Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 47 of 325
Found at i:11857252 original size:47 final size:47
Alignment explanation
Indices: 11857188--11857298 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
11857178 GACATTGAGT
* *
11857188 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCAGGATTTGTTC
* * *
11857235 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCAGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCAGGATTTGTTC
11857282 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
11857299 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCAGGATTTGTTC
Found at i:11859382 original size:2 final size:2
Alignment explanation
Indices: 11859375--11859403 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11859365 ATTTGCTGCA
11859375 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 A
11859404 ACTATAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11861726 original size:25 final size:21
Alignment explanation
Indices: 11861700--11861741 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11861690 CAGAAAACAA
11861700 TCAATCATTTTAAATGATAAG
1 TCAATCATTTTAAATGATAAG
11861721 TCAATCATTTTAAATGATAAG
1 TCAATCATTTTAAATGATAAG
11861742 AATCCTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
TCAATCATTTTAAATGATAAG
Found at i:11867454 original size:15 final size:15
Alignment explanation
Indices: 11867436--11867482 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
11867426 ATTTTAAAAA
11867436 ATTTAAAAATATTTT
1 ATTTAAAAATATTTT
*
11867451 ATTTAACAATATTTTT
1 ATTTAAAAATA-TTTT
11867467 ATTTTAAAAATATTTT
1 A-TTTAAAAATATTTT
11867483 TTGTCTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 9 0.32
17 9 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAAAAATATTTT
Found at i:11867478 original size:17 final size:17
Alignment explanation
Indices: 11867437--11867501 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
11867427 TTTTAAAAAA
11867437 TTTAAAAATA-TTTTA-
1 TTTAAAAATATTTTTAT
*
11867452 TTTAACAATATTTTTAT
1 TTTAAAAATATTTTTAT
11867469 TTTAAAAATATTTTT-T
1 TTTAAAAATATTTTTAT
*
11867485 GTCTCAAAAATATTTTT
1 -T-TTAAAAATATTTTT
11867502 TATAAACAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.21
16 6 0.14
17 15 0.35
18 13 0.30
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAAAATATTTTTAT
Found at i:11869484 original size:24 final size:25
Alignment explanation
Indices: 11869457--11869505 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11869447 TTTATAAAGT
*
11869457 TATAAAAAT-TAAAAAAATTAAAAA
1 TATAAAAATATAAAAAAACTAAAAA
*
11869481 TATAAATATATAAAAAAACTAAAAA
1 TATAAAAATATAAAAAAACTAAAAA
11869506 ACTTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (25 bp):
TATAAAAATATAAAAAAACTAAAAA
Found at i:11869504 original size:34 final size:36
Alignment explanation
Indices: 11869460--11869530 Score: 92
Period size: 34 Copynumber: 2.0 Consensus size: 36
11869450 ATAAAGTTAT
*
11869460 AAAAATTAAAAAA-ATTAAAAATATAAAT-ATATAA
1 AAAAACTAAAAAACATTAAAAATATAAATCATATAA
* * *
11869494 AAAAACTAAAAAACTTTAAAATTTTAAATCATATAA
1 AAAAACTAAAAAACATTAAAAATATAAATCATATAA
11869530 A
1 A
11869531 TATATAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 12 0.39
35 12 0.39
36 7 0.23
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (36 bp):
AAAAACTAAAAAACATTAAAAATATAAATCATATAA
Found at i:11877847 original size:62 final size:62
Alignment explanation
Indices: 11877752--11877915 Score: 287
Period size: 62 Copynumber: 2.7 Consensus size: 62
11877742 CCTTAAATGG
*
11877752 AGAGACA--CCCGTGTCTTAGGCCGTGTGGGCATTCGAAATTCCGTGTGACTCATATGGCCA
1 AGAGACATGCCCGTGTCTTAGGCCGTGTGGGCATTCGAAATACCGTGTGACTCATATGGCCA
11877812 AGAGACATGCCCGTGTCTTAGGCCGTGTGGGCATTCGAAATACCGTGTGACTCATATGGCCA
1 AGAGACATGCCCGTGTCTTAGGCCGTGTGGGCATTCGAAATACCGTGTGACTCATATGGCCA
* *
11877874 AGAGACATGCCTGTGTCTTAGGCCGTGTGGGAATTCGAAATA
1 AGAGACATGCCCGTGTCTTAGGCCGTGTGGGCATTCGAAATA
11877916 AGGACACATG
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
60 7 0.07
62 92 0.93
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (62 bp):
AGAGACATGCCCGTGTCTTAGGCCGTGTGGGCATTCGAAATACCGTGTGACTCATATGGCCA
Found at i:11881692 original size:22 final size:21
Alignment explanation
Indices: 11881664--11881708 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
11881654 TAAAAACCCT
*
11881664 AGAAAAATATAAAGAAAAACTAA
1 AGAAAACT-TAAAG-AAAACTAA
*
11881687 AGAAAACTTACAGAAAACTAA
1 AGAAAACTTAAAGAAAACTAA
11881708 A
1 A
11881709 CCTAAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (21 bp):
AGAAAACTTAAAGAAAACTAA
Found at i:11883752 original size:2 final size:2
Alignment explanation
Indices: 11883745--11883778 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11883735 ATACCGCCTC
*
11883745 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11883779 CTTTTTACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11891956 original size:14 final size:14
Alignment explanation
Indices: 11891937--11891963 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11891927 TATCAAGACA
11891937 ATAATTAAGAACAC
1 ATAATTAAGAACAC
11891951 ATAATTAAGAACA
1 ATAATTAAGAACA
11891964 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:11893083 original size:10 final size:10
Alignment explanation
Indices: 11893068--11893098 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11893058 TTTTATATAG
11893068 ATTTTACTTT
1 ATTTTACTTT
11893078 ATTTTACTTT
1 ATTTTACTTT
*
11893088 ATTTTAATTT
1 ATTTTACTTT
11893098 A
1 A
11893099 CCACTGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTACTTT
Found at i:11893192 original size:29 final size:29
Alignment explanation
Indices: 11893159--11893217 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
11893149 TCCATCTTGA
* *
11893159 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
11893188 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
11893217 C
1 C
11893218 TCATCGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.36, G:0.10, T:0.20
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:11897732 original size:21 final size:21
Alignment explanation
Indices: 11897697--11897736 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11897687 TAAAATGGTT
11897697 ATATGATTAATTTATATATGA
1 ATATGATTAATTTATATATGA
11897718 ATATG-TTAATATTATATAT
1 ATATGATTAAT-TTATATAT
11897737 AAAGTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
ATATGATTAATTTATATATGA
Found at i:11902760 original size:18 final size:18
Alignment explanation
Indices: 11902726--11902759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11902716 AGTCAACTTT
*
11902726 TTTATTTTTCCTTTTTTG
1 TTTATTTTTACTTTTTTG
11902744 TTTATTTTTA-TTTTTT
1 TTTATTTTTACTTTTTT
11902760 TCATGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTATTTTTACTTTTTTG
Found at i:11905462 original size:14 final size:13
Alignment explanation
Indices: 11905430--11905458 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11905420 ATTCCATATC
11905430 AAATCACAATAAA
1 AAATCACAATAAA
11905443 AAATCACAATAAA
1 AAATCACAATAAA
11905456 AAA
1 AAA
11905459 ATCATACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATCACAATAAA
Found at i:11915229 original size:7 final size:7
Alignment explanation
Indices: 11915216--11915245 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11915206 GATGTTCTAA
11915216 TTGTTTT
1 TTGTTTT
11915223 TT-TTTT
1 TTGTTTT
11915229 TTGTTTT
1 TTGTTTT
11915236 TTGTTTT
1 TTGTTTT
11915243 TTG
1 TTG
11915246 AAGGCCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTGTTTT
Found at i:11915234 original size:13 final size:14
Alignment explanation
Indices: 11915216--11915245 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11915206 GATGTTCTAA
11915216 TTGTTTTTT-TTTT
1 TTGTTTTTTGTTTT
11915229 TTGTTTTTTGTTTT
1 TTGTTTTTTGTTTT
11915243 TTG
1 TTG
11915246 AAGGCCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTGTTTTTTGTTTT
Found at i:11916020 original size:15 final size:15
Alignment explanation
Indices: 11916000--11916051 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
11915990 ACTACACAAC
11916000 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
11916015 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
11916034 ATTTATTAATAATAT
1 ATTTATTATTAATAT
11916049 ATT
1 ATT
11916052 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 8 0.27
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:11916115 original size:16 final size:16
Alignment explanation
Indices: 11916084--11916120 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
11916074 ATGTGAATAA
11916084 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
11916100 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
11916116 TATTA
1 TATTA
11916121 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:11916172 original size:22 final size:22
Alignment explanation
Indices: 11916132--11916187 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11916122 AATAAAATTG
*
11916132 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
11916152 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
11916174 TATTAATAATTTAT
1 AAATAATAAATTAT
11916188 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:11917170 original size:3 final size:3
Alignment explanation
Indices: 11917162--11917204 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
11917152 ATTTAGATAC
11917162 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11917205 AAGTGGGGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11921947 original size:5 final size:5
