Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 186 of 240
Found at i:57220363 original size:45 final size:45
Alignment explanation
Indices: 57220265--57220607 Score: 600
Period size: 45 Copynumber: 7.6 Consensus size: 45
57220255 TTTGAGTACT
* *
57220265 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
57220311 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
57220356 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
57220402 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
57220447 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
57220492 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
57220538 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
57220583 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
57220608 ATCATACGTA
Statistics
Matches: 288, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
43 12 0.04
44 5 0.02
45 152 0.53
46 119 0.41
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
Found at i:57220420 original size:91 final size:90
Alignment explanation
Indices: 57220265--57220607 Score: 600
Period size: 91 Copynumber: 3.8 Consensus size: 90
57220255 TTTGAGTACT
* *
57220265 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGT
57220330 GATAAGTGGTAGCCTAGCTACACTTA
65 GATAAGTGGTAGCCTAGCTACACTTA
*
57220356 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGT
57220421 GATAAGTGGTAGCCTAGCTACACTTA
65 GATAAGTGGTAGCCTAGCTACACTTA
57220447 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
*
57220512 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGGTAGC-CTAGCTACACTTA
*
57220538 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
57220601 ATAAGTG
66 ATAAGTG
57220608 ATCATACGTA
Statistics
Matches: 247, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
89 12 0.05
90 49 0.20
91 186 0.75
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (90 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCCTAGCTACACTTA
Found at i:57220466 original size:136 final size:136
Alignment explanation
Indices: 57220265--57220607 Score: 636
Period size: 136 Copynumber: 2.5 Consensus size: 136
57220255 TTTGAGTACT
* *
57220265 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGT
57220330 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
65 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
57220395 ACACTTA
130 ACACTTA
57220402 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
57220467 ATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTA
66 ATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTA
57220532 CACTTA
131 CACTTA
*
57220538 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
57220601 ATAAGTG
66 ATAAGTG
57220608 ATCATACGTA
Statistics
Matches: 203, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
134 12 0.06
135 5 0.02
136 155 0.76
137 31 0.15
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (136 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTA
CACTTA
Found at i:57221376 original size:14 final size:14
Alignment explanation
Indices: 57221354--57221392 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
57221344 ACAGTAGTTC
57221354 TTGAAAAAATAATT
1 TTGAAAAAATAATT
* *
57221368 TTGACAAAATGATT
1 TTGAAAAAATAATT
57221382 TTGAAAAAATA
1 TTGAAAAAATA
57221393 GTGTCAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (14 bp):
TTGAAAAAATAATT
Found at i:57221442 original size:126 final size:125
Alignment explanation
Indices: 57221217--57221723 Score: 574
Period size: 126 Copynumber: 4.0 Consensus size: 125
57221207 ATTTTTGTTT
* * * * * * **
57221217 TACAGTAATTTTAGAAAAATTAATTTTGAGAAGACGTTTTTGAAAAGATAATGTCAAAAATGCTT
1 TACAGTAGTTTT-GAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTT
* * *
57221282 CAAGTAGGATGCA-TAGTCAGCAAAATTACTGAAAAAAGCTTCCACCTGGACGCTCTTTGTC
65 CAAGCAGGATGCACT-GTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTC
* * * * *
57221343 TACAGTAGTTCTTGAAAAAATAATTTTGACAAAATGATTTTGAAAAAATAGTGTCAAAAACGCTT
1 TACAGTAGTT-TTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTT
* * * * *
57221408 CAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAGGATTTCATGTGGACGCTCTTTTTC
65 CAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTC
* * * *
57221469 TACAATAGTTCCT--AAAAATAAATTTGAGAAGA-TAGTTCTGAAAAAATAGTGTCAAAAACACT
1 TACAGTAGTT-TTGAAAAAATAATTTTGAGAAGACGA-TTCTGAAAAAATAGTGTCAAAAACACT
* * * *
57221531 TCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTTTTTTTC
64 TCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTC
* * * * *
57221593 TATAGTAGTTTATGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAGTGTCTAAAACATTT
1 TACAGTAGTTT-TGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTT
** * *
57221658 CAAGCAGGATGCGTTGTCAGCAAAATTACAGAAAAAAGC-TCTCACGTGGACGCTCTTTTTG
65 CAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTC-CACGTGGACGCTCTTTTTC
57221719 TACAG
1 TACAG
57221724 CAATTCCTAC
Statistics
Matches: 321, Mismatches: 52, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
123 1 0.00
124 103 0.32
125 1 0.00
126 213 0.66
127 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (125 bp):
TACAGTAGTTTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTC
AAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTC
Found at i:57221682 original size:250 final size:251
Alignment explanation
Indices: 57221231--57221722 Score: 650
