3978720 CATAGTTGATATA
1 TATAGTTTATATA
* *
3978733 TATAGTTCACATAAA
1 TATAGTT--TATATA
*
3978748 TATAATTTATATA
1 TATAGTTTATATA
3978761 TATAGTTTATA
1 TATAGTTTATA
3978772 ACAATTATAT
Statistics
Matches: 124, Mismatches: 26, Indels: 28
0.70 0.15 0.16
Matches are distributed among these distances:
11 4 0.03
12 5 0.04
13 59 0.48
14 7 0.06
15 36 0.29
16 3 0.02
17 3 0.02
18 7 0.06
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:3978652 original size:28 final size:26
Alignment explanation
Indices: 3978595--3978772 Score: 90
Period size: 28 Copynumber: 6.9 Consensus size: 26
3978585 TATACTTTTT
* *
3978595 ATAGTTTATACATATATAGTTTATATAC
1 ATAGTTTAT--ATATATAGTTCATAAAC
3978623 ATAGTTTATATATATAGTTCACATAAAC
1 ATAGTTTATATATATAGTT--CATAAAC
*
3978651 ATAATTTATATATATAGCTT-ATAATA-
1 ATAGTTTATATATATAG-TTCATAA-AC
* * * *
3978677 AT--TATATAGTTTATA-AT-ATAAAT
1 ATAGTTTATA-TATATAGTTCATAAAC
*
3978700 ATAGTTTATA-AT-T--TT-ATATAC
1 ATAGTTTATATATATAGTTCATAAAC
* *
3978721 ATAGTTGATATATATAGTTCACATAAAT
1 ATAGTTTATATATATAGTT--CATAAAC
* *
3978749 ATAATTTATATATATAGTTTATAA
1 ATAGTTTATATATATAGTTCATAA
3978773 CAATTATATA
Statistics
Matches: 118, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
21 14 0.12
22 4 0.03
23 9 0.08
24 5 0.04
25 12 0.10
26 20 0.17
27 1 0.01
28 51 0.43
29 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (26 bp):
ATAGTTTATATATATAGTTCATAAAC
Found at i:3978701 original size:18 final size:18
Alignment explanation
Indices: 3978657--3978811 Score: 102
Period size: 18 Copynumber: 8.2 Consensus size: 18
3978647 AAACATAATT
*
3978657 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
3978675 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
3978693 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
* *
3978711 TTTTATATACATAGTTGATATA
1 ---TATATATATAGTTTATA-A
* **
3978733 TATAGTTCACATA-AATATAA
1 TATA--T-ATATAGTTTATAA
3978753 TTTATATATATAGTTTATAA
1 --TATATATATAGTTTATAA
*
3978773 CA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
3978791 TATAAATATAGTTTAT-A
1 TATATATATAGTTTATAA
3978808 TATA
1 TATA
3978812 ATTTTATATT
Statistics
Matches: 109, Mismatches: 14, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
17 7 0.06
18 57 0.52
19 10 0.09
20 7 0.06
21 18 0.17
22 10 0.09
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:3978734 original size:98 final size:98
Alignment explanation
Indices: 3978614--3978807 Score: 352
Period size: 98 Copynumber: 2.0 Consensus size: 98
3978604 ACATATATAG
* *
3978614 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATAAT
1 TTTATATACATAGTTGATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAACAAT
3978679 TATATAGTTTATAATATAAATATAGTTTATAAT
66 TATATAGTTTATAATATAAATATAGTTTATAAT
* *
3978712 TTTATATACATAGTTGATATATATAGTTCACATAAATATAATTTATATATATAGTTTATAACAAT
1 TTTATATACATAGTTGATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAACAAT
3978777 TATATAGTTTATAATATAAATATAGTTTATA
66 TATATAGTTTATAATATAAATATAGTTTATA
3978808 TATAATTTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (98 bp):
TTTATATACATAGTTGATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAACAAT
TATATAGTTTATAATATAAATATAGTTTATAAT
Found at i:3978830 original size:36 final size:36
Alignment explanation
Indices: 3978755--3978835 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
3978745 AAATATAATT
3978755 TATATATATAGTTTATAACAATTATATAGTTTATAA
1 TATATATATAGTTTATAACAATTATATAGTTTATAA
* * *
3978791 TATAAATATAGTTTATATATAATTTTATA--TTATATA
1 TATATATATAGTTTATA-ACAATTATATAGTTTATA-A
3978827 TATATATAT
1 TATATATAT
3978836 TATATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 5 0.13
36 25 0.64
37 9 0.23
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATATATATAGTTTATAACAATTATATAGTTTATAA
Found at i:3978840 original size:30 final size:30
Alignment explanation
Indices: 3978775--3978840 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
3978765 GTTTATAACA
*
3978775 ATTATATAGTTTATAATATAAATATAGTTT
1 ATTATATAGTTTATAATATAAATATAGTAT
* * *
3978805 A-TATATAATTTTATATTATATATATA-TAT
1 ATTATAT-AGTTTATAATATAAATATAGTAT
3978834 ATTATAT
1 ATTATAT
3978841 TTTTTCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTATATAGTTTATAATATAAATATAGTAT
Found at i:3981255 original size:40 final size:40
Alignment explanation
Indices: 3981195--3981273 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
3981185 TGCAATTTTT
3981195 TTATCTGGTATAAAACCCCATTGAATTCACATTCACATAA
1 TTATCTGGTATAAAACCCCATTGAATTCACATTCACATAA
* *
3981235 TTATTTGGTATAATACCCCATTGAATTCACATTCACATA
1 TTATCTGGTATAAAACCCCATTGAATTCACATTCACATA
3981274 CTGTTATTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (40 bp):
TTATCTGGTATAAAACCCCATTGAATTCACATTCACATAA
Found at i:3990500 original size:32 final size:31
Alignment explanation
Indices: 3990448--3990508 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
3990438 AATTACATTC
3990448 TAAACCCCAAATCCAAAATACTTCAATTATA
1 TAAACCCCAAATCCAAAATACTTCAATTATA
*
3990479 TAAACCTCAAATTCCAAAATACTTCAATTA
1 TAAACCCCAAA-TCCAAAATACTTCAATTA
3990509 CATGTCCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.28
Consensus pattern (31 bp):
TAAACCCCAAATCCAAAATACTTCAATTATA
Found at i:3991197 original size:148 final size:148
Alignment explanation
Indices: 3991004--3991296 Score: 460
Period size: 148 Copynumber: 2.0 Consensus size: 148
3990994 AAACTATTTA
* * * *
3991004 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATGATTAAATTTAAACATAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
* *
3991069 AATTTAATTCAATTTGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCAAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCAAGTCAACT
3991134 ATTTTATAAACTGAACTG
131 ATTTTATAAACTGAACTG
*
3991152 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAAGAGAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
* * ** * *
3991217 AATTCAATTCAATTCGATTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTTGATTCAAGT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCAAGTCAACT
*
3991282 ATTTTATAAATTGAA
131 ATTTTATAAACTGAA
3991297 TTAAATATTT
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 131 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCAAGTCAACT
ATTTTATAAACTGAACTG
Found at i:4000062 original size:21 final size:18
Alignment explanation
Indices: 4000025--4000063 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
4000015 TTGTAAGATA
4000025 ATTTTTTTAATATATTAT
1 ATTTTTTTAATATATTAT
4000043 ATTTATTTTATATATGATTAT
1 ATTT-TTTTA-ATAT-ATTAT
4000064 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 4 0.22
21 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTTTTAATATATTAT
Found at i:4001115 original size:18 final size:18
Alignment explanation
Indices: 4001088--4001126 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4001078 TTAAATGAAA
4001088 GGCGCAGATCACCTTACT
1 GGCGCAGATCACCTTACT
*
4001106 GGCGCGGATCACCTTACT
1 GGCGCAGATCACCTTACT
4001124 GGC
1 GGC
4001127 CCGTTTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (18 bp):
GGCGCAGATCACCTTACT
Found at i:4002655 original size:45 final size:46
Alignment explanation
Indices: 4002556--4002656 Score: 109
Period size: 45 Copynumber: 2.2 Consensus size: 46
4002546 ACATATTATC
* **
4002556 CTATGTGATTACATGAAAATGTGAAATAAGTTATGCAACATTGAGT
1 CTATGTGATTACATGAAAATATGAAATAAGTTATGCAACAGGGAGT
* * * *
4002602 -TATATGATTACTTGAAAATATGATATAAGTTATGTGAA-AGGGA-T
1 CTATGTGATTACATGAAAATATGAAATAAGTTATG-CAACAGGGAGT
4002646 CTATGTGATTA
1 CTATGTGATTA
4002657 TATGTCTATC
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
44 1 0.02
45 42 0.93
46 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.36