Alignment explanation
Indices: 11921937--11921963 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11921927 GTTAATGTGG
11921937 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
11921964 GAACACAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:11924254 original size:6 final size:6
Alignment explanation
Indices: 11924243--11924273 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11924233 ACAAATCCGA
*
11924243 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
11924274 TTCGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:11924309 original size:6 final size:6
Alignment explanation
Indices: 11924298--11924341 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
11924288 TGTCGAATTG
11924298 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
11924342 GGTCGGCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:11926027 original size:5 final size:5
Alignment explanation
Indices: 11926019--11926045 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11926009 TCTTTAGTTT
11926019 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
11926046 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:11926081 original size:8 final size:8
Alignment explanation
Indices: 11926068--11926096 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11926058 TATCTTTATT
11926068 ATATAATA
1 ATATAATA
11926076 ATATAATA
1 ATATAATA
11926084 ATATAATA
1 ATATAATA
11926092 ATATA
1 ATATA
11926097 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:11929654 original size:5 final size:5
Alignment explanation
Indices: 11929644--11929671 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11929634 CCAATATATG
11929644 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11929672 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11932428 original size:7 final size:7
Alignment explanation
Indices: 11932416--11932484 Score: 138
Period size: 7 Copynumber: 9.9 Consensus size: 7
11932406 TTGCATGTAA
11932416 ACATATC
1 ACATATC
11932423 ACATATC
1 ACATATC
11932430 ACATATC
1 ACATATC
11932437 ACATATC
1 ACATATC
11932444 ACATATC
1 ACATATC
11932451 ACATATC
1 ACATATC
11932458 ACATATC
1 ACATATC
11932465 ACATATC
1 ACATATC
11932472 ACATATC
1 ACATATC
11932479 ACATAT
1 ACATAT
11932485 TATTTACTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (7 bp):
ACATATC
Found at i:11936158 original size:18 final size:17
Alignment explanation
Indices: 11936106--11936158 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
11936096 GCCTATTATT
*
11936106 TTTTTATATTATTAAGTA
1 TTTTTATATTGTTAA-TA
* *
11936124 TTTATATATTGAATAATA
1 TTTTTATATTG-TTAATA
11936142 TTTGTTATATTGTTAAT
1 TTT-TTATATTGTTAAT
11936159 GTAATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (17 bp):
TTTTTATATTGTTAATA
Found at i:11942152 original size:23 final size:23
Alignment explanation
Indices: 11942121--11942166 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11942111 ATTATATTAA
* *
11942121 AATTGAAAA-TAAAATATAAATAT
1 AATTAAAAATTAAAA-AAAAATAT
11942144 AATTAAAAATTAAAAAAAAATAT
1 AATTAAAAATTAAAAAAAAATAT
11942167 TTAGTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AATTAAAAATTAAAAAAAAATAT
Found at i:11944278 original size:28 final size:24
Alignment explanation
Indices: 11944224--11944287 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 24
11944214 CTCTCCCAAT
*
11944224 GTTAGGGTTTTTAATTTTCTTAGG
1 GTTAGGGTTTTTAATTTTATTAGG
11944248 GTTAGGGTTTTTAGATTTATGGATTAGG
1 GTTAGGGTTTTTA-ATTT-T--ATTAGG
*
11944276 GTTAGGATTTTT
1 GTTAGGGTTTTT
11944288 TTGAAAGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 13 0.38
25 4 0.12
26 1 0.03
28 16 0.47
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
GTTAGGGTTTTTAATTTTATTAGG
Found at i:11947740 original size:15 final size:15
Alignment explanation
Indices: 11947708--11947736 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11947698 ATATTTTTTG
11947708 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
11947723 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
11947737 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:11948215 original size:15 final size:15
Alignment explanation
Indices: 11948195--11948225 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11948185 AAATATGAAA
11948195 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
11948210 GATATGTTTTGTATT
1 GATATGTTTTGGATT
11948225 G
1 G
11948226 GAATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:11948839 original size:45 final size:45
Alignment explanation
Indices: 11948776--11948953 Score: 222
Period size: 45 Copynumber: 4.0 Consensus size: 45
11948766 TAGGATTCCG
11948776 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
**
11948821 ATATGTGTTTTCACGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * *
11948866 ATATGTGGTTGCGTGTAAGACCATGTCTGGAACATTGGCATCG-T
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * *
11948910 AT-T-TG-ATTCGGGTAAGACCTTATCTGGGACAG-TGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT
11948952 AT
1 AT
11948954 GAGGTAGCAT
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
41 27 0.23
42 5 0.04
43 1 0.01
44 3 0.03
45 80 0.69
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:11949389 original size:2 final size:2
Alignment explanation
Indices: 11949376--11949411 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
11949366 TATGTGAAAG
11949376 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11949412 GAAATCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11950066 original size:6 final size:6
Alignment explanation
Indices: 11950055--11950175 Score: 242
Period size: 6 Copynumber: 20.2 Consensus size: 6
11950045 ATTCGACAAT
11950055 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
11950103 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
11950151 TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA T
11950176 TAATTCATTT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 115 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:11958721 original size:46 final size:46
Alignment explanation
Indices: 11958550--11958721 Score: 265
Period size: 46 Copynumber: 3.7 Consensus size: 46
11958540 TGCCGTAGTG
* * *
11958550 TCTTTCAACTATGGTCTTACTCATTTTC-TATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
*** *
11958596 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
11958642 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
11958688 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
11958722 AAAGCACACT
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.03
46 113 0.97
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:11961313 original size:121 final size:121
Alignment explanation
Indices: 11961183--11961429 Score: 485
Period size: 121 Copynumber: 2.0 Consensus size: 121
11961173 CACTTGTCTT
*
11961183 TATTTAATCTATTCATCATATAATATCAATTTAATAATAATAAATATATTAATTATTTACTTAAA
1 TATTTAATCTATTCATCATATAATATCAATTTAATAATAATAAATACATTAATTATTTACTTAAA
11961248 TAATAAGTAAATACATACATGTATTACAAATGTATGTATAATACTTATTACACATG
66 TAATAAGTAAATACATACATGTATTACAAATGTATGTATAATACTTATTACACATG
11961304 TATTTAATCTATTCATCATATAATATCAATTTAATAATAATAAATACATTAATTATTTACTTAAA
1 TATTTAATCTATTCATCATATAATATCAATTTAATAATAATAAATACATTAATTATTTACTTAAA
11961369 TAATAAGTAAATACATACATGTATTACAAATGTATGTATAATACTTATTACACATG
66 TAATAAGTAAATACATACATGTATTACAAATGTATGTATAATACTTATTACACATG
11961425 TATTT
1 TATTT
11961430 TATTTTTGCC
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 125 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (121 bp):
TATTTAATCTATTCATCATATAATATCAATTTAATAATAATAAATACATTAATTATTTACTTAAA
TAATAAGTAAATACATACATGTATTACAAATGTATGTATAATACTTATTACACATG
Found at i:11972187 original size:41 final size:41
Alignment explanation
Indices: 11972113--11972213 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 41
11972103 TATCATGCTT
* * *
11972113 AGAGGACTTGAACATCATGCCTGGAGATTTTATAAAT-GGTCC
1 AGAGGTCTT-AACATCATGCCTGGAGATCTTATAAATAGCT-C
* * *
11972155 AGAGGTCTTAACATCATGCCTTGG-GGTCTTATAGATAGCTT
1 AGAGGTCTTAACATCATGCC-TGGAGATCTTATAAATAGCTC
*
11972196 AGAGGTCTTATCATCATG
1 AGAGGTCTTAACATCATG
11972214 TTTTAATGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
41 37 0.74
42 13 0.26
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
AGAGGTCTTAACATCATGCCTGGAGATCTTATAAATAGCTC
Found at i:11977455 original size:17 final size:17
Alignment explanation
Indices: 11977435--11977494 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 17
11977425 GGGTTTAAGG
11977435 TTTTAAGCTTTTTATAT
1 TTTTAAGCTTTTTATAT
*
11977452 TTTTAAGTTTATTATATATAT
1 TTTTAAG-CT-TT-T-TATAT
*
11977473 TTTTTAGCTTTTTATAAT
1 TTTTAAGCTTTTTAT-AT
11977491 TTTT
1 TTTT
11977495 TGATATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
17 10 0.29
18 8 0.23
19 4 0.11
20 2 0.06
21 11 0.31
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTAAGCTTTTTATAT
Found at i:11985016 original size:26 final size:28
Alignment explanation
Indices: 11984969--11985020 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
11984959 TCATCATTCG
*
11984969 AAAAATACTAAAAAATCTTTAAAATTGA
1 AAAAATACTAAAAAATCATTAAAATTGA
11984997 AAAAATAC-AAAAAAT-ATTAAAATT
1 AAAAATACTAAAAAATCATTAAAATT
11985021 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
27 7 0.30
28 8 0.35
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAAATACTAAAAAATCATTAAAATTGA
Found at i:11985522 original size:19 final size:20
Alignment explanation