Period size: 250 Copynumber: 2.0 Consensus size: 251
57221221 GTAATTTTAG
* * * * **
57221231 AAAAATTAATTTTGAGAAGACGTTTTTGAAAAGATAATGTCAAAAATGCTTCAAGTAGGATGCAT
1 AAAAATTAAATTTGAGAAGAAGTTTCTGAAAAAATAATGTCAAAAACACTTCAAGTAGGATGCAT
* *
57221296 AGTCAGCAAAATTACTGAAAAAAGCTTCCACCTGGACGCTCTTTGTCTACAGTAGTTCTTGAAAA
66 AGTCAGCAAAATTACTGAAAAAAACTCCCACCTGGACGCTCTTTGTCTACAGTAGTTCTTGAAAA
* * *
57221361 AATAATTTTGACAAAATGATTTTGAAAAAATAGTGTCAAAAACGCTTCAAACAGGATGCACTGTC
131 AATAATTTTGACAAAACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAGGATGCACTGTC
* * * *
57221426 AGCAAAATTACTGAAAAAGGATTTCATGTGGACGCTCTTTTTCTACAATAGTTCCT
196 AGCAAAATTACAGAAAAAAGATCTCACGTGGACGCTCTTTTTCTACAATAGTTCCT
*
57221482 AAAAA-TAAATTTGAGAAGATAG-TTCTGAAAAAATAGTGTCAAAAACACTTCAAGTAGGATGCA
1 AAAAATTAAATTTGAGAAGA-AGTTTCTGAAAAAATAATGTCAAAAACACTTCAAGTAGGATGCA
* * * *
57221545 CT-GTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTTTTTTTCTATAGTAGTT-TATGA
65 -TAGTCAGCAAAATTACTGAAAAAAACTCCCACCTGGACGCTCTTTGTCTACAGTAGTTCT-TGA
* * * * * * * **
57221608 AAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAGTGTCTAAAACATTTCAAGCAGGATGCGTT
128 AAAAATAATTTTGACAAAACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAGGATGCACT
* *
57221673 GTCAGCAAAATTACAGAAAAAAGCTCTCACGTGGACGCTCTTTTTGTACA
193 GTCAGCAAAATTACAGAAAAAAGATCTCACGTGGACGCTCTTTTTCTACA
57221723 GCAATTCCTA
Statistics
Matches: 207, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
249 1 0.00
250 199 0.96
251 7 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (251 bp):
AAAAATTAAATTTGAGAAGAAGTTTCTGAAAAAATAATGTCAAAAACACTTCAAGTAGGATGCAT
AGTCAGCAAAATTACTGAAAAAAACTCCCACCTGGACGCTCTTTGTCTACAGTAGTTCTTGAAAA
AATAATTTTGACAAAACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAGGATGCACTGTC
AGCAAAATTACAGAAAAAAGATCTCACGTGGACGCTCTTTTTCTACAATAGTTCCT
Found at i:57223656 original size:209 final size:209
Alignment explanation
Indices: 57223296--57223715 Score: 804
Period size: 209 Copynumber: 2.0 Consensus size: 209
57223286 ACAGCCCAAT
57223296 TTTCAGTAGTATCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
1 TTTCAGTAGTATCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
57223361 GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
66 GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
* *
57223426 TACCTCGATATCATAAACTGAGTCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
131 GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
57223491 ATATTAAAGTTTCG
196 ATATTAAAGTTTCG
*
57223505 TTTCAGTAGTGTCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
1 TTTCAGTAGTATCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
*
57223570 GAATTAGTGAATTTTGTGGTTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
66 GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
57223635 GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
131 GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
57223700 ATATTAAAGTTTCG
196 ATATTAAAGTTTCG
57223714 TT
1 TT
57223716 AAGAAATTTT
Statistics
Matches: 207, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 207 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.35
Consensus pattern (209 bp):
TTTCAGTAGTATCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
ATATTAAAGTTTCG
Found at i:57223898 original size:5 final size:5
Alignment explanation
Indices: 57223888--57223958 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
57223878 TGTTAAAAAA
* *
57223888 ATATT ATATT ATAGTA ATGATT ATGTTTT ATATT ATATT ATTATT A-A-T
1 ATATT ATATT ATA-TT AT-ATT AT-AT-T ATATT ATATT A-TATT ATATT
57223936 ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATAT
57223959 ACATAAAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
3 2 0.04
4 6 0.11
5 29 0.53
6 14 0.25
7 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:57223938 original size:19 final size:19
Alignment explanation
Indices: 57223916--57223958 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
57223906 GATTATGTTT
57223916 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
57223935 TATATTATATTATATTATA
1 TATATTATATTATATTATA
57223954 TATAT
1 TATAT
57223959 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:57223942 original size:24 final size:23
Alignment explanation
Indices: 57223888--57223959 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
57223878 TGTTAAAAAA
*
57223888 ATATTATATTATAGTAATGATTAT
1 ATATTATATTATA-TTATGATTAT
* * *
57223912 GTTTTATATTATATTATTATTAAT
1 ATATTATATTATATTATGATT-AT
57223936 ATATTATATTATATTAT-A-TAT
1 ATATTATATTATATTATGATTAT
57223957 ATA
1 ATA
57223960 CATAAAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 5 0.12
22 1 0.02
23 7 0.17
24 28 0.68
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATTATATTATATTATGATTAT
Found at i:57223991 original size:18 final size:19
Alignment explanation
Indices: 57223963--57224002 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
57223953 ATATATACAT
*
57223963 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
57223982 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
57224000 AAA
1 AAA
57224003 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:57224931 original size:46 final size:44
Alignment explanation
Indices: 57224872--57224986 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
57224862 ACAGGACAGA
* *
57224872 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