Consensus pattern (46 bp):
CTATGTGATTACATGAAAATATGAAATAAGTTATGCAACAGGGAGT
Found at i:4002784 original size:23 final size:23
Alignment explanation
Indices: 4002758--4002871 Score: 138
Period size: 23 Copynumber: 5.0 Consensus size: 23
4002748 GAGTCGAGGG
4002758 TTCTATGCGGTCCTTCGGGACAA
1 TTCTATGCGGTCCTTCGGGACAA
4002781 TTCTATGCGGTCCTTCGGGACAA
1 TTCTATGCGGTCCTTCGGGACAA
* * * *
4002804 TTCTACGTGGTCCTTCCGGACAT
1 TTCTATGCGGTCCTTCGGGACAA
* *
4002827 TTCTACGCAGTCCTTCGGGACAA
1 TTCTATGCGGTCCTTCGGGACAA
* ** *
4002850 TACTATATGGTCTTTCGGGACA
1 TTCTATGCGGTCCTTCGGGACA
4002872 TTTTTATGTG
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (23 bp):
TTCTATGCGGTCCTTCGGGACAA
Found at i:4003052 original size:30 final size:31
Alignment explanation
Indices: 4003017--4003075 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
4003007 GCATAATGTG
** *
4003017 ATATGTTCTTGTTGGTTAAAT-TATGATGAT
1 ATATGTTCTTGACGATTAAATATATGATGAT
4003047 ATATGTTCTTGACGATTAAATATATGATG
1 ATATGTTCTTGACGATTAAATATATGATG
4003076 TTTCCTATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.46
Consensus pattern (31 bp):
ATATGTTCTTGACGATTAAATATATGATGAT
Found at i:4008876 original size:43 final size:45
Alignment explanation
Indices: 4008795--4008881 Score: 124
Period size: 48 Copynumber: 1.9 Consensus size: 45
4008785 AATCTAATTA
4008795 ATCTCTAATCATTTTGTTCATTTCAGATGAAATAACACCTAACCATTT
1 ATCTCTAATCATTTTGTTCATTT---ATGAAATAACACCTAACCATTT
*
4008843 ATCTCTAATCATTTTGTTCATTT-TGACA-AACACCTAACC
1 ATCTCTAATCATTTTGTTCATTTATGAAATAACACCTAACC
4008882 GACTGTCCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
43 11 0.29
44 4 0.11
48 23 0.61
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (45 bp):
ATCTCTAATCATTTTGTTCATTTATGAAATAACACCTAACCATTT
Found at i:4009410 original size:24 final size:24
Alignment explanation
Indices: 4009383--4009439 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4009373 ATGAGGTGAA
4009383 AAACAAG-CTAAGAAATAAAGTTAT
1 AAACAAGTC-AAGAAATAAAGTTAT
* * * *
4009407 AAACGAGTCGATAAATAAATTTAT
1 AAACAAGTCAAGAAATAAAGTTAT
4009431 AAACAAGTC
1 AAACAAGTC
4009440 GATAATAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (24 bp):
AAACAAGTCAAGAAATAAAGTTAT
Found at i:4009453 original size:23 final size:24
Alignment explanation
Indices: 4009395--4009453 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
4009385 ACAAGCTAAG
* *
4009395 AAATAAAGTTATAAACGAGTCGAT
1 AAATAAACTTATAAACAAGTCGAT
*
4009419 AAATAAATTTATAAACAAGTCGAT
1 AAATAAACTTATAAACAAGTCGAT
4009443 -AATAAACTTAT
1 AAATAAACTTAT
4009454 TCATTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (24 bp):
AAATAAACTTATAAACAAGTCGAT
Found at i:4020342 original size:20 final size:20
Alignment explanation
Indices: 4020248--4020576 Score: 396
Period size: 20 Copynumber: 16.4 Consensus size: 20
4020238 GATTTTCCAT
* ** *
4020248 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
4020268 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
4020288 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4020308 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
4020328 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
4020348 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4020368 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4020388 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4020408 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4020428 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4020448 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
4020468 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4020488 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4020508 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4020528 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4020548 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4020568 AATCACAAC
1 AATCGCAAC
4020577 ACTTAAATTT
Statistics
Matches: 269, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.01
20 263 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:4021296 original size:24 final size:24
Alignment explanation
Indices: 4021257--4021303 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4021247 AAATTTGGTC
4021257 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4021281 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4021304 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:4021495 original size:12 final size:12
Alignment explanation
Indices: 4021478--4021502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4021468 ATATAATCCT
4021478 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4021490 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4021502 G
1 G
4021503 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4023875 original size:19 final size:19
Alignment explanation
Indices: 4023812--4024076 Score: 389
Period size: 19 Copynumber: 14.7 Consensus size: 19
4023802 AAATCCCAAC
4023812 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
4023832 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
4023847 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4023865 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
4023884 ATGAAAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAA
4023901 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
4023917 ATTAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4023936 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4023955 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4023974 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4023993 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4024012 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
4024029 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4024045 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
4024064 ATGAAAATCGCAA
1 ATGAAAATCGCAA
4024077 CGAGATAATC
Statistics
Matches: 224, Mismatches: 6, Indels: 31
0.86 0.02 0.12
Matches are distributed among these distances:
14 26 0.12
15 1 0.00
16 13 0.06
17 11 0.05
18 2 0.01
19 158 0.71
20 13 0.06
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:4024003 original size:128 final size:128
Alignment explanation
Indices: 4023812--4024098 Score: 459
Period size: 128 Copynumber: 2.3 Consensus size: 128
4023802 AAATCCCAAC
*
4023812 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAA
* *
4023872 TCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGAA
65 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
4023936 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
4024001 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
66 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
4024064 ATGAAAATCGCAA--CG--A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
4024099 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
123 34 0.22
124 17 0.11
125 2 0.01
126 2 0.01
127 1 0.01
128 98 0.64
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (128 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
Found at i:4024114 original size:52 final size:52
Alignment explanation
Indices: 4023785--4024098 Score: 321
Period size: 52 Copynumber: 5.9 Consensus size: 52
4023775 CGGAAAATAC
* *
4023785 AATCGCAACGCG-AATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
*
4023837 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
* *
4023889 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
4023941 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
4023998 AATCGCAATGCGAAATGAAAATCGCAACGA-AAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA-AATCGCAATGCGAAATGAA
*