Indices: 11985487--11985530 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
11985477 TTTAAAATTT
*
11985487 TAATTTTAATTATTTTTTTG
1 TAATTTTAATAATTTTTTTG
11985507 TAATTTTAA-AATTTTTTTG
1 TAATTTTAATAATTTTTTTG
*
11985526 GAATT
1 TAATT
11985531 GTTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TAATTTTAATAATTTTTTTG
Found at i:11985539 original size:34 final size:32
Alignment explanation
Indices: 11985476--11985559 Score: 78
Period size: 34 Copynumber: 2.5 Consensus size: 32
11985466 AAAATTATAT
*
11985476 TTTTAAAATTTTAATTTTAATTATTTTTTTGTAA
1 TTTTAAAATTTT--TTTGAATTATTTTTTTGTAA
* * *
11985510 TTTTAAAATTTTTTTGGAATTGTTATTTTTTTAT
1 TTTTAAAATTTTTTT-GAATTATT-TTTTTGTAA
*
11985544 TTTTTAAATATTTTTT
1 TTTTAAAAT-TTTTTT
11985560 AAAGTTTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 6 0.14
34 27 0.64
35 6 0.14
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (32 bp):
TTTTAAAATTTTTTTGAATTATTTTTTTGTAA
Found at i:11986050 original size:12 final size:11
Alignment explanation
Indices: 11986023--11986048 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11986013 GAAAAAACTG
11986023 TTTTCCTTTTT
1 TTTTCCTTTTT
11986034 TTTTCCTTTTT
1 TTTTCCTTTTT
11986045 TTTT
1 TTTT
11986049 TCTAATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCCTTTTT
Found at i:11990685 original size:2 final size:2
Alignment explanation
Indices: 11990673--11990731 Score: 75
Period size: 2 Copynumber: 29.0 Consensus size: 2
11990663 AGTTATAAAC
* *
11990673 AT AT AT TT AT AT AT AT GA- AT TT CAT 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
11990716 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
11990732 TGCAGATTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
1 1 0.02
2 47 0.94
3 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11994716 original size:40 final size:40
Alignment explanation
Indices: 11994627--11994721 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
11994617 CCATCTCTGT
* * *
11994627 CCAACCCAACACACC-A-TGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
* * *
11994665 CCAGCCCTACACACCAAGTATGGGGATAAAATCGACTCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
* *
11994705 CTAACCTTACACACCAA
1 CCAACCCTACACACCAA
11994722 ATGGTACCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
38 13 0.28
39 1 0.02
40 32 0.70
ACGTcount: A:0.36, C:0.35, G:0.15, T:0.15
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
Found at i:12011700 original size:17 final size:17
Alignment explanation
Indices: 12011680--12011712 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12011670 AGGGCATCTT
12011680 AAAA-AAAAAGAGAAAAG
1 AAAAGAAAAA-AGAAAAG
12011697 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
12011713 AGAGAGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAG
Found at i:12012754 original size:15 final size:14
Alignment explanation
Indices: 12012731--12012776 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
12012721 CGCCGAGGTA
12012731 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
12012745 TTTTTCAATTTCTG-
1 TTTTT-AATTTCTGT
*
12012759 CTTTTAATTTCTGT
1 TTTTTAATTTCTGT
12012773 TTTT
1 TTTT
12012777 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 12 0.43
15 8 0.29
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTAATTTCTGT
Found at i:12012776 original size:13 final size:13
Alignment explanation
Indices: 12012731--12012776 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
12012721 CGCCGAGGTA
12012731 TTTTTAATTTCTG
1 TTTTTAATTTCTG
12012744 TTTTTTCAATTTCTG
1 -TTTTT-AATTTCTG
*
12012759 CTTTTAATTTCTG
1 TTTTTAATTTCTG
12012772 TTTTT
1 TTTTT
12012777 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 9 0.31
15 8 0.28
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:12012841 original size:101 final size:101
Alignment explanation
Indices: 12012644--12013034 Score: 440
Period size: 101 Copynumber: 4.0 Consensus size: 101
12012634 CGCTGAGGTA
*** * *
12012644 TTTTCAATTTCCATTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTG
1 TTTTCAATTTCTGCTTTT-AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
12012709 AGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTGTT
65 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTT
*
12012746 TTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
12012811 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG-T
66 GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTT
* ** *
12012846 TTTTCAATTTTTGCCTTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTG-CTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
12012909 AGCCTCA-GACACGCTGAGGTATTTTCAATTT-TCGTT
65 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-GTT
* * *
12012945 TTTTTAATTTATG-TTTCTAA------------AAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTCAATTTCTGCTTT-TAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
12012997 AGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTT
65 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTT
12013034 T
1 T
12013035 GTCAAAACTC
Statistics
Matches: 260, Mismatches: 21, Indels: 29
0.84 0.07 0.09
Matches are distributed among these distances:
88 36 0.14
89 27 0.10
90 1 0.00
97 3 0.01
98 26 0.10
99 49 0.19
100 13 0.05
101 90 0.35
102 15 0.06
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (101 bp):
TTTTCAATTTCTGCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTT
Found at i:12013157 original size:75 final size:75
Alignment explanation
Indices: 12012945--12013522 Score: 748
Period size: 73 Copynumber: 7.9 Consensus size: 75
12012935 AATTTTCGTT
* * * * *
12012945 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12013009 CGCTGAGGTA
66 CGTTGAGGTA
* * * * *
12013019 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12013082 CGTTGAGGTA
66 CGTTGAGGTA
* *
12013092 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12013157 CGCTGAGGTA
66 CGTTGAGGTA
* * *
12013167 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12013230 CGTTGAGGTA
66 CGTTGAGGTA
* * * * *
12013240 TTTTTAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12013305 CGTTGAGGTA
66 CGTTGAGGTA
* * *
12013315 TTTTCAATTT-TTTTTTTCAAAAAAATCAACTC-TATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12013376 CGCTGAGGTA
66 CGTTGAGGTA
* * *
12013386 ATTTCAATTTTTGTTTGTC--AAAAATCAA-TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
12013448 CATTGATGTA
66 CGTTGAGGTA
* * * *
12013458 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
12013523 GCTGAGGTGT
Statistics
Matches: 438, Mismatches: 53, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
69 2 0.00
70 35 0.08
71 19 0.04
72 29 0.07
73 156 0.36
74 32 0.07
75 134 0.31
76 31 0.07
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTA
Found at i:12013231 original size:148 final size:149
Alignment explanation
Indices: 12012945--12014794 Score: 1909
Period size: 148 Copynumber: 12.1 Consensus size: 149
12012935 AATTTTCGTT
* * * * *
12012945 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
12013009 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGC
66 CGTTGAGGTATTTTCAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
12013073 CTCAAGACACGTTGAGGTA
131 CTCAAGACACGCTGAGGTA
* *
12013092 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
12013157 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGTTGAGGTATTTTCAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
12013221 CTCAAGACACGTTGAGGTA
131 CTCAAGACACGCTGAGGTA
* * * * *
12013240 TTTTTAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
12013305 CGTTGAGGTATTTTCAATTTTT-TTTTTCAAAAAAATCAACTC-TATTGCGATAGGTGAGTTGAA
66 CGTTGAGGTATTTTCAATTTTTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
12013368 CCTCAAG--ACGCTGAGGTA
130 CCTCAAGACACGCTGAGGTA
* * *
12013386 ATTTCAATTTTTGTTTGTC--AAAAATCAA-TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * * *
12013448 CATTGATGTATTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGA
66 CGTTGAGGTATTTTCAATTTTTGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
12013513 ACCTCAAG--ACGCTGAGGTGTTTACCA
129 GCCTCAAGACACGCTGA-G-G--T---A
* *
12013539 TTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 --T-T-TTC---AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
12013604 CAGGACACGTTGAGGTATTTTCAATTTTCGTTTTTTAATTTATGTTTCTAAAAAAATCAACTCAT
59 CAAGACACGTTGAGGTATTTTCAA--------TTTT--TGT-T-TTTC--AAAAAATCAACTCAT
* * * *
12013669 ATTGCGAGAAGTGAGTTAAGCCTCAGGACACGCTAAGGTA
110 ATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
* * * * *
12013709 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
12013772 CATTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAG
66 CGTTGAGGTATTTTCAATTTTTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
12013837 CCTCAGGACACGCTGAGGTA
130 CCTCAAGACACGCTGAGGTA
* * * *
12013857 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * **
12013920 CGTTGAGGTATTTTCAATTTCTATCTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 CGTTGAGGTATTTTCAATTTTTGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
12013985 CCTCAAGACACGTTGAGGTA
130 CCTCAAGACACGCTGAGGTA
** * * *
12014005 TTTTCAATTTCTGTCTTTAAAAAAAAAACAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * *
12014070 ACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAAATCATATTGCGATAGGTGAGTTGA
65 ACGTTGAGGTATTTTCAATTTTTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
12014135 ACCTCAAG--ACGCTGAGGTA
129 GCCTCAAGACACGCTGAGGTA
* * *
12014154 ATTTCAATCTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGCGTTGAGCCTCAAGAC
1 TTTTCAAT-TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * ** * *
12014216 ACGTTGAGGTATTTTCAATTTCTATCTTTAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGA
65 ACGTTGAGGTATTTTCAATTTTTGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
12014281 GCCTCAAGACACGTTGAGGTA
129 GCCTCAAGACACGCTGAGGTA
* ** * *
12014302 TTTTCAATTTCTGTCTTAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
12014367 CGTTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
66 CGTTGAGGTATTTTCAATTTTTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
12014432 CCTCAAG--ACGCTGAGGTA
130 CCTCAAGACACGCTGAGGTA
* * *
12014450 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
12014513 CGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGA
66 CGTTGAGGTATTTTCAATTTTTGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
12014578 ACCTCAAG--ACGCTGAGGTGTTTTCCA
129 GCCTCAAGACACGCTGA-G-G---T--A
* * *
12014604 TTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCC
1 ------TT-TTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* ** *
12014669 TTGACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTGTTTTTCCAAAAAATCAACT
58 -TCA-AGACACGTTGAGGTATTTTC-AA--------TT----TTTGTTTTT-CAAAAAATCAACT
* *
12014734 CATATTGCGAGAGGTGAGTTCAGCCTCAAGACACGCTGAGATA
107 CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
*
12014777 TTTTCAATTTCTTTTTTT
1 TTTTCAATTTCTGTTTTT
12014795 TTTCAATTTA
Statistics
Matches: 1456, Mismatches: 161, Indels: 153
0.82 0.09 0.09
Matches are distributed among these distances:
143 52 0.04
144 13 0.01
145 13 0.01
146 225 0.15
147 73 0.05
148 473 0.32
149 45 0.03
150 110 0.08
151 104 0.07
152 1 0.00
153 4 0.00
154 1 0.00
156 1 0.00
157 3 0.00
160 12 0.01
161 70 0.05
162 9 0.01
163 58 0.04
164 34 0.02
165 2 0.00
166 34 0.02
167 5 0.00
170 1 0.00
171 3 0.00
173 4 0.00
175 45 0.03
176 1 0.00
177 6 0.00
178 38 0.03
179 8 0.01
180 8 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (149 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTATTTTCAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAAGACACGCTGAGGTA
Found at i:12013650 original size:87 final size:90
Alignment explanation
Indices: 12013458--12013724 Score: 303
Period size: 88 Copynumber: 3.0 Consensus size: 90
12013448 CATTGATGTA
* * * * * * * *
12013458 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAACCTCA--AG
1 TTTTTAATTTCTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
* * *
12013521 ACGCTGAGGTGTTTACCA-TTTCTGT
66 ACGCTGAGGTATTTTCAATTTTC-GT
* * *
12013546 TCTTTAATTTCTGTGTTTC-AAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGAC
1 TTTTTAATTTCTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
*
12013610 ACGTTGAGGTATTTTCAATTTTCGT
66 ACGCTGAGGTATTTTCAATTTTCGT
* *
12013635 TTTTTAA-TT-TATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGAC
1 TTTTTAATTTCTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
* * *
12013698 ACGCTAAGGTAATTTCAATTTTTGT
66 ACGCTGAGGTATTTTCAATTTTCGT
12013723 TT
1 TT
12013725 GTCAAAACTC
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
87 44 0.28
88 84 0.54
89 23 0.15
90 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (90 bp):
TTTTTAATTTCTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTCAATTTTCGT
Found at i:12013847 original size:75 final size:75
Alignment explanation
Indices: 12013635--12014617 Score: 1269
Period size: 75 Copynumber: 13.3 Consensus size: 75
12013625 CAATTTTCGT
* * * * * *
12013635 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
12013699 CGCTAAGGTA
66 CGTTGAGGTA
* * * * *
12013709 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12013772 CATTGAGGTA
66 CGTTGAGGTA
* * *
12013782 TTTTCAATTTCTGTTTTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12013847 CGCTGAGGTA
66 CGTTGAGGTA
* * * *
12013857 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12013920 CGTTGAGGTA
66 CGTTGAGGTA
* * *
12013930 TTTTCAATTTCTATCTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12013995 CGTTGAGGTA
66 CGTTGAGGTA
** * * *
12014005 TTTTCAATTTCTGTCTTTAAAAAAAAAACAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
12014070 ACGTTGAGGTA
65 ACGTTGAGGTA
* * *
12014081 TTTTCAATTTCTGTTTTTCAAAAAAATCAAATCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12014144 CGCTGAGGTA
66 CGTTGAGGTA
* * *
12014154 ATTTCAATCTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGCGTTGAGCCTCAAGAC
1 TTTTCAAT-TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
12014216 ACGTTGAGGTA
65 ACGTTGAGGTA
* * * * *
12014227 TTTTCAATTTCTATCTTTAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12014292 CGTTGAGGTA
66 CGTTGAGGTA
* ** * *
12014302 TTTTCAATTTCTGTCTTAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12014367 CGTTGAGGTA
66 CGTTGAGGTA
* * *
12014377 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12014440 CGCTGAGGTA
66 CGTTGAGGTA
* * *
12014450 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
12014513 CGTTGAGGTA
66 CGTTGAGGTA
* * * *
12014523 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* *
12014586 ACGCTGAGGTG
65 ACGTTGAGGTA
* *
12014597 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
12014618 TTTCTGTGTT
Statistics
Matches: 797, Mismatches: 95, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
71 76 0.10
72 2 0.00
73 221 0.28
74 41 0.05
75 349 0.44
76 108 0.14
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTA
Found at i:12014724 original size:14 final size:14
Alignment explanation
Indices: 12014689--12014720 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
12014679 CGCTGAGGTA
12014689 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
12014703 TTTTCAAATT-TGT
1 TTTTCAAATTCTGT
12014716 TTTTC
1 TTTTC
12014721 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:12014759 original size:90 final size:90
Alignment explanation
Indices: 12014586--12015077 Score: 370
Period size: 92 Copynumber: 5.3 Consensus size: 90
12014576 GAACCTCAAG
* * * * * *
12014586 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTG
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTTTC-AAAAAAATCAACTCATATTG
*
12014651 CGAGTGGTGAGTTGAGCCTTGACTCAC
65 CGAGAGGTGAGTTGAGCCTTGA-TCAC
* * *
12014678 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATT-TGTTTTTCCAAAAAATCAACTCATATTGC
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
* * **
12014742 GAGAGGTGAGTTCAGCC-TCAAGAC
66 GAGAGGTGAGTTGAGCCTTGATCAC
* * *
12014766 ACGCTGAGATATTTTCAATTTCTTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATAT
1 ACGCTGAGGTATTTTCAATTTC---TGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAT
*
12014831 TGCGAGAGGTGAGTTGAGCCTCAGATCAC
63 TGCGAGAGGTGAGTTGAGCCT-TGATCAC
* * * * * * * **
12014860 ACGCCGAGGTATTTTCAATTGATTTTTATTTTTATTTTTTTTCAATTTATGCTTTGCAAAAATCA
1 ACGCTGAGGTATTTTCAATT--TCTGT-TTTTCAATTTATGT---TTT-T-C---AAAAAAATCA
* * * *
12014925 ACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAT
55 ACTCATATTGCGAGAGGTGAGTTGAGCCT-TGATCAC
** * ** *
12014962 ATACCGAGGTATTTTCAAAATCTGTTTTATAAATTT-TG-TTTT---AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAATTTCTGTTTT-TCAATTTATGTTTTTCAAAAAAATCAACTCATATTG
* *
12015022 CGAGAAGTGAGTTGAGCCTTGGCTCA-
65 CGAGAGGTGAGTTGAGCCTT-GATCAC
* *
12015048 AGTGCTGAGCTATTTTCAATTTCTGTTTTT
1 A-CGCTGAGGTATTTTCAATTTCTGTTTTT
12015078 AATGTTTAGT
Statistics
Matches: 324, Mismatches: 56, Indels: 46
0.76 0.13 0.11
Matches are distributed among these distances:
86 2 0.01
87 61 0.19
88 22 0.07
89 2 0.01
90 34 0.10
91 18 0.06
92 73 0.23
93 3 0.01
94 32 0.10
95 3 0.01
96 1 0.00
97 2 0.01
98 1 0.00
99 5 0.02
100 8 0.02
102 57 0.18
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:12014836 original size:92 final size:89
Alignment explanation
Indices: 12014523--12014879 Score: 382
Period size: 88 Copynumber: 3.9 Consensus size: 89
12014513 CGTTGAGGTA
* * * *
12014523 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCT--CA-A
1 TTTTCAATTTATGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACA
* * *
12014585 GACGCTGAGGTGTTTTCCATTTCTGT
64 CACGCTGAGGTATTTTCAATTTCTGT
* * * * * *
12014611 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTC
1 TTTTCAATTTATGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCACAC
*
12014676 ACACGCTGAGGTATTTTCAAATTCTGT
63 ACACGCTGAGGTATTTTCAATTTCTGT
* * * *
12014703 TTTTCAAATT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCA-AGAC
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACAC
* *
12014766 ACGCTGAGATATTTTCAATTTCTTTTTT
65 ACGCTGAGGTATTTTCAATTTC---TGT
*
12014794 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACA-CA
*
12014859 CACGCCGAGGTATTTTCAATT
64 CACGCTGAGGTATTTTCAATT
12014880 GATTTTTATT
Statistics
Matches: 229, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
88 75 0.33
89 3 0.01
90 34 0.15
91 21 0.09
92 75 0.33
93 1 0.00
94 20 0.09
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACACA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:12014849 original size:182 final size:178
Alignment explanation
Indices: 12014544--12014877 Score: 458
Period size: 182 Copynumber: 1.9 Consensus size: 178
12014534 TGTCTTTCAA
* * * * *
12014544 AAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGCGAGAGGTAAGTTCAACCTCAAGACGCTGAGATATTTTCAATTTCT
* * * *
12014609 GTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGA
66 GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
*
12014673 CTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTGTTTTTCC
131 -TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTGTTTTTCC
* *
12014722 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAAGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTAAGTTCAACCTCAAG--ACGCTGAGATATTTTCAATTT
* *
12014787 CTTTTTTTTTTCAATTTATGT-TTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 C---TGTTCTTCAATTTATGTGTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
12014850 CTCAGATCACACGCCGAGGTATTTTCAA
125 CTCAGATCACACGCCGAGGTATTTTCAA
12014878 TTGATTTTTA
Statistics
Matches: 135, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
178 38 0.28
180 19 0.14
182 60 0.44
183 18 0.13
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (178 bp):
AAAAAATCAACTCATATTGCGAGAGGTAAGTTCAACCTCAAGACGCTGAGATATTTTCAATTTCT
GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTGTTTTTCC
Found at i:12014886 original size:92 final size:89
Alignment explanation
Indices: 12014523--12015040 Score: 364
Period size: 92 Copynumber: 5.6 Consensus size: 89
12014513 CGTTGAGGTA
* * *
12014523 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTC--A--
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* * * *
12014584 AGACGCTGAGGTGTTTTCCATT-TCTGT
63 ACACGCTGAGGTATTTTCAATTAT-TTT
* * * *
12014611 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGACT
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-T
12014675 CACACGCTGAGGTATTTTCAA--ATTCTGT
62 CACACGCTGAGGTATTTTCAATTATT-T-T
* * * *
12014703 TTTTCAAATTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCA-A-GAC
1 TTTTCAATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
12014766 ACGCTGAGATATTTTCAATTTCTTTTTT
65 ACGCTGAGGTATTTTCAA--T-TATTTT
12014794 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
12014859 CACGCCGAGGTATTTTCAATTGATTTT
64 CACGCTGAGGTATTTTCAATT-ATTTT
** *
12014886 TATTTTTATTTT-TTTTCAATTTATGCTTTGCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 T-TTTCAATTTTGTTTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * ** * *
12014950 GCCTCGGGTCATATACCGAGGTATTTTCAA-AATCTGTT
53 GCCTCAGATCACACGCTGAGGTATTTTCAATTAT-T-TT
* * *
12014988 TTATAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12015041 TGGCTCAAGT
Statistics
Matches: 354, Mismatches: 40, Indels: 73
0.76 0.09 0.16
Matches are distributed among these distances:
87 35 0.10
88 73 0.21
89 1 0.00
90 39 0.11
91 25 0.07
92 78 0.22
93 10 0.03
94 19 0.05
100 2 0.01
101 8 0.02
102 64 0.18
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (89 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
CGCTGAGGTATTTTCAATTATTTT
Found at i:12014969 original size:102 final size:103
Alignment explanation
Indices: 12014790--12014979 Score: 294
Period size: 102 Copynumber: 1.8 Consensus size: 103
12014780 TCAATTTCTT
*
12014790 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
12014855 ATCACACGCCGAGGTATTTTCAATTGATTTTTATTTTTA
65 ATCACACACCGAGGTATTTTCAATTGATTTTTATTTTTA
*
12014894 TTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* * *
12014957 GTCATATACCGAGGTATTTTCAA
65 ATCACACACCGAGGTATTTTCAA
12014980 AATCTGTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
102 57 0.72
104 18 0.23
105 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (103 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
TCACACACCGAGGTATTTTCAATTGATTTTTATTTTTA
Found at i:12015063 original size:87 final size:87
Alignment explanation
Indices: 12014917--12015122 Score: 247
Period size: 87 Copynumber: 2.4 Consensus size: 87
12014907 TATGCTTTGC
* * * *
12014917 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCATATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCATATACCGAGCTATTTTCAAAA
12014982 TCTGTTTTATAAAT-TTT-GTTTT
66 TCTGTTTT-T-AATGTTTAGTTTT
* * * *
12015004 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA-AGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCATA-TACCGAGCTATTTTCAAA
*
12015068 TTCTGTTTTTAATGTTTAGTTTT
65 ATCTGTTTTTAATGTTTAGTTTT
* * *
12015091 AAAGAGTCAATTCATATTGCGAGAAATGAGTT
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTT
12015123 AAGCTCAAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
85 3 0.03
86 5 0.05
87 70 0.68
88 25 0.24
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCATATACCGAGCTATTTTCAAAA
TCTGTTTTTAATGTTTAGTTTT
Found at i:12015794 original size:30 final size:30
Alignment explanation
Indices: 12015758--12015856 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
12015748 CTAGCCTTTG
12015758 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
** *
12015788 CCACCACTTACTCCACTAGCCACATTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
12015818 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
12015848 CCACCACCA
1 CCACCACCA
12015857 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:12016631 original size:25 final size:24
Alignment explanation
Indices: 12016603--12016658 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
12016593 GTTATATTTT
*
12016603 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
12016628 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
12016651 CACTATTA
1 CACTATTA
12016659 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:12019717 original size:40 final size:40
Alignment explanation
Indices: 12019672--12019751 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
12019662 ATACACCATT
* *
12019672 TGGGGATATAATCGACCCA-CCTGGCCCTACACACCAAATA
1 TGGGGATAAAATCGACCCATCC-AGCCCTACACACCAAATA
* *
12019712 TGGGGATAAAATTGACCCATCCAGCCCTATACACCAAATA
1 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAATA
12019752 GTACCGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAATA
Found at i:12023045 original size:101 final size:101
Alignment explanation
Indices: 12022870--12023070 Score: 375
Period size: 101 Copynumber: 2.0 Consensus size: 101
12022860 TGACTAACCC
12022870 AACAGACTAATCACAGGAAACTCTCTAGCAGTATTCTCAGCAGTTAAAACCAGATTTACAGAAAC
1 AACAGACTAATCACAGGAAACTCTCTAGCAGTATTCTCAGCAGTTAAAACCAGATTTACAGAAAC
*
12022935 AACACTAGCTATATACGAGTAACTAGAGCCAATATT
66 AACACTAGCTATATACGAGTAACTAAAGCCAATATT
*
12022971 AACAGACTAATCACAGGAAACTCTCTAGCAGTATTCTCAGCAGTTAAACCCAGATTTACAGAAAC
1 AACAGACTAATCACAGGAAACTCTCTAGCAGTATTCTCAGCAGTTAAAACCAGATTTACAGAAAC
*
12023036 AACACTAGCTATATACGAGTAAGTAAAGCCAATAT
66 AACACTAGCTATATACGAGTAACTAAAGCCAATAT
12023071 CAATGAGAGC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (101 bp):
AACAGACTAATCACAGGAAACTCTCTAGCAGTATTCTCAGCAGTTAAAACCAGATTTACAGAAAC
AACACTAGCTATATACGAGTAACTAAAGCCAATATT
Found at i:12027259 original size:29 final size:30
Alignment explanation
Indices: 12027197--12027291 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
12027187 CTACATCCAA
* * * **
12027197 GGTCATTAAACTATTAATAAGTTTATATTTT
1 GGTCATTCAACTATTAAAAAG-TTACAAATT
*
12027228 GGTTATTCAACT-TTAAAAAGTTACAAATT
1 GGTCATTCAACTATTAAAAAGTTACAAATT
* * *
12027257 GGTCATTGAACTATTCAAAAGTTACAAGTT
1 GGTCATTCAACTATTAAAAAGTTACAAATT
12027287 GGTCA
1 GGTCA
12027292 CTGGCATGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 16 0.30
30 27 0.51
31 10 0.19
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (30 bp):
GGTCATTCAACTATTAAAAAGTTACAAATT
Found at i:12028022 original size:18 final size:20
Alignment explanation
Indices: 12027996--12028038 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
12027986 TCCTTTCATT
*
12027996 TCTTTATCTTTCT-TTC-TC
1 TCTTAATCTTTCTATTCTTC
*
12028014 TCTTAATCTTTGTATTCTTC
1 TCTTAATCTTTCTATTCTTC
12028034 TCTTA
1 TCTTA
12028039 CTTTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 3 0.14
20 7 0.33
ACGTcount: A:0.12, C:0.23, G:0.02, T:0.63
Consensus pattern (20 bp):
TCTTAATCTTTCTATTCTTC
Found at i:12028700 original size:12 final size:12
Alignment explanation
Indices: 12028683--12028715 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
12028673 CGGTCCGCCC
12028683 ATATTAATTTTT
1 ATATTAATTTTT
12028695 ATATT-ATTTTT
1 ATATTAATTTTT
12028706 ATA-TAATTTT
1 ATATTAATTTT
12028716 AAAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:12028956 original size:22 final size:22
Alignment explanation
Indices: 12028931--12028973 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12028921 TATCCAAACA
12028931 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* *
12028953 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
12028974 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:12028977 original size:11 final size:11
Alignment explanation
Indices: 12028939--12028978 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
12028929 CAATAACAAT
12028939 AAAATAGTAGC
1 AAAATAGTAGC
* * *
12028950 AACATAATAGT
1 AAAATAGTAGC
12028961 AAAATAGTAGC
1 AAAATAGTAGC
12028972 AAAATAG
1 AAAATAG
12028979 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:12032402 original size:307 final size:300
Alignment explanation
Indices: 12031822--12032427 Score: 686
Period size: 307 Copynumber: 2.0 Consensus size: 300
12031812 GATTTAATTA
* * * *
12031822 ATAGTATAGATATACAATGGATTGAAGTAATAAAGCGTGCATTATCAAAATAAAAATGTATAAAA
1 ATAGTATAGATATACAATGGATGGAAGTAATAAAACATGCATAATCAAAATAAAAATGTATAAAA
* *
12031887 ATATCAAAGTAAAATTCTAGTTGAGTGGTAAATTAAAGGTTTTATTTATGCAATTGGTTTGGATT
66 ATATCAAAATAAAATTCTAGTTGAGTGGTAAATTAAAGGTTTTATTAATGCAATTGGTTTGGATT
* * * *
12031952 CAAATATCACTATTTTCGTATTTTATTTATTTTTTAAAATGAAAAAGATTAAAGTACACTCGAAT
131 CAAATATCACAATTTGCATATTTTATTTATTTTTTAAAATGAAAAAGATTAAAGTACACTCAAAT
** * * *
12032017 AATATGACTTATTTTAATTACAAAAAAGCATTTTCATAATTTAACAACTAAGTTGGTGACTTAAT