57224918 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
57224962 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
57224987 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:57224967 original size:44 final size:45
Alignment explanation
Indices: 57224872--57225005 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
57224862 ACAGGACAGA
* *
57224872 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
57224918 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
57224962 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
57225006 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:57227406 original size:13 final size:13
Alignment explanation
Indices: 57227388--57227415 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57227378 TGATCTCTTC
57227388 TGGGTATTCTATA
1 TGGGTATTCTATA
57227401 TGGGTATTCTATA
1 TGGGTATTCTATA
57227414 TG
1 TG
57227416 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:57229271 original size:209 final size:209
Alignment explanation
Indices: 57228911--57229330 Score: 822
Period size: 209 Copynumber: 2.0 Consensus size: 209
57228901 ACAGCCCAAT
57228911 TTTCAGTAGTGTCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
1 TTTCAGTAGTGTCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
57228976 GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
66 GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
*
57229041 GACCTCGATATCATAAACTGAGTCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
131 GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
57229106 ATATTAAAGTTTCG
196 ATATTAAAGTTTCG
57229120 TTTCAGTAGTGTCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
1 TTTCAGTAGTGTCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
*
57229185 GAATTAGTGAATTTTGTGGTTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
66 GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
57229250 GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
131 GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
57229315 ATATTAAAGTTTCG
196 ATATTAAAGTTTCG
57229329 TT
1 TT
57229331 AAGAAATTTT
Statistics
Matches: 209, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 209 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (209 bp):
TTTCAGTAGTGTCAGAACAGTGATTTGAGATCACTAAATTCGATGAAGAAGTTAGAAATATTTTT
GAATTAGTGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAACGAGGTATCGA
GACCTCGATATCATAAACTGAGCCGTAAATATTTTTATAAATATTTACAGAGTGTCAATAGGATA
ATATTAAAGTTTCG
Found at i:57229514 original size:5 final size:5
Alignment explanation
Indices: 57229504--57229575 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
57229494 TGTTAAAAAA
* *
57229504 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
57229550 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
57229576 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:57229557 original size:19 final size:19
Alignment explanation
Indices: 57229533--57229575 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
57229523 ATTATGTTTT
57229533 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
57229552 TATATTATATTATATTATA
1 TATATTATATTATATTATA
57229571 TATAT
1 TATAT
57229576 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:57229608 original size:18 final size:19
Alignment explanation
Indices: 57229580--57229619 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
57229570 ATATATACAT
*
57229580 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
57229599 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
57229617 AAA
1 AAA
57229620 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:57230548 original size:46 final size:44
Alignment explanation
Indices: 57230489--57230603 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
57230479 ACAGGACAGA
* *
57230489 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
57230535 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
57230579 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
57230604 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:57230584 original size:44 final size:45
Alignment explanation
Indices: 57230489--57230622 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
57230479 ACAGGACAGA
* *
57230489 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
57230535 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
57230579 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
57230623 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:57232886 original size:19 final size:19
Alignment explanation
Indices: 57232833--57232887 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
57232823 ATTTCAAAAT
57232833 AGTAATTCATCAAT-ATTTA
1 AGTAATT-ATCAATCATTTA
* * *
57232852 ACTAA-TATCATCTCATTTC
1 AGTAATTATCA-ATCATTTA
57232871 AGTAATTATCAATCATT
1 AGTAATTATCAATCATT
57232888 CATATTCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 17 0.61
20 5 0.18
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (19 bp):
AGTAATTATCAATCATTTA
Found at i:57235392 original size:19 final size:19
Alignment explanation
Indices: 57235338--57235393 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
57235328 AATTTCAGAA
57235338 CAGTAATTCATCAA-CATTT
1 CAGTAATT-ATCAATCATTT
* * *
57235357 AACTAA-TATCATCTCATTT
1 CAGTAATTATCA-ATCATTT
57235376 CAGTAATTATCAATCATT
1 CAGTAATTATCAATCATT
57235394 CATAGTCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 4 0.14