4024050 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
4024099 TATAAACGCA
Statistics
Matches: 242, Mismatches: 6, Indels: 28
0.88 0.02 0.10
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 3 0.01
51 2 0.01
52 136 0.56
53 18 0.07
54 6 0.02
55 3 0.01
57 64 0.26
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:4024213 original size:19 final size:19
Alignment explanation
Indices: 4024105--4024205 Score: 158
Period size: 19 Copynumber: 5.6 Consensus size: 19
4024095 AAATTATAAA
4024105 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4024124 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
4024143 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
4024159 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4024176 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4024195 CGCATTGCGAT
1 CGCATTGCGAT
4024206 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 55 0.73
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:4024331 original size:14 final size:14
Alignment explanation
Indices: 4024312--4024348 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4024302 CATCAATTAC
4024312 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4024326 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4024340 ACAAATCAA
1 ACAAATCAA
4024349 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4026322 original size:14 final size:14
Alignment explanation
Indices: 4026303--4026359 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4026293 GTGAAATGAA
*
4026303 AATCGCAACGACAG
1 AATCGCAACGAAAG
4026317 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4026334 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4026350 AATCGCAACG
1 AATCGCAACG
4026360 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4026332 original size:33 final size:33
Alignment explanation
Indices: 4026284--4026376 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
4026274 GCGAAACCAA
* *
4026284 AATCGCAACGTGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
4026317 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
4026350 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4026377 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:4026341 original size:19 final size:19
Alignment explanation
Indices: 4026247--4026381 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
4026237 TAGTTTACTT
* *
4026247 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4026267 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
4026286 TCGCAACGTGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4026305 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4026319 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4026338 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4026352 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4026371 TCGCAATGCGA
1 TCGCAACGCGA
4026382 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 10 0.11
19 46 0.48
20 12 0.13
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4026399 original size:19 final size:19
Alignment explanation
Indices: 4026377--4026505 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4026367 AAAATCGCAA
4026377 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4026396 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4026410 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4026429 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4026443 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4026462 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4026481 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4026501 TGCGA
1 TGCGA
4026506 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4026419 original size:33 final size:33
Alignment explanation
Indices: 4026377--4026468 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4026367 AAAATCGCAA
4026377 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4026410 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4026443 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4026469 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4026861 original size:185 final size:185
Alignment explanation
Indices: 4026549--4027016 Score: 918
Period size: 185 Copynumber: 2.5 Consensus size: 185
4026539 TTGAATGGAT
4026549 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4026614 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4026679 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4026734 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4026799 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
4026864 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4026919 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4026984 AGTTTAGCAGAATTGGCAGCAACCGAATAAATT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATT
4027017 ACTAAGCAAT
Statistics
Matches: 281, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 281 1.00
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4027019 original size:92 final size:93
Alignment explanation
Indices: 4026549--4027016 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
4026539 TTGAATGGAT
4026549 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4026614 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4026642 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4026706 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4026734 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4026799 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
4026827 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4026891 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4026919 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4026984 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4027012 AAATT
1 AAATT
4027017 ACTAAGCAAT
Statistics
Matches: 370, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 183 0.49
93 187 0.51
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4028739 original size:14 final size:14
Alignment explanation
Indices: 4028720--4028809 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
4028710 TTGAAATGAA
4028720 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4028734 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
4028751 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
4028767 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4028786 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4028800 AATCGCAACG
1 AATCGCAACG
4028810 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4028757 original size:33 final size:33
Alignment explanation
Indices: 4028712--4028826 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
4028702 TCTTTTGGTT
4028712 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
4028745 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4028778 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4028811 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4028827 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4028758 original size:19 final size:18
Alignment explanation
Indices: 4028719--4028831 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
4028709 GTTGAAATGA
4028719 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
4028734 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
4028751 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
4028767 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
4028784 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
4028800 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