196 AATACAACTTATTTTAATTACAAAAAAGCATTTTCATAATTTAACAACTAAGTTAGCGACTCAAT
12032082 TAAGGGTGACACCAACTAAGTAAAACACTTAAATAATAGT
261 TAAGGGTGACACCAACTAAGTAAAACACTTAAATAATAGT
* * * * * *
12032122 ATAGATATAGATATACAATTGATGGAAGTAATAAAATATGCATAATTAAATTGAAAGTGTATAAA
1 ATAG-TATAGATATACAATGGATGGAAGTAATAAAACATGCATAATCAAAATAAAAATGTATAAA
* *
12032187 AATATCAAAATAAATAAAACTT-TAGTTGAGTGGTAAGTTAAAAGGTTTTATTAATTCAATTGGT
65 AATATC---A-AAATAAAA-TTCTAGTTGAGTGGTAAATT-AAAGGTTTTATTAATGCAATTGGT
* * * *
12032251 TTGGATTTAAATCTCACAATTTGCATATTTTTATTGGT-TTTTTTAAATTGAAAAA-ATTAAATT
124 TTGGATTCAAATATCACAATTTGCATA-TTTTATT--TATTTTTTAAAATGAAAAAGATTAAAGT
* * * ** * * * *
12032314 ACCCTCAAATAATACAATTTATTTTGATTATGAAAACGCGTTTAT-GTAATTTAACAATTGAA-T
186 ACACTCAAATAATACAACTTATTTTAATTACAAAAAAGCATTT-TCATAATTTAACAACT-AAGT
* * *
12032377 TAGCGA-TCCGATTGAA-GGTGACACCAATTTAGTAAAACACTTAAATAATAG
249 TAGCGACT-CAATT-AAGGGTGACACCAACTAAGTAAAACACTTAAATAATAG
12032428 CACATATTTT
Statistics
Matches: 253, Mismatches: 39, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
300 4 0.02
301 56 0.22
304 1 0.00
305 23 0.09
306 47 0.19
307 100 0.40
308 21 0.08
309 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (300 bp):
ATAGTATAGATATACAATGGATGGAAGTAATAAAACATGCATAATCAAAATAAAAATGTATAAAA
ATATCAAAATAAAATTCTAGTTGAGTGGTAAATTAAAGGTTTTATTAATGCAATTGGTTTGGATT
CAAATATCACAATTTGCATATTTTATTTATTTTTTAAAATGAAAAAGATTAAAGTACACTCAAAT
AATACAACTTATTTTAATTACAAAAAAGCATTTTCATAATTTAACAACTAAGTTAGCGACTCAAT
TAAGGGTGACACCAACTAAGTAAAACACTTAAATAATAGT
Found at i:12032611 original size:41 final size:41
Alignment explanation
Indices: 12032566--12032645 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
12032556 ATACATAAAT
** *
12032566 TTTAATTTTATGCAATTATATATATAACATTTTAATTTTAC
1 TTTAATTTTAAACAATTATATATACAACATTTTAATTTTAC
*
12032607 TTTAATTTTAAACAATTATATATACCACATTTTAATTTT
1 TTTAATTTTAAACAATTATATATACAACATTTTAATTTT
12032646 GGATATTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.53
Consensus pattern (41 bp):
TTTAATTTTAAACAATTATATATACAACATTTTAATTTTAC
Found at i:12034960 original size:12 final size:12
Alignment explanation
Indices: 12034943--12034975 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12034933 GATTTGCATG
12034943 AAAGAAGAGAAA
1 AAAGAAGAGAAA
*
12034955 AAAGAAAAGAAA
1 AAAGAAGAGAAA
12034967 AAA-AAGAGA
1 AAAGAAGAGA
12034976 TGAAACTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAGAGAAA
Found at i:12035686 original size:14 final size:14
Alignment explanation
Indices: 12035663--12035702 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12035653 CGAATCGAAC
*
12035663 CGAGTGAAATTATT
1 CGAGTTAAATTATT
*
12035677 TGAGTTAAATTATT
1 CGAGTTAAATTATT
*
12035691 CGAATTAAATTA
1 CGAGTTAAATTA
12035703 AAAATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (14 bp):
CGAGTTAAATTATT
Found at i:12036171 original size:62 final size:62
Alignment explanation
Indices: 12036098--12036218 Score: 197
Period size: 62 Copynumber: 2.0 Consensus size: 62
12036088 ATTCAAACTT
* * * * *
12036098 GAAACTTGAATTACTTATTTGAGTTGATTTGTAAAAATTGAATAACTCTATTCGATTAATTC
1 GAAACTCGAATTACTTATTTGAGTTGACTCGTAAAAATTAAATAACTCGATTCGATTAATTC
12036160 GAAACTCGAATTACTTATTTGAGTTGACTCGTAAAAATTAAATAACTCGATTCGATTAA
1 GAAACTCGAATTACTTATTTGAGTTGACTCGTAAAAATTAAATAACTCGATTCGATTAA
12036219 CTTGAAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (62 bp):
GAAACTCGAATTACTTATTTGAGTTGACTCGTAAAAATTAAATAACTCGATTCGATTAATTC
Found at i:12036658 original size:26 final size:26
Alignment explanation
Indices: 12036619--12036681 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
12036609 AAATAATTTT
* *
12036619 AAAATTTAAAATATTTATAAAA-ATTA
1 AAAATTTTAAATATTCA-AAAATATTA
* *
12036645 AAAATTTTATATATTCAAAAATTTTA
1 AAAATTTTAAATATTCAAAAATATTA
12036671 AAAATTTTAAA
1 AAAATTTTAAA
12036682 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAATTTTAAATATTCAAAAATATTA
Found at i:12036687 original size:9 final size:9
Alignment explanation
Indices: 12036613--12036686 Score: 61
Period size: 8 Copynumber: 8.7 Consensus size: 9
12036603 TAATACAAAT
12036613 AATTTT-AA
1 AATTTTAAA
12036621 AA-TTTAAA
1 AATTTTAAA
12036629 ATATTTATAAA
1 A-ATTT-TAAA
12036640 AA--TTAAA
1 AATTTTAAA
*
12036647 AATTTTATA
1 AATTTTAAA
* *
12036656 TA-TTCAAA
1 AATTTTAAA
12036664 AATTTTAAA
1 AATTTTAAA
12036673 AATTTT-AA
1 AATTTTAAA
12036681 AATTTT
1 AATTTT
12036687 TTTAAAGAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
7 9 0.17
8 19 0.36
9 17 0.32
10 3 0.06
11 5 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTTTAAA
Found at i:12036687 original size:18 final size:17
Alignment explanation
Indices: 12036613--12036686 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
12036603 TAATACAAAT
12036613 AATTTT-AAAATTTAAA
1 AATTTTAAAAATTTAAA
12036629 ATATTTATAAAAA-TTAAA
1 A-ATTT-TAAAAATTTAAA
* * *
12036647 AATTTTATATATTCAAA
1 AATTTTAAAAATTTAAA
*
12036664 AATTTTAAAAATTTTAA
1 AATTTTAAAAATTTAAA
12036681 AATTTT
1 AATTTT
12036687 TTTAAAGAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
16 5 0.11
17 31 0.66
18 7 0.15
19 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTAAAAATTTAAA
Found at i:12036890 original size:20 final size:20
Alignment explanation
Indices: 12036848--12036891 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12036838 ATTATAATAA
**
12036848 AATTTTAATTTAATATATTT
1 AATTTTAATTTAATATAAAT
12036868 AATTTTAATTTAAT-TCAAAT
1 AATTTTAATTTAATAT-AAAT
12036888 AATT
1 AATT
12036892 AATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTAATTTAATATAAAT
Found at i:12036902 original size:25 final size:26
Alignment explanation
Indices: 12036845--12036903 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
12036835 AATATTATAA
* *
12036845 TAAAATTTTAATTTAATATATTTAATT
1 TAAAA-TTTAATTCAATATAATTAATT
*
12036872 T-TAATTTAATTCAA-ATAATTAATT
1 TAAAATTTAATTCAATATAATTAATT
12036896 TAAAATTT
1 TAAAATTT
12036904 TTCCACTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 10 0.37
25 14 0.52
26 2 0.07
27 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAAATTTAATTCAATATAATTAATT
Found at i:12046292 original size:25 final size:25
Alignment explanation
Indices: 12046258--12046311 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
12046248 TTCCTTATAA
12046258 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
*
12046283 ACTTTAAATTAGGAATTCTATTATG
1 ACTTTAAATTAGGAATTCTATTAGG
12046308 ACTT
1 ACTT
12046312 CCCCTTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Found at i:12050951 original size:25 final size:25
Alignment explanation
Indices: 12050914--12050962 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
12050904 CCTTATAAAC
12050914 TTTAAATTAGGAATTCTATTAGGAG
1 TTTAAATTAGGAATTCTATTAGGAG
*
12050939 TTTAAATTCGGAATTCTATTAGGA
1 TTTAAATTAGGAATTCTATTAGGA
12050963 CTTTCCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (25 bp):
TTTAAATTAGGAATTCTATTAGGAG
Found at i:12053724 original size:16 final size:16
Alignment explanation
Indices: 12053688--12053726 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
12053678 CAAATTTAAT
12053688 TTAAAAAATTAAATTA
1 TTAAAAAATTAAATTA
*
12053704 ATAAAAAATATAAA-TA
1 TTAAAAAAT-TAAATTA
12053720 TTAAAAA
1 TTAAAAA
12053727 CTAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAAATTAAATTA
Found at i:12056906 original size:48 final size:48
Alignment explanation
Indices: 12056810--12056928 Score: 132
Period size: 48 Copynumber: 2.4 Consensus size: 48
12056800 GGAACTCTAC
* * * *
12056810 ATATAATTTTGATGATACTAATTTAGTTCTAACTAAGGTATATATAT-A
1 ATATAATTTT-ATAATCCTAATTCAGTTCTAACTAAGATATATATATAA
* *
12056858 ATATAATTTTCATAATCCTAATTCAGTTCTAACTAATATATATTTATAAA
1 ATATAATTTT-ATAATCCTAATTCAGTTCTAACTAAGATATATATAT-AA
* *
12056908 ATATAACTTTGTAATCCTAAT
1 ATATAATTTTATAATCCTAAT
12056929 AATACTAGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
48 40 0.67
49 10 0.17
50 10 0.17
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (48 bp):
ATATAATTTTATAATCCTAATTCAGTTCTAACTAAGATATATATATAA
Found at i:12062887 original size:5 final size:5
Alignment explanation
Indices: 12062877--12062902 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12062867 CAATTTGTGA
12062877 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
12062903 CACACAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:12064220 original size:43 final size:43
Alignment explanation
Indices: 12064173--12064290 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 43
12064163 CCTTGATTGA
*
12064173 GATTTACGTATAAGACCATGTCCGGGACATCGGCATCG-TATCT
1 GATTTACGTGTAAGACCATGTCCGGGACATCGGCATCGATAT-T
** **
12064216 GATTT-CGTGTAAGACTC-TGTCTAGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGAC-CATGTCCGGGACATCGGCATCGATATT
* * * *
12064258 GAGTTACATGTAAGACCACGTCCGGGACTTCGG
1 GATTTACGTGTAAGACCATGTCCGGGACATCGG
12064291 TATTGTACTT
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
42 31 0.53
43 27 0.47
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCCGGGACATCGGCATCGATATT
Found at i:12067534 original size:47 final size:47
Alignment explanation
Indices: 12067308--12067535 Score: 214
Period size: 47 Copynumber: 4.8 Consensus size: 47
12067298 ATAGTAAAAC
*
12067308 TATGGTCTTACAC--ATAGTCACATATCATACACCGAAGCCATAGCCCA-A
1 TATGGTCTTACACGGA-AG-CACATATC--ACACCGATGCCATAGCCCAGA
* * * * *
12067356 CCATGGTCTTACACGG-ATCACATATCACACTGATGCTATATCCCAGA
1 -TATGGTCTTACACGGAAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
12067403 TATGGTCTTACACAGAAGCACATATCACACCGATGTCATATCTCAAA
1 TATGGTCTTACACGGAAGCACATATCACACCGATGCCATAGCCCAGA