18 1 0.04
19 18 0.64
20 5 0.18
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.39
Consensus pattern (19 bp):
CAGTAATTATCAATCATTT
Found at i:57237316 original size:27 final size:27
Alignment explanation
Indices: 57237278--57237342 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
57237268 AAATTCATAC
57237278 AATTTAGTACAAACCCATGTTTAACCA
1 AATTTAGTACAAACCCATGTTTAACCA
*
57237305 AATTTAGTACAAACCCATGTTTAACCG
1 AATTTAGTACAAACCCATGTTTAACCA
*
57237332 AATTTAATACA
1 AATTTAGTACA
57237343 TGTTACTAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTTAGTACAAACCCATGTTTAACCA
Found at i:57238930 original size:5 final size:5
Alignment explanation
Indices: 57238920--57238965 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
57238910 TTTTTATGTT
* *
57238920 TTATA TTATA TTATA TTATA TTGTA TTATA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
57238966 AAATTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:57240141 original size:23 final size:22
Alignment explanation
Indices: 57240114--57240199 Score: 115
Period size: 21 Copynumber: 4.0 Consensus size: 22
57240104 GCTTTGCCGA
57240114 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
57240136 CTCAGGCACTTTATGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTAT
* *
57240158 TCAGGCACCTTGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
*
57240179 TCAGGCAC-TTATGTGTTGTAT
1 TCAGGCACTTTATGTGTCGTAT
57240200 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.16
21 27 0.47
23 21 0.37
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:57240164 original size:44 final size:41
Alignment explanation
Indices: 57240113--57240199 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
57240103 GGCTTTGCCG
*
57240113 ATCAGGCACTTTATGTGTCGTATCTCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT-T-TCAGGCAC-TTATGTGTCGT
* *
57240157 ATCAGGCACCTTGTGTGTCGTTTCAGGCACTTATGTGTTGT
1 ATCAGGCACCTTATGTGTCGTTTCAGGCACTTATGTGTCGT
57240198 AT
1 AT
57240200 ACTGATCAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 12 0.30
42 8 0.20
43 1 0.03
44 19 0.47
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (41 bp):
ATCAGGCACCTTATGTGTCGTTTCAGGCACTTATGTGTCGT
Found at i:57241356 original size:16 final size:16
Alignment explanation
Indices: 57241337--57241367 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57241327 AATAGGACAA
57241337 ACTATAAAAATATTTT
1 ACTATAAAAATATTTT
*
57241353 ACTATTAAAATATTT
1 ACTATAAAAATATTT
57241368 AGAACAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ACTATAAAAATATTTT
Found at i:57241650 original size:22 final size:23
Alignment explanation
Indices: 57241606--57241650 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
57241596 AAGAATGCAA
*
57241606 AGGTGTTTGCATCACCCACAAGGG
1 AGGTGTTTGAAT-ACCCACAAGGG
*
57241630 AGGTGTTTGAAT-CCCATAAGG
1 AGGTGTTTGAATACCCACAAGG
57241651 CGATGGGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (23 bp):
AGGTGTTTGAATACCCACAAGGG
Found at i:57242614 original size:28 final size:28
Alignment explanation
Indices: 57242581--57242638 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
57242571 TAAATCTATG
57242581 TAATAATTGTAAAATCTAATATAAATTT
1 TAATAATTGTAAAATCTAATATAAATTT
57242609 TAATAATTGTAAAATCTAATATAAATTT
1 TAATAATTGTAAAATCTAATATAAATTT
57242637 TA
1 TA
57242639 CCTCATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
TAATAATTGTAAAATCTAATATAAATTT
Found at i:57242628 original size:16 final size:16
Alignment explanation
Indices: 57242581--57242629 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
57242571 TAAATCTATG
57242581 TAATAATTGTAAAATC
1 TAATAATTGTAAAATC
* *
57242597 TAAT-A---TAAATTT
1 TAATAATTGTAAAATC
57242609 TAATAATTGTAAAATC
1 TAATAATTGTAAAATC
57242625 TAATA
1 TAATA
57242630 TAAATTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 9 0.36
13 1 0.04
15 1 0.04
16 14 0.56
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (16 bp):
TAATAATTGTAAAATC
Found at i:57246234 original size:3 final size:3
Alignment explanation
Indices: 57246226--57246259 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
57246216 AAGTTGAATA
57246226 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
57246260 TGGAGCCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57254307 original size:24 final size:24
Alignment explanation
Indices: 57254253--57254298 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
57254243 GGCACCAGCT
57254253 GAACCATTTTCTTGACAGTCAAAA
1 GAACCATTTTCTTGACAGTCAAAA
57254277 GAACCATTTTCTTGACAGTCAA
1 GAACCATTTTCTTGACAGTCAA
57254299 CAAATCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
GAACCATTTTCTTGACAGTCAAAA
Found at i:57259723 original size:23 final size:24
Alignment explanation
Indices: 57259697--57259754 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
57259687 GTTGAGAGAA
* *
57259697 AAAAAAATAAGTATGTACATAAG-
1 AAAAAAATAAATATATACATAAGT
* *
57259720 AAAACAATAAATATATATATAAGTT
1 AAAAAAATAAATATATACATAAG-T
57259745 AAAAAAATAA
1 AAAAAAATAA
57259755 TTACATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 19 0.68
25 9 0.32
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (24 bp):
AAAAAAATAAATATATACATAAGT
Found at i:57259762 original size:21 final size:20
Alignment explanation
Indices: 57259738--57259786 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
57259728 AAATATATAT