4028817 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
4028832 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:4028862 original size:14 final size:14
Alignment explanation
Indices: 4028843--4028898 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
4028833 TTTGGTTTCG
4028843 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4028857 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
4028875 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4028889 CGTTGCGATT
1 CGTTGCGATT
4028899 GTCATTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4028877 original size:32 final size:33
Alignment explanation
Indices: 4028838--4028918 Score: 137
Period size: 32 Copynumber: 2.5 Consensus size: 33
4028828 GCGATTTTGG
4028838 TTTCGCGTTGCGATTCTCTCGTTGCGATT-TCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTGTCA
4028870 TTTCGCGTTGCGATTCTCTCGTTGCGATTGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTGTCA
*
4028903 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
4028919 TTCATTTATC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 29 0.63
33 5 0.11
34 12 0.26
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTGTCA
Found at i:4028907 original size:20 final size:20
Alignment explanation
Indices: 4028882--4028937 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4028872 TCGCGTTGCG
4028882 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGATTGTC
*
4028902 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTGTC
*
4028922 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
4028938 CTCTTCTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTGTC
Found at i:4029059 original size:33 final size:33
Alignment explanation
Indices: 4029017--4029087 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4029007 AATACTAACT
*
4029017 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4029050 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4029083 TGAAA
1 TGAAA
4029088 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:4029321 original size:22 final size:22
Alignment explanation
Indices: 4029269--4029323 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4029259 TGGTTGTGAG
**
4029269 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4029291 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4029313 GGATTTCTTCG
1 GGATTTCTTCG
4029324 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:4029494 original size:20 final size:20
Alignment explanation
Indices: 4029469--4029623 Score: 213
Period size: 20 Copynumber: 7.7 Consensus size: 20
4029459 CTTTAAATAT
4029469 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4029489 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4029511 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4029530 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4029550 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4029570 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4029590 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
4029610 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
4029624 TGTGTGTTCG
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
19 2 0.02
20 98 0.84
21 14 0.12
22 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4029744 original size:20 final size:20
Alignment explanation
Indices: 4029719--4029770 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4029709 AAGAATCGCG
*
4029719 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4029739 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4029759 TTGCGATTCTGG
1 TTGCGATTCTGG
4029771 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:4035799 original size:41 final size:41
Alignment explanation
Indices: 4035754--4036159 Score: 432
Period size: 41 Copynumber: 10.0 Consensus size: 41
4035744 GATTCTGACT
* * *
4035754 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGA-TTACGTAA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT-A
* * **** * * *
4035795 ATCGCAATGCGAATTAGGAAAATCGCAATGCGA-ATACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* * * * *
4035835 ATCGCAATGCGA-ATACGTAA-TCGCAATGCGATTTACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
4035874 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* * * * * *
4035915 ATCACATTGCGATTTACGTAA-TCCCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* * *
4035955 TTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
4035996 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
4036038 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* * * *
4036079 ATCGCATTGCGATTTACGT-ATTCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* * *
4036119 ATTCGCATTTCGATTTACGTAA-TCGCATTGCGATTTA-GTA
1 A-TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
4036159 A
1 A
4036160 ACCGCAACGA
Statistics
Matches: 319, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
38 11 0.03
39 22 0.07
40 74 0.23
41 172 0.54
42 40 0.13
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
Found at i:4035805 original size:20 final size:20
Alignment explanation
Indices: 4035754--4036159 Score: 415
Period size: 20 Copynumber: 20.1 Consensus size: 20
4035744 GATTCTGACT
* **
4035754 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACGTA
*
4035774 ATTCGCGTTGCGA-TTACGTAA
1 A-TCGCATTGCGATTTACGT-A
* * * *
4035795 ATCGCAATGCGAATTAGGAAA
1 ATCGCATTGCGATTTACG-TA
* *
4035816 ATCGCAATGCGA-ATACGTA
1 ATCGCATTGCGATTTACGTA
* *
4035835 ATCGCAATGCGA-ATACGTA
1 ATCGCATTGCGATTTACGTA
*
4035854 ATCGCAATGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
* *
4035874 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
4035894 ATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
*
4035915 ATCACATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
* * *
4035935 ATCCCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
* * *
4035955 TTCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
* *
4035975 ATTCGCATTGCGATTTTCCTA
1 A-TCGCATTGCGATTTACGTA
* *
4035996 ATTCGCATTGCGATTTTCCTA
1 A-TCGCATTGCGATTTACGTA
4036017 ATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
* *
4036038 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
4036058 ATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
4036079 ATCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
* * *
4036099 TTCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
*
4036119 ATTCGCATTTCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
4036140 ATCGCATTGCGATTTA-GTA
1 ATCGCATTGCGATTTACGTA
4036159 A
1 A
4036160 ACCGCAACGA
Statistics
Matches: 339, Mismatches: 38, Indels: 19
0.86 0.10 0.05
Matches are distributed among these distances:
19 36 0.11
20 161 0.47
21 142 0.42
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATTTACGTA
Found at i:4035839 original size:19 final size:19
Alignment explanation
Indices: 4035782--4035885 Score: 127
Period size: 19 Copynumber: 5.3 Consensus size: 19
4035772 AAATTCGCGT
*
4035782 TGCGATTACGTAAATCGCAA
1 TGCGAATACGT-AATCGCAA
* *
4035802 TGCGAATTAGGAAAATCGCAA
1 TGCGAA-TACG-TAATCGCAA
4035823 TGCGAATACGTAATCGCAA
1 TGCGAATACGTAATCGCAA
4035842 TGCGAATACGTAATCGCAA
1 TGCGAATACGTAATCGCAA
* *
4035861 TGCGATTTACGTAATCGCAT
1 TGCGA-ATACGTAATCGCAA
4035881 TGCGA
1 TGCGA
4035886 TTTTCCTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
19 32 0.43
20 25 0.34
21 17 0.23
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (19 bp):
TGCGAATACGTAATCGCAA
Found at i:4036563 original size:19 final size:20
Alignment explanation
Indices: 4036521--4036575 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
4036511 CAATCATCTT
*