* * *
12067450 TATGGTCTTATACGGAAGCTCATATCACATCGATGCCATAGCCCAGA
1 TATGGTCTTACACGGAAGCACATATCACACCGATGCCATAGCCCAGA
* * *
12067497 TATGGTCTTATACGGAAATCACATATCACA-CGTTGCCAT
1 TATGGTCTTACACGG-AAGCACATATCACACCGATGCCAT
12067536 GGTCTAATCA
Statistics
Matches: 149, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
46 28 0.19
47 88 0.59
48 20 0.13
49 13 0.09
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (47 bp):
TATGGTCTTACACGGAAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:12068088 original size:16 final size:16
Alignment explanation
Indices: 12068069--12068099 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12068059 TTCTATCAAA
12068069 ATCATTTAATAAAATC
1 ATCATTTAATAAAATC
12068085 ATCATTTAATAAAAT
1 ATCATTTAATAAAAT
12068100 AAGAACTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (16 bp):
ATCATTTAATAAAATC
Found at i:12071666 original size:30 final size:31
Alignment explanation
Indices: 12071642--12071699 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
12071632 GTAAATACTC
*
12071642 AAAATTTGAAGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
12071672 AAAATTTGAAGGACTAATAGTGAAAATA
1 AAAATTTGAAGGACTAATAGTGTAAATA
12071700 GTTTAAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.28
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:12071965 original size:8 final size:8
Alignment explanation
Indices: 12071954--12071978 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12071944 TTTAATAAGA
12071954 TATTTTAT
1 TATTTTAT
12071962 TATTTTAT
1 TATTTTAT
12071970 TATTTTAT
1 TATTTTAT
12071978 T
1 T
12071979 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:12078415 original size:2 final size:2
Alignment explanation
Indices: 12078408--12078510 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
12078398 CATCTTTCTT
12078408 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
12078450 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
12078492 AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC A
12078511 TGTATCTACT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12079245 original size:12 final size:12
Alignment explanation
Indices: 12079228--12079271 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
12079218 CCGTGGGTTC
12079228 TCTTTCTTTTTT
1 TCTTTCTTTTTT
*
12079240 TCTTTCTCTTTT
1 TCTTTCTTTTTT
*
12079252 TCTTCCTTTCTTT
1 TCTTTCTTT-TTT
12079265 TCTTTCT
1 TCTTTCT
12079272 AATTTTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TCTTTCTTTTTT
Found at i:12079277 original size:25 final size:24
Alignment explanation
Indices: 12079228--12079277 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
12079218 CCGTGGGTTC
* **
12079228 TCTTTCTTTTTTTCTTTCTCTTTT
1 TCTTCCTTTTTTTCTTTCTAATTT
12079252 TCTTCCTTTCTTTTCTTTCTAATTT
1 TCTTCCTTT-TTTTCTTTCTAATTT
12079277 T
1 T
12079278 GTTTGGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (24 bp):
TCTTCCTTTTTTTCTTTCTAATTT
Found at i:12080396 original size:57 final size:53
Alignment explanation
Indices: 12080333--12080456 Score: 135
Period size: 57 Copynumber: 2.3 Consensus size: 53
12080323 CAAATTACTA
* * *
12080333 TTTTAGAATATTTTTAAAATTTGAAAATTTTAAATTTTGTATATATTTTTTTAGAAT
1 TTTTAGAATATTTTTAAAATAT--AAATTTTAAATTTTGTATA-AATATTTT-GAAT
* *
12080390 TTTTAGAA-ATTTTTTAAAATATAAATTTTGAATTTTTTATAAATATTTTGAAT
1 TTTTAGAATA-TTTTTAAAATATAAATTTTAAATTTTGTATAAATATTTTGAAT
*
12080443 TTTT-GAATTTTTTT
1 TTTTAGAATATTTTT
12080457 TTGTAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
52 8 0.14
53 8 0.14
54 6 0.10
55 17 0.29
56 1 0.02
57 19 0.32
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (53 bp):
TTTTAGAATATTTTTAAAATATAAATTTTAAATTTTGTATAAATATTTTGAAT
Found at i:12083430 original size:5 final size:5
Alignment explanation
Indices: 12083420--12083456 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
12083410 GCTCAAAAGA
*
12083420 TTTAT TTTAT TTTAT TTTAT TTTAA TTTAT TGTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T
12083457 GCTATTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:12083488 original size:6 final size:6
Alignment explanation
Indices: 12083447--12083488 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
12083437 TATTTTAATT
*
12083447 TATTGT TATTGC TATTGC TATTGC TATTGC TATTGC TATTGC
1 TATTGC TATTGC TATTGC TATTGC TATTGC TATTGC TATTGC
12083489 AATTTCTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52
Consensus pattern (6 bp):
TATTGC
Found at i:12084368 original size:111 final size:110
Alignment explanation
Indices: 12084175--12084399 Score: 369
Period size: 111 Copynumber: 2.0 Consensus size: 110
12084165 GGTGTTTATA
* * *
12084175 TTGGATGTTCGTTGCTTAATAGATGGTTCTGTATTGAATATTAATAATGGCTCCTACAGTAATGA
1 TTGGATATTCATTGCTTAATAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATGA
* * *
12084240 AAAGTGACTATTGTTCTTTTTTCTTCTTCAAGCTTTTTAGATATT
66 AAAATAACTATTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT
12084285 TTGGATATTCATTGCTTAATTAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATG
1 TTGGATATTCATTGCTTAA-TAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATG
* *
12084350 AAAAATAATTGTTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT
65 AAAAATAACTATTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT
12084396 TTGG
1 TTGG
12084400 TTATATATGT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 17 0.16
111 89 0.84
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (110 bp):
TTGGATATTCATTGCTTAATAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATGA
AAAATAACTATTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT
Found at i:12088414 original size:2 final size:2
Alignment explanation
Indices: 12088407--12088441 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12088397 CCAAAGTGAG
12088407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12088442 AAAGTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12088933 original size:3 final size:3
Alignment explanation
Indices: 12088915--12089000 Score: 88
Period size: 3 Copynumber: 29.0 Consensus size: 3
12088905 ATATAATACC
* * * * *
12088915 AAT AGT AAT AAT -AT AAT AAT GAC AA- AAGT AAC AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
12088959 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT CAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
12089001 GATGATGATG
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
2 6 0.08
3 61 0.86
4 4 0.06
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:12093907 original size:17 final size:16
Alignment explanation
Indices: 12093885--12093920 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
12093875 GAAGTATTAT
12093885 AAAAAGAAAAAAGAAAG
1 AAAAAGAAAAAAG-AAG
*
12093902 AAAAAGAGAAAAGAAG
1 AAAAAGAAAAAAGAAG
12093918 AAA
1 AAA
12093921 TAATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAG
Found at i:12095218 original size:23 final size:23
Alignment explanation
Indices: 12095191--12095249 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
12095181 TAAAGTAAGA
*
12095191 TTTAAATGTTGTCCAAAATATGT
1 TTTAAATGTTGTCCAAAACATGT
** *
12095214 TTTAAATGTCATCCAAAGCATGT
1 TTTAAATGTTGTCCAAAACATGT
*
12095237 TTTAAGTGTTGTC
1 TTTAAATGTTGTC
12095250 AAAGCTAGAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (23 bp):
TTTAAATGTTGTCCAAAACATGT
Found at i:12095889 original size:72 final size:71
Alignment explanation
Indices: 12095771--12095946 Score: 219
Period size: 72 Copynumber: 2.5 Consensus size: 71
12095761 ATGAACATTT
* * *
12095771 ATTTGTCGATTTTACCGACCAACGAGGGCGTACTTATTTGTTAGTTATACCGACTAGTGCTGAGA
1 ATTTGTCGATTTTACCGACCAACGAGGGCGCACTTATTTGTCAGTTATACCGACCAGTGCTGAGA
12095836 ACACTC
66 ACACTC
* * * *
12095842 AATTT-TTGATTTTACCGACCAGCGCAGGGCGCACTTATTTGTCAGTTATACTGACCAGTGCTGG
1 -ATTTGTCGATTTTACCGACCAACG-AGGGCGCACTTATTTGTCAGTTATACCGACCAGTGCTGA
*
12095906 GCACACTC
64 GAACACTC
* * *
12095914 ATTTGTCGATTTTACTGGCCAATGTAGGGCGCA
1 ATTTGTCGATTTTACCGACCAACG-AGGGCGCA
12095947 ATTCGTTATT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 21 0.24
72 67 0.76
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (71 bp):
ATTTGTCGATTTTACCGACCAACGAGGGCGCACTTATTTGTCAGTTATACCGACCAGTGCTGAGA
ACACTC
Found at i:12095918 original size:36 final size:36
Alignment explanation
Indices: 12095806--12095920 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
12095796 GGGCGTACTT
* * * *
12095806 ATTTGTTAGTTATACCGACTAGTGCTGAGAACACTC
1 ATTTGTCAGTTATACCGACCAGTGCTGGGCACACTC
* * * * * * *
12095842 AATTTTTGA-TTTTACCGACCAGCGCAGGGCGCACTT
1 -ATTTGTCAGTTATACCGACCAGTGCTGGGCACACTC
*
12095878 ATTTGTCAGTTATACTGACCAGTGCTGGGCACACTC
1 ATTTGTCAGTTATACCGACCAGTGCTGGGCACACTC
12095914 ATTTGTC
1 ATTTGTC
12095921 GATTTTACTG
Statistics
Matches: 59, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
35 6 0.10
36 47 0.80
37 6 0.10
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (36 bp):
ATTTGTCAGTTATACCGACCAGTGCTGGGCACACTC
Found at i:12097387 original size:46 final size:46
Alignment explanation
Indices: 12097320--12097431 Score: 163
Period size: 46 Copynumber: 2.4 Consensus size: 46
12097310 TGTAACCCGC
* *
12097320 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCACAT
* **
12097366 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
12097412 CCATAAGTGAACTCGGACTC
1 CCATAAGTGAACTCGGACTC
12097432 GATTCAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.03
46 57 0.97
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:12098902 original size:21 final size:20
Alignment explanation