57259738 ATAAGTTAAAAAAATAATTAC
1 ATAA-TTAAAAAAATAATTAC
*
57259759 ATAA--AAAACAATAATTAC
1 ATAATTAAAAAAATAATTAC
*
57259777 ATCATTAAAA
1 ATAATTAAAA
57259787 TTAACTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 16 0.67
20 4 0.17
21 4 0.17
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAATTAAAAAAATAATTAC
Found at i:57259771 original size:18 final size:17
Alignment explanation
Indices: 57259745--57259778 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
57259735 TATATAAGTT
57259745 AAAAAAATAATTACATA
1 AAAAAAATAATTACATA
57259762 AAAAACAATAATTACAT
1 AAAAA-AATAATTACAT
57259779 CATTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAATAATTACATA
Found at i:57262890 original size:15 final size:15
Alignment explanation
Indices: 57262870--57262900 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57262860 CTACTGTTGC
57262870 TGGCCAAAACAGTTT
1 TGGCCAAAACAGTTT
57262885 TGGCCAAAACAGTTT
1 TGGCCAAAACAGTTT
57262900 T
1 T
57262901 AGCACAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (15 bp):
TGGCCAAAACAGTTT
Found at i:57263399 original size:8 final size:8
Alignment explanation
Indices: 57263386--57263414 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
57263376 TATATATACT
57263386 AAATAATA
1 AAATAATA
57263394 AAATAATA
1 AAATAATA
57263402 AAATAATA
1 AAATAATA
57263410 AAATA
1 AAATA
57263415 TCAATTAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:57270028 original size:25 final size:26
Alignment explanation
Indices: 57269981--57270044 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 26
57269971 CTGAACACTT
57269981 TTAAAATACCCTAACCCATAAAAATC
1 TTAAAATACCCTAACCCATAAAAATC
* *
57270007 TTAAAA-ACCTTAACCC-TAAAAA-A
1 TTAAAATACCCTAACCCATAAAAATC
*
57270030 TTAAAA-GCCCTAACC
1 TTAAAATACCCTAACC
57270045 TTGGAGAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.38
24 6 0.18
25 9 0.26
26 6 0.18
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.22
Consensus pattern (26 bp):
TTAAAATACCCTAACCCATAAAAATC
Found at i:57270455 original size:61 final size:61
Alignment explanation
Indices: 57270390--57270509 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
57270380 ATATAAAAAA
* * * * *
57270390 TTCAACAAATTTAGCCTTCAATATTTACAAAAT-TTGACATTTTAGTTCTAATTCTAAAATT
1 TTCAACAAATTTAGCCCTCAACATTTACAAAATCTT-ACAATTTAGTCCTAACTCTAAAATT
* * *
57270451 TTCAATAAATTTGGCCCTCAACATTTACAAAATCTTTCAATTTAGTCCTAACTCTAAAA
1 TTCAACAAATTTAGCCCTCAACATTTACAAAATCTTACAATTTAGTCCTAACTCTAAAA
57270510 AATAAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
61 48 0.96
62 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (61 bp):
TTCAACAAATTTAGCCCTCAACATTTACAAAATCTTACAATTTAGTCCTAACTCTAAAATT
Found at i:57274056 original size:25 final size:26
Alignment explanation
Indices: 57274009--57274062 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
57273999 AGATACCCTA
*
57274009 TTTTTTACTTGTTTTTCC-TTTTTCT
1 TTTTTTACTTCTTTTTCCTTTTTTCT
*
57274034 TTTTTTACTTCTTTTT-TTGTTTTTCT
1 TTTTTTACTTCTTTTTCCT-TTTTTCT
57274060 TTT
1 TTT
57274063 CTTAAGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.80
Consensus pattern (26 bp):
TTTTTTACTTCTTTTTCCTTTTTTCT
Found at i:57285898 original size:21 final size:23
Alignment explanation
Indices: 57285859--57285915 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
57285849 GTTTTAAAAT
* *
57285859 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
57285881 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
57285904 TTGGGCTAGGTT
1 TTGGGCTAGGTT
57285916 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:57286452 original size:34 final size:35
Alignment explanation
Indices: 57286407--57286497 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 35
57286397 TTTTAAAAAA
* * *
57286407 TAAACCCTAATTTAATAAATTTTA-TTAAAAACTC
1 TAAAACCTAATTTAATTAATTTTATTTAAAAACCC
* * * *
57286441 TAAATCCTAATTTAGTTTA-TTTATTTAAAACCCC
1 TAAAACCTAATTTAATTAATTTTATTTAAAAACCC
57286475 TAAAACCTAATTTAATTAATTTT
1 TAAAACCTAATTTAATTAATTTT
57286498 TAAAAAAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 4 0.09
34 39 0.85
35 3 0.07
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (35 bp):
TAAAACCTAATTTAATTAATTTTATTTAAAAACCC
Found at i:57288288 original size:17 final size:16
Alignment explanation
Indices: 57288242--57288288 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
57288232 AAAATGCAAG
*
57288242 AAAATAAAAA-ATGAA
1 AAAATAAAAATAAGAA
57288257 AAAATATATAAATAAGATA
1 AAAATA-A-AAATAAGA-A
57288276 AAAATAAAAATAA
1 AAAATAAAAATAA
57288289 AATTGGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.22
16 1 0.04
17 9 0.33
18 4 0.15
19 7 0.26
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAATAAAAATAAGAA
Found at i:57291170 original size:30 final size:32
Alignment explanation
Indices: 57291131--57291190 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
57291121 AGAGGTGGGA
*
57291131 TGGGAAGGGAATAAAAGTTTT-AGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAAAG
*
57291162 TGGG-AGGGAGTAAAAATTTTGAGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
57291191 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAAG
Found at i:57291335 original size:30 final size:31
Alignment explanation
Indices: 57291294--57291354 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
57291284 GGGTTGGGAG
* *
57291294 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