4036521 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
4036541 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
**
4036560 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
4036576 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:4036585 original size:14 final size:14
Alignment explanation
Indices: 4036566--4036634 Score: 84
Period size: 14 Copynumber: 4.6 Consensus size: 14
4036556 GCGAAATGAA
4036566 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4036580 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4036594 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4036613 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4036627 AATCGCAA
1 AATCGCAA
4036635 TGCGAAATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
14 32 0.67
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 10 0.21
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4036617 original size:33 final size:33
Alignment explanation
Indices: 4036580--4036688 Score: 191
Period size: 33 Copynumber: 3.3 Consensus size: 33
4036570 GCAACGAGAG
4036580 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
4036613 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * *
4036646 AATCGCAACGAGGGAATCACAAAGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
4036679 AATCGCAACG
1 AATCGCAACG
4036689 CGAATTTAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:4036720 original size:14 final size:14
Alignment explanation
Indices: 4036698--4036743 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4036688 GCGAATTTAG
*
4036698 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
4036712 TTTGTCGTTGCGAT
1 TTTCTCGTTGCGAT
* *
4036726 TCTCTTGTTGCGAT
1 TTTCTCGTTGCGAT
4036740 TTTC
1 TTTC
4036744 ATTTCGCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.07, C:0.20, G:0.24, T:0.50
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:4036884 original size:14 final size:14
Alignment explanation
Indices: 4036865--4036901 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4036855 CATCAATTAA
4036865 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4036879 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4036893 ACAAATCAA
1 ACAAATCAA
4036902 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4038791 original size:19 final size:19
Alignment explanation
Indices: 4038767--4038819 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
4038757 AATGGAACTT
4038767 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
4038786 AAAATCGCAACACGAAATG
1 AAAATCGCAACGCGAAATG
4038805 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
4038820 TTATAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.49, C:0.23, G:0.19, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:4038838 original size:19 final size:19
Alignment explanation
Indices: 4038816--4038892 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
4038806 AAATCGCAAC
4038816 GCGATTAT-AGTTTCGCGTT
1 GCGATTATCA-TTTCGCGTT
*
4038835 GCGATTTTCATTTCGCGTT
1 GCGATTATCATTTCGCGTT
*
4038854 GCGA-T-TC---TCTCGTT
1 GCGATTATCATTTCGCGTT
* *
4038868 GCGATTTTCGTTTCGCGTT
1 GCGATTATCATTTCGCGTT
4038887 GCGATT
1 GCGATT
4038893 TTGATTTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 32 0.65
20 1 0.02
ACGTcount: A:0.10, C:0.21, G:0.25, T:0.44
Consensus pattern (19 bp):
GCGATTATCATTTCGCGTT
Found at i:4038893 original size:19 final size:19
Alignment explanation
Indices: 4038825--4038894 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
4038815 CGCGATTATA
4038825 GTTTCGCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
*
4038844 ATTTCGCGTTGCGA--TTC
1 GTTTCGCGTTGCGATTTTC
*
4038861 ---TCTCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
4038877 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
4038895 GATTTCAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 10 0.23
16 3 0.07
17 3 0.07
19 27 0.63
ACGTcount: A:0.07, C:0.21, G:0.24, T:0.47
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTC
Found at i:4039100 original size:94 final size:94
Alignment explanation
Indices: 4038989--4039364 Score: 584
Period size: 94 Copynumber: 4.1 Consensus size: 94
4038979 ATGGATTGCA
* * * *
4038989 TTAC-TTCAACCATAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAATAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
4039053 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4039082 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
4039147 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
4039176 TTACTTTCAACCAAAATACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATATACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
4039241 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4039270 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
4039330 TTTAGCAGTATTGGCAGCAACCAAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
4039360 TTACT
1 TTACT
4039365 AAGCAATCTA
Statistics
Matches: 266, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
90 40 0.15
93 22 0.08
94 204 0.77
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:4041077 original size:20 final size:20
Alignment explanation
Indices: 4041052--4041166 Score: 79
Period size: 20 Copynumber: 6.2 Consensus size: 20
4041042 TTTTGGTTGA
*
4041052 AATGAAGATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
* *
4041072 AATGAAAATTGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
4041091 AAATGACTATCGCAACGCA-A-
1 -AATGAAAATCGCAACG-AGAG
4041111 AATGAAAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
4041129 -AT---AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
4041144 AATGAAAATCGTAACGAGAG
1 AATGAAAATCGCAACGAGAG
4041164 AAT
1 AAT
4041167 CGCAACGCGA
Statistics
Matches: 72, Mismatches: 11, Indels: 24
0.67 0.10 0.22
Matches are distributed among these distances:
14 9 0.12
16 4 0.06
17 3 0.04
19 25 0.35
20 31 0.43
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:4041105 original size:40 final size:39
Alignment explanation
Indices: 4041050--4041126 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
4041040 TCTTTTGGTT
*
4041050 GAAATGAAGATCGCAACG-AGAGAATGAAAATTGCAACGCG
1 GAAATGAAGATCGCAACGCA-A-AATGAAAATCGCAACGCG
**
4041090 GAAATGACTATCGCAACGCAAAATGAAAATCGCAACG
1 GAAATGAAGATCGCAACGCAAAATGAAAATCGCAACG
4041127 AGATAATCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 15 0.45
40 17 0.52
41 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (39 bp):
GAAATGAAGATCGCAACGCAAAATGAAAATCGCAACGCG
Found at i:4041136 original size:33 final size:33
Alignment explanation
Indices: 4041099--4041188 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
4041089 GGAAATGACT
* *
4041099 ATCGCAACGCAAAATGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
4041132 ATCGCAACGCGAAATGAAAATCGTAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
4041165 ATCGCAACGCGAAATGAAAATCGC
1 ATCGCAACGCGAAATGAAAATCGC
4041189 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:4041159 original size:19 final size:19
Alignment explanation
Indices: 4041050--4041188 Score: 109
Period size: 19 Copynumber: 7.7 Consensus size: 19
4041040 TCTTTTGGTT
* *
4041050 GAAATGAAGATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
4041069 GAGAATGAAAATTGCAACGC
1 GA-AATGAAAATCGCAACGC
**
4041089 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
4041109 AAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
4041126 G--A-GATAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4041142 GAAATGAAAATCGTAA--C
1 GAAATGAAAATCGCAACGC
*
4041159 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4041175 GAAATGAAAATCGC
1 GAAATGAAAATCGC