Indices: 12098876--12098935 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
12098866 ACACGGTTTG
12098876 TCCACACGACTATGTAACATA
1 TCCACACGACTATGTAAC-TA
* * * *
12098897 TCCACACAACTGTGTGACTC
1 TCCACACGACTATGTAACTA
*
12098917 TCACACACGACCATGTAAC
1 TC-CACACGACTATGTAAC
12098936 GCCCCTAACC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.22
Consensus pattern (20 bp):
TCCACACGACTATGTAACTA
Found at i:12099944 original size:46 final size:46
Alignment explanation
Indices: 12099877--12099970 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
12099867 ATATTCCCGC
12099877 TTATTTCTATTGAAAATAGACTCTTTAAGGATTTTAAATATATAAA
1 TTATTTCTATTGAAAATAGACTCTTTAAGGATTTTAAATATATAAA
*
12099923 TTATTTTTATTGAAAATAGACTCTTTAAGGATTTTAAATATATAAA
1 TTATTTCTATTGAAAATAGACTCTTTAAGGATTTTAAATATATAAA
12099969 TT
1 TT
12099971 TAATCCCTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (46 bp):
TTATTTCTATTGAAAATAGACTCTTTAAGGATTTTAAATATATAAA
Found at i:12108113 original size:29 final size:29
Alignment explanation
Indices: 12108081--12108153 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
12108071 CTTCGAGCTC
* *
12108081 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
12108110 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
12108139 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
12108154 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:12109354 original size:19 final size:18
Alignment explanation
Indices: 12109311--12109357 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
12109301 AGAATGAACA
* *
12109311 CTTTTTTTTTCCTTTTCT
1 CTTTTTTTTTCATATTCT
12109329 -TTGTTTTTCTTCATATTCT
1 CTT-TTTTT-TTCATATTCT
12109348 CTTTTTTTTT
1 CTTTTTTTTT
12109358 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.08
18 7 0.29
19 13 0.54
20 2 0.08
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (18 bp):
CTTTTTTTTTCATATTCT
Found at i:12116007 original size:29 final size:29
Alignment explanation
Indices: 12115975--12116047 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
12115965 CTTCGAGCTC
* *
12115975 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
12116004 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
12116033 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
12116048 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:12117259 original size:24 final size:24
Alignment explanation
Indices: 12117218--12117273 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
12117208 TTTTTTTCCT
12117218 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
12117243 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
12117266 TATTCTTT
1 T-TTCTTT
12117274 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:12119796 original size:33 final size:33
Alignment explanation
Indices: 12119650--12119828 Score: 112
Period size: 33 Copynumber: 5.4 Consensus size: 33
12119640 CAGTGTTTAT
* *
12119650 ATGTAAGACCATAGTTAGGCTATGGAATTCT-G
1 ATGTAAGACCATAGTTGGGCTATGGCATTCTAG
** * * * * *
12119682 ATGATAAGACCATAACTGGGTTATAGCACTATGG
1 ATG-TAAGACCATAGTTGGGCTATGGCATTCTAG
* * * * * *
12119716 ACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
1 ATGTAAGACCATAGTTGGGCTATGGCA-T-TCTAG
12119751 ATGTAAGACCATAGTTGGGCTATGGCATTCT-G
1 ATGTAAGACCATAGTTGGGCTATGGCATTCTAG
** * * *
12119783 ATGATAAGACCATAACTAGGTTATGGCACTACTA-
1 ATG-TAAGACCATAGTTGGGCTATGGCA-TTCTAG
12119817 ATGTAAGACCAT
1 ATGTAAGACCAT
12119829 GGTAAGGCCA
Statistics
Matches: 109, Mismatches: 31, Indels: 13
0.71 0.20 0.08
Matches are distributed among these distances:
32 6 0.06
33 68 0.62
34 10 0.09
35 25 0.23
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
ATGTAAGACCATAGTTGGGCTATGGCATTCTAG
Found at i:12119812 original size:101 final size:102
Alignment explanation
Indices: 12119628--12119876 Score: 339
Period size: 101 Copynumber: 2.5 Consensus size: 102
12119618 GCATTCGCAC
* *
12119628 GTAA-GACCATGGCAGTGTTTATATGTAAGACCATAGTTAGGCTATGGAATTCTGATGATAAGAC
1 GTAAGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGAC
* *
12119692 CATAACTGGGTTATAGCACTA-TGGACGTAAGACCATG
66 CATAACTAGGTTATAGCACTACT-AACGTAAGACCATG
*
12119729 GT-TGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGAC
1 GTAAGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGAC
* *
12119793 CATAACTAGGTTATGGCACTACTAATGTAAGACCATG
66 CATAACTAGGTTATAGCACTACTAACGTAAGACCATG
* * * * *
12119830 GTAAGG-CCATGGCAATG--CATATATAAGATCATAGTTGGACTATGGCA
1 GTAAGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCA
12119877 CAAAGGAAAC
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
99 26 0.20
101 103 0.78
102 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (102 bp):
GTAAGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGAC
CATAACTAGGTTATAGCACTACTAACGTAAGACCATG
Found at i:12129526 original size:20 final size:19
Alignment explanation
Indices: 12129492--12129544 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
12129482 CCCCTCCACA
*
12129492 CACAATTTTCACAAATTCTCT
1 CACAA-TTTCTCAAATT-TCT
12129513 C-CTAATTTCTCAAATTTCT
1 CAC-AATTTCTCAAATTTCT
12129532 CACAA-TTCTCAAA
1 CACAATTTCTCAAA
12129545 AAGCTCTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
20 12 0.41
21 3 0.10
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (19 bp):
CACAATTTCTCAAATTTCT
Found at i:12129757 original size:8 final size:9
Alignment explanation
Indices: 12129736--12129760 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12129726 AATTTGAAAT
12129736 TTTTTTAAA
1 TTTTTTAAA
12129745 TTTTTTAAA
1 TTTTTTAAA
12129754 TTTTTTA
1 TTTTTTA
12129761 TTTCATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:12134850 original size:47 final size:47
Alignment explanation
Indices: 12134778--12135218 Score: 677
Period size: 47 Copynumber: 9.3 Consensus size: 47
12134768 CCCTTCGGGA
* * * * * * *
12134778 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
12134825 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12134872 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12134919 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12134968 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12135017 CTT-TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
12135063 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12135110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12135157 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12135204 CTTATCACATATATA
1 CTTATCACATATATA
12135219 TATCTCATAC
Statistics
Matches: 369, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
46 40 0.11
47 236 0.64
48 4 0.01
49 89 0.24
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12134856 original size:25 final size:25
Alignment explanation
Indices: 12134828--12134906 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
12134818 ACTCGGCCCT
*
12134828 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
12134853 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
12134875 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
12134900 ATCACAT
1 ATCACAT
12134907 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:12135221 original size:238 final size:237
Alignment explanation
Indices: 12134782--12135220 Score: 763
Period size: 238 Copynumber: 1.9 Consensus size: 237
12134772 TCGGGACTTA
* * *
12134782 TCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACACTTTC
1 TCACATATATACACTTCCACATCCATCACATTGGCCACTAGGCCCTATCACATATATACACTTTC
12134847 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCC
66 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCC
12134912 ATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 ATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
12134977 TATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTT
195 TATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTT
* * * * * *
12135020 TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCTCATATATGCACTTTC
1 TCACATATATACACTTCCACATCCATCACATTGGCCACTAGGCCCTATCACATATATACACTTTC
*
12135085 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCC
*
12135150 ATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAT
131 ATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
12135214 ATATATA
196 ATATATA
12135221 TCTCATACAT
Statistics
Matches: 190, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
236 55 0.29
238 135 0.71
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (237 bp):
TCACATATATACACTTCCACATCCATCACATTGGCCACTAGGCCCTATCACATATATACACTTTC
ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTT
Found at i:12146067 original size:19 final size:19
Alignment explanation
Indices: 12146039--12146078 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12146029 CGGCCTCTGG
*
12146039 GATAGTAGCCAAAAACAGT
1 GATAGCAGCCAAAAACAGT
*
12146058 GATAGCAGCCAGAAACAGT
1 GATAGCAGCCAAAAACAGT
12146077 GA
1 GA
12146079 AGGGTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.12
Consensus pattern (19 bp):
GATAGCAGCCAAAAACAGT
Found at i:12148148 original size:31 final size:29
Alignment explanation
Indices: 12148103--12148161 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
12148093 CATAGTTTTA
*
12148103 GTTTATGTAATTTTTGAATTTATTAAATTTG
1 GTTTATGTAATTTTT-AATAT-TTAAATTTG
**
12148134 GTTTATGTTCTTTTTAATATTTAAATTT
1 GTTTATGTAATTTTTAATATTTAAATTT
12148162 TTAATCTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 4 0.16
31 13 0.52
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (29 bp):
GTTTATGTAATTTTTAATATTTAAATTTG
Done.