57291325 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
57291355 AAAAAGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:57291420 original size:9 final size:9
Alignment explanation
Indices: 57291402--57291438 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
57291392 TATAGTTTGA
*
57291402 TATTCTAAT
1 TATTCGAAT
57291411 TATTCGAAT
1 TATTCGAAT
*
57291420 TATTCGAGT
1 TATTCGAAT
57291429 TATTCGAAT
1 TATTCGAAT
57291438 T
1 T
57291439 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57291509 original size:9 final size:9
Alignment explanation
Indices: 57291492--57291522 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
57291482 TCGAGTTGAT
57291492 TCGAATAAC
1 TCGAATAAC
*
57291501 TCGATTAAC
1 TCGAATAAC
57291510 TCGAATAAC
1 TCGAATAAC
57291519 TCGA
1 TCGA
57291523 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:57299166 original size:4 final size:4
Alignment explanation
Indices: 57299157--57299192 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
57299147 TTAAACTAAG
57299157 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
57299193 AATAAAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:57300598 original size:23 final size:22
Alignment explanation
Indices: 57300546--57300598 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
57300536 TCCACGTCTT
*
57300546 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
57300568 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
57300591 TTTCTTTT
1 TTTCTTTT
57300599 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:57300623 original size:27 final size:27
Alignment explanation
Indices: 57300593--57300644 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
57300583 TTCTTCAATT
57300593 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTGC
* **
57300620 TCTTTTTCATTCTCTTTCTCTTTTT
1 TCTTTTTCACTCTCAATCTCTTTTT
57300645 CCTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTGC
Found at i:57302974 original size:4 final size:4
Alignment explanation
Indices: 57302965--57302992 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
57302955 TTAAACTAAG
57302965 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
57302993 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:57312206 original size:23 final size:23
Alignment explanation
Indices: 57312180--57312236 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
57312170 ATTATTTTTT
57312180 ATCTTCAATATTTATATTCAATA
1 ATCTTCAATATTTATATTCAATA
* *
57312203 ATCTACAAAATATTTATATTCAATC
1 ATCTTC--AATATTTATATTCAATA
*
57312228 ATTTTCAAT
1 ATCTTCAAT
57312237 TTAAAAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 8 0.29
25 20 0.71
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (23 bp):
ATCTTCAATATTTATATTCAATA
Found at i:57317184 original size:18 final size:18
Alignment explanation
Indices: 57317161--57317195 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
57317151 CATGATAATA
57317161 CCATCGACGCTAAGAATG
1 CCATCGACGCTAAGAATG
57317179 CCATCGACGCTAAGAAT
1 CCATCGACGCTAAGAAT
57317196 AAAAAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (18 bp):
CCATCGACGCTAAGAATG
Found at i:57317441 original size:9 final size:9
Alignment explanation
Indices: 57317429--57317454 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
57317419 CTCATCACCC
57317429 TCATCGTCG
1 TCATCGTCG
57317438 TCATCGTCG
1 TCATCGTCG
57317447 TCATCGTC
1 TCATCGTC
57317455 CTTTTTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.19, T:0.35
Consensus pattern (9 bp):
TCATCGTCG
Found at i:57319983 original size:52 final size:52
Alignment explanation
Indices: 57319904--57320038 Score: 216
Period size: 52 Copynumber: 2.6 Consensus size: 52
57319894 AGTTATAAAT
* * *
57319904 TTTATAACAGTATATTAAAACAATATATTACATTAATAATTAAGGTGTAGTA
1 TTTATAACAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
*
57319956 TTTATAATAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
1 TTTATAACAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
*
57320008 TTTATAACAGTATATTTATAACAGTATATTA
1 TTTATAACAGTATA-TTAAAACAGTATATTA
57320039 AAATAGTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 61 0.80
53 15 0.20
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (52 bp):
TTTATAACAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
Found at i:57320025 original size:14 final size:14
Alignment explanation
Indices: 57320006--57320104 Score: 132
Period size: 14 Copynumber: 7.3 Consensus size: 14
57319996 TAAGGTGCAG
57320006 TATTTATAACAGTA
1 TATTTATAACAGTA
57320020 TATTTATAACAGTA
1 TATTTATAACAGTA
* *
57320034 TA-TTAAAATAGTA
1 TATTTATAACAGTA
57320047 TATTTATAACAGTA
1 TATTTATAACAGTA
*
57320061 TA-TTAAAACAGTA
1 TATTTATAACAGTA
57320074 TATTTATAACAGTA
1 TATTTATAACAGTA
* *
57320088 TA-TTAAAACAATA
1 TATTTATAACAGTA
57320101 TATT
1 TATT
57320105 AAATTAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
13 34 0.46
14 40 0.54
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (14 bp):
TATTTATAACAGTA
Found at i:57320048 original size:13 final size:13
Alignment explanation
Indices: 57320003--57320107 Score: 122
Period size: 13 Copynumber: 7.9 Consensus size: 13
57319993 AATTAAGGTG
*
57320003 CAGTAT-TTATAA
1 CAGTATATTAAAA
*
57320015 CAGTATATTTATAA
1 CAGTATA-TTAAAA
57320029 CAGTATATTAAAA
1 CAGTATATTAAAA
* *
57320042 TAGTATATTTATAA
1 CAGTATA-TTAAAA
57320056 CAGTATATTAAAA
1 CAGTATATTAAAA
*
57320069 CAGTATATTTATAA