4041189 GTTGCGATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 3 0.03
18 2 0.02
19 32 0.35
20 28 0.30
21 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4041207 original size:19 final size:19
Alignment explanation
Indices: 4041185--4041235 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
4041175 GAAATGAAAA
4041185 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTGGTT
4041204 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTGGTT
4041223 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4041236 CTCTCTTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.06, C:0.18, G:0.31, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTGGTT
Found at i:4041866 original size:21 final size:21
Alignment explanation
Indices: 4041820--4041893 Score: 107
Period size: 20 Copynumber: 3.6 Consensus size: 21
4041810 CGATAGTCAG
4041820 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTA
* *
4041840 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTA
4041861 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTA
*
4041882 A-TCGCGTTGCGA
1 ATTCGCATTGCGA
4041894 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 28 0.58
21 20 0.42
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACGTA
Found at i:4041908 original size:41 final size:41
Alignment explanation
Indices: 4041822--4041908 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
4041812 ATAGTCAGAT
* * * * *
4041822 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGAATTACCAAAA
* **
4041863 TCGCATTGCGATTTACGTAATCGCGTTGCGAATTAGGAAAA
1 TCGCATTGCGATTTACGTAATCGCATTGCGAATTACCAAAA
4041904 TCGCA
1 TCGCA
4041909 ACGCGAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTAATCGCATTGCGAATTACCAAAA
Found at i:4041914 original size:21 final size:21
Alignment explanation
Indices: 4041890--4041935 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4041880 TAATCGCGTT
4041890 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
4041911 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
4041932 GCGA
1 GCGA
4041936 TAGTAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:4046996 original size:231 final size:231
Alignment explanation
Indices: 4046585--4047000 Score: 602
Period size: 231 Copynumber: 1.8 Consensus size: 231
4046575 AGTCTCATCT
* * * *
4046585 GGAGGAGATGCCCAACTTGGAAATGCTGAACGTTGTGATAGTGTGGAATGACAACGATGAACACC
1 GGAGGAGATGCCCAACTCGGAAATGCTGAACGCTGTGATAGTGAGGAATGACAACGAAGAACACC
* * * * * *
4046650 GGAATCTAATAGTTTTTCTCCTACAATGTCAATAGTCTCCTTCCATGATTTCTCACAGTAACCAG
66 AGAATCTAATAGTTTTTCTCCTACAATGCCAACAGGCTCATTCCATGAATTCTCACAGTAACCAG
* *
4046715 ACTGTACAGCTGAATTTTCAACTTTTGATGCATCATAAGGTCCAGAAAACTCCAAGAATCTCCCA
131 ACTGCACAGCCGAATTTTCAACTTTTGATGCATCATAAGGTCCAGAAAACTCCAAGAATCTCCCA
4046780 CTTGGGATATCTACCGGTGTTTTTAACCTTCCAGGG
196 CTTGGGATATCTACCGGTGTTTTTAACCTTCCAGGG
* * *
4046816 GGAGGAGATTCCCAACTCGGAAATAG-TGAATGCTGTGATAGTGAGGAATGACAGCGAAGAACAC
1 GGAGGAGATGCCCAACTCGGAAAT-GCTGAACGCTGTGATAGTGAGGAATGACAACGAAGAACAC
* *
4046880 CAGAATCTAATAGTTTTTCTCCTACAATGCCAACAGGCTCATTCCTTGAATTCTCACTGTAACCA
65 CAGAATCTAATAGTTTTTCTCCTACAATGCCAACAGGCTCATTCCATGAATTCTCACAGTAACCA
* * * * *
4046945 GTCCT-CACGGCCGAGTTTTCAACTTTTGATGCATCATCAGGTCCGGAAAACTCCAA
130 G-ACTGCACAGCCGAATTTTCAACTTTTGATGCATCATAAGGTCCAGAAAACTCCAA
4047001 ATACCTTTTA
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
231 158 0.98
232 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (231 bp):
GGAGGAGATGCCCAACTCGGAAATGCTGAACGCTGTGATAGTGAGGAATGACAACGAAGAACACC
AGAATCTAATAGTTTTTCTCCTACAATGCCAACAGGCTCATTCCATGAATTCTCACAGTAACCAG
ACTGCACAGCCGAATTTTCAACTTTTGATGCATCATAAGGTCCAGAAAACTCCAAGAATCTCCCA
CTTGGGATATCTACCGGTGTTTTTAACCTTCCAGGG
Found at i:4053346 original size:11 final size:11
Alignment explanation
Indices: 4053324--4053365 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
4053314 TGTATATATG
4053324 TATATATTTAAT
1 TATAT-TTTAAT
4053336 TATATTTTAAT
1 TATATTTTAAT
*
4053347 TAT-TTATTTAT
1 TATATT-TTAAT
4053358 TATATTTT
1 TATATTTT
4053366 TTTATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 18 0.67
12 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATTTTAAT
Found at i:4053411 original size:2 final size:2
Alignment explanation
Indices: 4053404--4053436 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4053394 ATTTTCCTAT
4053404 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
4053437 TATTTTTTTA
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:4053540 original size:29 final size:28
Alignment explanation
Indices: 4053494--4053576 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
4053484 TTTCCTAACG
* * *
4053494 TTATATATATATTCTTACTTTATTTTATT
1 TTATATTTATA-TGTTACTTTATTTTAGT
*
4053523 TTATATTTATATGATTACTATTTTTTTAGT
1 TTATATTTATATG-TTACT-TTATTTTAGT
*
4053553 TAATA-TTATATGTATA-TTTATTTT
1 TTATATTTATATGT-TACTTTATTTT
4053577 TCATTTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 6 0.13
28 3 0.07
29 24 0.53
30 12 0.27
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (28 bp):
TTATATTTATATGTTACTTTATTTTAGT
Found at i:4053656 original size:41 final size:43
Alignment explanation
Indices: 4053610--4053696 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 43
4053600 CTATTTAGTA
*
4053610 TTTTATTATATTATACATA-TATTT-TTATATTTTTA-TATATT
1 TTTTATTATATTATACATACTATTTATT-TATTTTCATTATATT
* **
4053651 TTTTATTATTTTATTTATACTATTTATTTATTTTCATTATATT
1 TTTTATTATATTATACATACTATTTATTTATTTTCATTATATT
4053694 TTT
1 TTT
4053697 AGTTTCTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 16 0.41
42 12 0.31
43 11 0.28
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (43 bp):
TTTTATTATATTATACATACTATTTATTTATTTTCATTATATT
Found at i:4053665 original size:25 final size:25
Alignment explanation
Indices: 4053629--4053684 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
4053619 ATTATACATA
4053629 TATTTTTATATTTTTATA-TATTT-TT
1 TATTTTTATA--TTTATACTATTTATT
4053654 TATTATTT-TATTTATACTATTTATT
1 TATT-TTTATATTTATACTATTTATT
4053679 TATTTT
1 TATTTT
4053685 CATTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 6 0.21
24 7 0.25
25 12 0.43
26 3 0.11
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (25 bp):
TATTTTTATATTTATACTATTTATT
Found at i:4054475 original size:23 final size:23
Alignment explanation
Indices: 4054457--4054516 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
4054447 CTCGTATAAA
4054457 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
4054480 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
4054503 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
4054517 ATATAATGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:4055228 original size:66 final size:66
Alignment explanation
Indices: 4055120--4055268 Score: 262
Period size: 66 Copynumber: 2.3 Consensus size: 66
4055110 TTTTTCTCAT
* *
4055120 GGGGGAATCGGTTCCCCCCTGGGGATATCGATTCCCCACTAGCATTCTGGAATTCATATTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGATATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTTG
4055185 A
66 A
* *
4055186 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGATATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTTG
4055251 A
66 A
4055252 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
4055269 TTGAATGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGATATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTTG
A
Found at i:4060299 original size:20 final size:19
Alignment explanation
Indices: 4060270--4060325 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 19
4060260 GGGCAAAAAC
4060270 AAAA-AAGAAAAGAAACAAA
1 AAAAGAAGAAAAG-AACAAA
4060289 AAAAGAAGAAAAGAAC--A
1 AAAAGAAGAAAAGAACAAA