1 CAGTATA-TTAAAA
57320083 CAGTATATTAAAA
1 CAGTATATTAAAA
*
57320096 CAATATATTAAA
1 CAGTATATTAAA
57320108 TTAAAAATTA
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
12 6 0.07
13 39 0.48
14 36 0.44
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
CAGTATATTAAAA
Found at i:57320048 original size:27 final size:27
Alignment explanation
Indices: 57320003--57320104 Score: 170
Period size: 27 Copynumber: 3.8 Consensus size: 27
57319993 AATTAAGGTG
*
57320003 CAGTAT-TTATAACAGTATATTTATAA
1 CAGTATATTAAAACAGTATATTTATAA
*
57320029 CAGTATATTAAAATAGTATATTTATAA
1 CAGTATATTAAAACAGTATATTTATAA
57320056 CAGTATATTAAAACAGTATATTTATAA
1 CAGTATATTAAAACAGTATATTTATAA
*
57320083 CAGTATATTAAAACAATATATT
1 CAGTATATTAAAACAGTATATT
57320105 AAATTAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
26 6 0.08
27 65 0.92
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (27 bp):
CAGTATATTAAAACAGTATATTTATAA
Found at i:57321538 original size:28 final size:28
Alignment explanation
Indices: 57321498--57321581 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
57321488 TGCAAAGAAT
57321498 AATATGTAAACACAATCAAAATCCCCCC
1 AATATGTAAACACAATCAAAATCCCCCC
**
57321526 AATATGTAAACACAATCAAAATCCCCTT
1 AATATGTAAACACAATCAAAATCCCCCC
*
57321554 GATATGTAAACACAATCAAAATCCCCCC
1 AATATGTAAACACAATCAAAATCCCCCC
57321582 GAAGATTCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.20
Consensus pattern (28 bp):
AATATGTAAACACAATCAAAATCCCCCC
Found at i:57323991 original size:48 final size:48
Alignment explanation
Indices: 57323920--57324016 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
57323910 GTCCTCGGGC
57323920 ACTACCAAATATATTTCACTCCAAAATACAAGTGAAAATTTACAAATA
1 ACTACCAAATATATTTCACTCCAAAATACAAGTGAAAATTTACAAATA
57323968 ACTACCAAATATATTTCACTCCAAAATACAAGTGAAAATTTACAAATA
1 ACTACCAAATATATTTCACTCCAAAATACAAGTGAAAATTTACAAATA
57324016 A
1 A
57324017 AGAGATAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.27
Consensus pattern (48 bp):
ACTACCAAATATATTTCACTCCAAAATACAAGTGAAAATTTACAAATA
Found at i:57334019 original size:15 final size:15
Alignment explanation
Indices: 57333999--57334029 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57333989 GGACGGACAA
57333999 CGCAAATTCCCACTT
1 CGCAAATTCCCACTT
57334014 CGCAAATTCCCACTT
1 CGCAAATTCCCACTT
57334029 C
1 C
57334030 ACTTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.42, G:0.06, T:0.26
Consensus pattern (15 bp):
CGCAAATTCCCACTT
Found at i:57334549 original size:15 final size:15
Alignment explanation
Indices: 57334529--57334580 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
57334519 ATACAATATT
57334529 AATATTTTAATAATA
1 AATATTTTAATAATA
*
57334544 AATATTTCTTACAATTATA
1 AATA-TT-TT--AATAATA
*
57334563 AATATATTAATAATA
1 AATATTTTAATAATA
57334578 AAT
1 AAT
57334581 GCTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:57336002 original size:17 final size:19
Alignment explanation
Indices: 57335980--57336017 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
57335970 ATAGAGAATA
57335980 ATTTTAA-TTATTT-TTTT
1 ATTTTAATTTATTTCTTTT
57335997 ATTTTAATTTATTTCTTTT
1 ATTTTAATTTATTTCTTTT
57336016 AT
1 AT
57336018 GATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTAATTTATTTCTTTT
Found at i:57348784 original size:135 final size:135
Alignment explanation
Indices: 57348542--57348813 Score: 490
Period size: 135 Copynumber: 2.0 Consensus size: 135
57348532 GCCGAGGGTG
*
57348542 GTCACAACTAAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
1 GTCACAACCAAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
57348607 GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
66 GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
57348672 TCTAT
131 TCTAT
* * * *
57348677 GTCACAACCGAATTTTTATTTAGATGATCTTTTGCTCATTTGATAATAAATAAGTGTCAAGTATA
1 GTCACAACCAAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
*
57348742 GTGGTTGAGTAGTGGTGGAGATGTCCTTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
66 GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
57348807 TCTAT
131 TCTAT
57348812 GT
1 GT
57348814 GGTGCAATTT
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 131 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (135 bp):
GTCACAACCAAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
TCTAT
Found at i:57356246 original size:41 final size:40
Alignment explanation
Indices: 57356177--57356325 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 40
57356167 TTTAACATAT
* * *
57356177 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACC-GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
57356218 TTACCAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACC-GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
57356259 TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCG-CACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
57356300 TCACCGGCACTTAGCCTGCTAGGTTT
1 TCACC-GCACTTAGCCTGCTAGGTTT
57356326 TAAACATGAA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 1 0.01
41 98 0.98
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (40 bp):
TCACCGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:57365365 original size:22 final size:21
Alignment explanation
Indices: 57365339--57365386 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
57365329 TATAAATGTA
*
57365339 AAAAAATTA-AATATATATTTT
1 AAAAAATTACAATA-AAATTTT