4060306 AAAAGAAG-AAAGAACAAA
1 AAAAGAAGAAAAGAACAAA
4060324 AA
1 AA
4060326 TCAAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.21
17 9 0.26
18 3 0.09
19 7 0.21
20 8 0.24
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAAAAGAACAAA
Found at i:4060308 original size:16 final size:17
Alignment explanation
Indices: 4060250--4060325 Score: 72
Period size: 16 Copynumber: 4.6 Consensus size: 17
4060240 AGATTCAATC
* *
4060250 AGAACAAAAAG-GGCAA
1 AGAACAAAAAGAAGAAA
4060266 A-AAC-AAAA-AAGAAA
1 AGAACAAAAAGAAGAAA
4060280 AGAAACAAAAAAAGAAGAAA
1 AG-AAC--AAAAAGAAGAAA
4060300 AGAACAAAAAGAAG-AA
1 AGAACAAAAAGAAGAAA
4060316 AGAACAAAAA
1 AGAACAAAAA
4060326 TCAAAAAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
14 8 0.16
15 3 0.06
16 16 0.31
17 9 0.18
19 7 0.14
20 8 0.16
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (17 bp):
AGAACAAAAAGAAGAAA
Found at i:4060333 original size:16 final size:15
Alignment explanation
Indices: 4060297--4060335 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4060287 AAAAAAGAAG
*
4060297 AAAAGAACAAAAAGA
1 AAAAGAACAAAAACA
4060312 AGAAAGAACAAAAATCA
1 A-AAAGAACAAAAA-CA
4060329 AAAAGAA
1 AAAAGAA
4060336 AAAGGGACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAGAACAAAAACA
Found at i:4060334 original size:23 final size:23
Alignment explanation
Indices: 4060304--4060348 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4060294 AAGAAAAGAA
4060304 CAAAAAGAAGAAA-GAACAAAAAT
1 CAAAAAGAA-AAAGGAACAAAAAT
*
4060327 CAAAAAGAAAAAGGGACAAAAA
1 CAAAAAGAAAAAGGAACAAAAA
4060349 AGCACATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.73, C:0.09, G:0.16, T:0.02
Consensus pattern (23 bp):
CAAAAAGAAAAAGGAACAAAAAT
Found at i:4061189 original size:23 final size:21
Alignment explanation
Indices: 4061161--4061223 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
4061151 TGAAAGAGAC
4061161 AATATTTTCAAAACTTTTGATT
1 AATATTTTCAAAACTTTT-ATT
*
4061183 AAATATTTTTCGAAACTCTTTATT
1 -AATA-TTTTCAAAACT-TTTATT
* *
4061207 GATATTTTCAGAACTTT
1 AATATTTTCAAAACTTT
4061224 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 7 0.21
24 13 0.38
25 3 0.09
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (21 bp):
AATATTTTCAAAACTTTTATT
Found at i:4062070 original size:106 final size:106
Alignment explanation
Indices: 4061937--4063000 Score: 1651
Period size: 106 Copynumber: 10.0 Consensus size: 106
4061927 ATATCGTGCC
* * * * * * * * *
4061937 ACTCGAGACAACACAAGTTCAAATTCACAACGAAGGGACGGTTGGTTGTTAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
4062002 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
4062043 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
4062108 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
4062149 ACTCAAGACAATGCAAGTTCAACTTCACGACGAAAGGACCGCCGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
4062214 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
4062255 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
4062320 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
4062361 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
4062426 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
4062467 ACTCAAGACAACGCAAGTTCAATTTCATGATGAAGGGACCACTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
4062532 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
4062573 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
4062638 AATTTCAGAGCCAATTCCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
**
4062679 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * *
4062744 AATTTCAGAGTCAATTTCAACTTCACAGCGAATGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
4062785 ACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
4062850 AATTTCAGAGTCAATTTCAACTTCACAACGAATGATATTTG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
4062891 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
4062956 AATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
4062997 ACTC
1 ACTC
4063001 GGAACAATGC
Statistics
Matches: 880, Mismatches: 78, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 880 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:4063801 original size:37 final size:37
Alignment explanation
Indices: 4063750--4063853 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
4063740 TATTTTCGTC
* *
4063750 CTACTAGGATTCAAAGTCCTAAAAGTAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
4063787 TTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
4063824 CTACTATTATTTAAACTCCTAAATATAGGA
1 CTACTAGGATTCAAACTCCTAAAAATAGGA
4063854 CCCACAAGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4064297 original size:23 final size:24
Alignment explanation
Indices: 4064269--4064316 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
4064259 TATATGTATA
4064269 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTTATTTCATT
*
4064292 TATTTATTATAATTTTTTTTCATT
1 TATTTATTATAATTTTATTTCATT
4064316 T
1 T
4064317 TTCTTTACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTATTATAATTTTATTTCATT
Found at i:4064358 original size:2 final size:2
Alignment explanation
Indices: 4064351--4064393 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4064341 TTCATATTAT
4064351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4064393 T
1 T
4064394 TATTTTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4064502 original size:29 final size:27
Alignment explanation
Indices: 4064470--4064537 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
4064460 ATATATATTC
* *
4064470 TTACTTTATTTTATTTTATATTTATATG
1 TTACTTTATTTTAGTTAATA-TTATATG
4064498 ATTACTATT-TTTTAGTTAATATTATATG
1 -TTACT-TTATTTTAGTTAATATTATATG
4064526 TATA-TTTATTTT
1 T-TACTTTATTTT
4064538 TCATTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
26 2 0.06
27 6 0.18
28 9 0.26
29 15 0.44
30 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (27 bp):
TTACTTTATTTTAGTTAATATTATATG
Found at i:4064657 original size:28 final size:26
Alignment explanation
Indices: 4064598--4064658 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
4064588 TACATTTTTA
4064598 TATATTTATATATTTTTTATTATTAT
1 TATATTTATATATTTTTTATTATTAT
*
4064624 TTTATTTATACTATTTATTTATT-TTCAT
1 TATATTTATA-TATTT-TTTATTATT-AT
4064652 TATATTT
1 TATATTT
4064659 TTAGTTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.30
27 7 0.23
28 14 0.47
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (26 bp):
TATATTTATATATTTTTTATTATTAT
Found at i:4064661 original size:34 final size:34
Alignment explanation
Indices: 4064594--4064659 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
4064584 TACATACATT
*
4064594 TTTATATATTTATATATTTTTTATTATTATTTTA
1 TTTATATATTTATATATTTTTCATTATTATTTTA
*
4064628 TTTATACTATTTATTTA-TTTTCATTA-TATTTT
1 TTTATA-TATTTATATATTTTTCATTATTATTTT
4064660 TAGTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 14 0.48
35 9 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (34 bp):
TTTATATATTTATATATTTTTCATTATTATTTTA
Found at i:4064773 original size:20 final size:19
Alignment explanation
Indices: 4064746--4064801 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
4064736 TTTTATCTTC
4064746 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
4064765 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
4064785 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
4064802 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:4068831 original size:16 final size:16
Alignment explanation
Indices: 4068810--4068841 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4068800 TTTGCAAAGC
4068810 CATTGATCAAGCAAGA
1 CATTGATCAAGCAAGA
4068826 CATTGATCAAGCAAGA
1 CATTGATCAAGCAAGA
4068842 TTTCAAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
CATTGATCAAGCAAGA
Found at i:4072039 original size:23 final size:23
Alignment explanation
Indices: 4072011--4072058 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4072001 AATTATCTTT
*
4072011 TAAATTTTATAAAAAATTATATA
1 TAAATTTTATAAAAAAGTATATA
*
4072034 TAAATTTTATTAAAAAGTATATA
1 TAAATTTTATAAAAAAGTATATA
4072057 TA
1 TA
4072059 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATTTTATAAAAAAGTATATA
Found at i:4078104 original size:25 final size:25
Alignment explanation
Indices: 4078050--4078140 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 25
4078040 TTTAAATGAA
*
4078050 AATAA-AAAATATTTTTAAATTAAGTT
1 AATAATAAAATATATTT-AA-TAAGTT
4078076 AATAATAAAATATATTTAATAAGTT
1 AATAATAAAATATATTTAATAAGTT
*
4078101 AAT-ATAAAA-ATA-TT-CTAAGTT
1 AATAATAAAATATATTTAATAAGTT
4078122 AATATATATAAATTATATT
1 AATA-ATA-AAA-TATATT
4078141 ATATTATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
21 9 0.16
22 2 0.04
23 6 0.11
24 9 0.16
25 9 0.16
26 10 0.18
27 11 0.20
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (25 bp):
AATAATAAAATATATTTAATAAGTT
Found at i:4081464 original size:29 final size:29
Alignment explanation
Indices: 4081420--4081480 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
4081410 ACAAATTATT
** *
4081420 TTTTTTGATCAAAATATTTACCTATAGTA
1 TTTTTTGATCAAAATAGGTACCTAAAGTA
* *
4081449 TTTTTTGGTCAGAATAGGTACCTAAAGTA
1 TTTTTTGATCAAAATAGGTACCTAAAGTA
4081478 TTT
1 TTT
4081481 AATTTTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (29 bp):
TTTTTTGATCAAAATAGGTACCTAAAGTA
Found at i:4081608 original size:28 final size:30
Alignment explanation
Indices: 4081568--4081634 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
4081558 TTTTGAAAAG
* * *
4081568 TTTAGGTACCTATTTTGAC-ATAAAATAA-
1 TTTAAGTATCTATTTTGACTAAAAAATAAC
4081596 TTTAAGTATCTATTTTGACTAAAAAATAAC
1 TTTAAGTATCTATTTTGACTAAAAAATAAC
*
4081626 TTTATGTAT
1 TTTAAGTAT
4081635 TTGTTTCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 17 0.52
29 8 0.24
30 8 0.24
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (30 bp):
TTTAAGTATCTATTTTGACTAAAAAATAAC
Found at i:4085969 original size:182 final size:185
Alignment explanation
Indices: 4085662--4086029 Score: 715
Period size: 182 Copynumber: 2.0 Consensus size: 185
4085652 CCATGCGTAT
4085662 ATATGTATGCAGATGACTGATTGTCATTGAAGAAAAGTTTCTATGGATAAGGAATCTTTCATGTT
1 ATATGTATGCAGATGACTGATTGTCATTGAAGAAAAGTTTCTATGGATAAGGAATCTTTCATGTT
4085727 ATATTCACTCCTTTCGAATGAAGCATTTACTCTTTTTGATATTTTCTTAAAACTTCCTTTAGAAA
66 ATATTCACTCCTTTCGAATGAAGCATTTACTCTTTTTGATATTTTCTTAAAACTTCCTTTAGAAA
4085792 TGGAAAAAAATTAAAGGGTTGGAA-TT-ATATTATTAAAATTTA-TTATTTTATA
131 TGGAAAAAAATTAAAGGGTTGGAATTTAATATTATTAAAATTTATTTATTTTATA
4085844 ATATGTATGCAGATGACTGATTGTCATTGAAGAAAAGTTTCTATGGATAAGGAATCTTTCATGTT
1 ATATGTATGCAGATGACTGATTGTCATTGAAGAAAAGTTTCTATGGATAAGGAATCTTTCATGTT
4085909 ATATTCACTCCTTTCGAATGAAGCATTTACTCTTTTTGATATTTTCTTAAAACTTCCTTTAGAAA
66 ATATTCACTCCTTTCGAATGAAGCATTTACTCTTTTTGATATTTTCTTAAAACTTCCTTTAGAAA
4085974 TGGAAAAAAATTAAAGGGTTGGAATTTAATATTATTAAAATTTATTTATTTTATA
131 TGGAAAAAAATTAAAGGGTTGGAATTTAATATTATTAAAATTTATTTATTTTATA
4086029 A
1 A
4086030 AAAGGGAGTG
Statistics
Matches: 183, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
182 154 0.84
183 2 0.01
184 16 0.09
185 11 0.06
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (185 bp):
ATATGTATGCAGATGACTGATTGTCATTGAAGAAAAGTTTCTATGGATAAGGAATCTTTCATGTT
ATATTCACTCCTTTCGAATGAAGCATTTACTCTTTTTGATATTTTCTTAAAACTTCCTTTAGAAA
TGGAAAAAAATTAAAGGGTTGGAATTTAATATTATTAAAATTTATTTATTTTATA
Found at i:4086086 original size:35 final size:35
Alignment explanation
Indices: 4086040--4086113 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
4086030 AAAGGGAGTG
4086040 ATTGTGTTGTTTTGCCACCTAACAAAATGTCATTC
1 ATTGTGTTGTTTTGCCACCTAACAAAATGTCATTC
*
4086075 ATTGTGTTGTTTTGCCACCTAACATAATGTCATTC
1 ATTGTGTTGTTTTGCCACCTAACAAAATGTCATTC
4086110 ATTG
1 ATTG
4086114 GCAGTGACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (35 bp):
ATTGTGTTGTTTTGCCACCTAACAAAATGTCATTC
Found at i:4092255 original size:30 final size:30
Alignment explanation
Indices: 4092219--4092278 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
4092209 GTAATTCCTA
4092219 TAGAGAGTTCTATGTAACATCCCAAAATAT
1 TAGAGAGTTCTATGTAACATCCCAAAATAT
*
4092249 TAGAGAGTTCTATGTAACATCCTAAAATAT
1 TAGAGAGTTCTATGTAACATCCCAAAATAT
4092279 GGGTTGGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (30 bp):
TAGAGAGTTCTATGTAACATCCCAAAATAT
Found at i:4092564 original size:13 final size:13
Alignment explanation
Indices: 4092546--4092570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4092536 TCTCATTTCT
4092546 TTTTTTATTTTTA
1 TTTTTTATTTTTA
4092559 TTTTTTATTTTT
1 TTTTTTATTTTT
4092571 CTATCTAGAT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:4100108 original size:22 final size:21
Alignment explanation
Indices: 4100076--4100129 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
4100066 TACTTAGAAA
* *
4100076 AGTATCGATACCTCAGACCATG
1 AGTATCAATACCTCAAACCA-G
*
4100098 AGTATCAATA-CTCAAACTAG
1 AGTATCAATACCTCAAACCAG
*
4100118 AGTATTAATACC
1 AGTATCAATACC
4100130 AACCATTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.37
21 8 0.30
22 9 0.33
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (21 bp):
AGTATCAATACCTCAAACCAG
Found at i:4105985 original size:23 final size:22
Alignment explanation
Indices: 4105914--4105987 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
4105904 AGAGTGCTTT
*
4105914 GATGCACATTCAAGGCATGCATC
1 GATGCACATTCAAGGGAT-CATC
* * *
4105937 GGTGCACCTTCATGGTGA--ATC
1 GATGCACATTCAAGG-GATCATC
*
4105958 AATGCACATTCAAGGGATTCATC
1 GATGCACATTCAAGGGA-TCATC
4105981 GATGCAC
1 GATGCAC
4105988 TAACTAGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 2 0.05
21 14 0.37
23 21 0.55
24 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (22 bp):
GATGCACATTCAAGGGATCATC
Found at i:4109867 original size:21 final size:21
Alignment explanation
Indices: 4109826--4109868 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4109816 TCGTTTTTTA
* *
4109826 ATTTTGAAATATCATTTTTAT
1 ATTTTGAAATATAATTCTTAT
4109847 ATTTTGAAA-ATAAATTCTTAT
1 ATTTTGAAATAT-AATTCTTAT
4109868 A
1 A
4109869 ATCCGAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTTTGAAATATAATTCTTAT
Found at i:4111842 original size:65 final size:64
Alignment explanation
Indices: 4111761--4111900 Score: 158
Period size: 65 Copynumber: 2.2 Consensus size: 64
4111751 TACACTAGGG
* * ** *
4111761 TGTGCATCGGTGCACAAATTTGCTTAGATGTTTCAA-AAATAACCGTG-GTGCATTGATGCATGA
1 TGTGCATCGGTACACAAAATTAATTAGATGTTTCAATAAA-AACC-TGAGTGCATCGATGCATG-
4111824 CT
63 CT
* * * *
4111826 TGTGTATCGGTACACAAAATTAATTCGATGTTTCAATAAAATCCTGAGTGCATCGATGCATGGT
1 TGTGCATCGGTACACAAAATTAATTAGATGTTTCAATAAAAACCTGAGTGCATCGATGCATGCT
4111890 TGTGCATCGGT
1 TGTGCATCGGT
4111901 GTATAAAATG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 13 0.21
65 47 0.75
66 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (64 bp):
TGTGCATCGGTACACAAAATTAATTAGATGTTTCAATAAAAACCTGAGTGCATCGATGCATGCT
Found at i:4118064 original size:23 final size:23
Alignment explanation
Indices: 4118038--4118106 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
4118028 GAACTAATGA
* *
4118038 AACATGCAGTTGCATACTTTCAT
1 AACATACAGTTACATACTTTCAT
* *
4118061 AACACACATTTACATACTTTCAT
1 AACATACAGTTACATACTTTCAT
* *
4118084 ATCATACAGTCACATACTTTCAT
1 AACATACAGTTACATACTTTCAT
4118107 CTCTTACCTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (23 bp):
AACATACAGTTACATACTTTCAT
Done.