57365360 AGAAAAATTACAATAAAATTTT
1 A-AAAAATTACAATAAAATTTT
57365382 AAAAA
1 AAAAA
57365387 TATTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 15 0.62
23 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAATTACAATAAAATTTT
Found at i:57366929 original size:18 final size:18
Alignment explanation
Indices: 57366906--57366940 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57366896 TATTCTACAA
57366906 AATTTTCATAA-TTAATTC
1 AATTTTCA-AATTTAATTC
57366924 AATTTTCAAATTTAATT
1 AATTTTCAAATTTAATT
57366941 TATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTTCAAATTTAATTC
Found at i:57367685 original size:23 final size:23
Alignment explanation
Indices: 57367652--57367698 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
57367642 AATGTTATCA
57367652 ATGTAAAGCATTGTTTTCAAGCT
1 ATGTAAAGCATTGTTTTCAAGCT
*
57367675 ATGTAAGGCATTGTTTTCAAGCT
1 ATGTAAAGCATTGTTTTCAAGCT
57367698 A
1 A
57367699 ACAACAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGTAAAGCATTGTTTTCAAGCT
Found at i:57368519 original size:22 final size:22
Alignment explanation
Indices: 57368494--57368540 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
57368484 GAGCCGTGGA
*
57368494 GGACCGGAGGTGGATCGGTGCC
1 GGACCGGAGGTGGATCGGCGCC
**
57368516 GGACTTGAGGTGGATCGGCGCC
1 GGACCGGAGGTGGATCGGCGCC
57368538 GGA
1 GGA
57368541 GGTGGAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.21, G:0.49, T:0.15
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGCGCC
Found at i:57378668 original size:28 final size:28
Alignment explanation
Indices: 57378614--57378671 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
57378604 GAGTTTTTGA
*
57378614 AAAAATAAATTAGGGTTTATGGTTTTTT
1 AAAAATAAATTAGGGTTTAGGGTTTTTT
57378642 AAAAATAAATTAGGGTTTAGGGTTTTTT
1 AAAAATAAATTAGGGTTTAGGGTTTTTT
57378670 AA
1 AA
57378672 TTGGTAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (28 bp):
AAAAATAAATTAGGGTTTAGGGTTTTTT
Found at i:57379111 original size:25 final size:25
Alignment explanation
Indices: 57379078--57379143 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
57379068 TTGCAGTTAG
* *
57379078 AGAATTTGAATAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTCAAAAGAAT
57379103 AGAAATTGAAGAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTCAAAAGAAT
57379128 AGAAATTGAAGAAGTT
1 AGAAATTGAAGAAGTT
57379144 GAGAAGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAAAAGAAT
Found at i:57382153 original size:59 final size:56
Alignment explanation
Indices: 57382058--57382227 Score: 171
Period size: 59 Copynumber: 2.9 Consensus size: 56
57382048 GAAATAGTTC
**** * *
57382058 CTATTTTATTAAATAAAACTATGAAAAATAATTTGTATC-GTTTTATTCAAAAGAATTT
1 CTATTTTATTAAATAAAA-TAT-AAAAATAATTTGTA-CAAAAATATTCAAAACAACTT
57382116 CTATTTTATTAAATGACACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTT
1 CTATTTTATTAAAT-A-A-AATATAAAAATAATTTGTACAAAAATATTCAAAACAACTT
* * *
57382175 CTATTTTATTAAATAAAATAATATAAAAACAATTTGTACAAATATATTAAAAA
1 CTATTTTATTAAAT--AA-AATATAAAAATAATTTGTACAAAAATATTCAAAA
57382228 ATCAATGCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
58 15 0.16
59 74 0.77
60 5 0.05
61 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (56 bp):
CTATTTTATTAAATAAAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTT
Found at i:57414220 original size:2 final size:2
Alignment explanation
Indices: 57414213--57414255 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
57414203 CCGCATGATA
57414213 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57414255 T
1 T
57414256 TAAGTTCAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:57434212 original size:2 final size:2
Alignment explanation
Indices: 57434205--57434247 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
57434195 CCGCATGATA
57434205 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57434247 T
1 T
57434248 TAAGTTCAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:57438124 original size:22 final size:22
Alignment explanation
Indices: 57438086--57438142 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
57438076 TTAAGGTATA
*
57438086 TATATAAATCATATGAAAATAAG
1 TATATATAT-ATATGAAAATAAG
* **
57438109 TATATATATATATGAATATGCG
1 TATATATATATATGAAAATAAG
*
57438131 TATACATATATA
1 TATATATATATA
57438143 AAGTATAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
TATATATATATATGAAAATAAG
Found at i:57438333 original size:16 final size:16
Alignment explanation
Indices: 57438303--57438342 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
57438293 AAAATTAGAA
* *
57438303 ATATGTAAGTGTGTAT
1 ATATATAAGTATGTAT
*
57438319 ATGTATAAGTATGTAT
1 ATATATAAGTATGTAT
57438335 ATATATAA
1 ATATATAA
57438343 CAAAATCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (16 bp):
ATATATAAGTATGTAT
Found at i:57438360 original size:23 final size:21
Alignment explanation
Indices: 57438335--57438375 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57438325 AAGTATGTAT
*
57438335 ATATATAACAAAATCTAAAAA
1 ATATATAACAAAACCTAAAAA
57438356 ATATATAACAAAACCTAAAA
1 ATATATAACAAAACCTAAAA
57438376 CACGGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (21 bp):
ATATATAACAAAACCTAAAAA
Found at i:57443556 original size:22 final size:22
Alignment explanation
Indices: 57443504--57443557 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
57443494 TCCAAACAAT
* * *
57443504 AACAACAAAATAGTAGTAATAT
1 AACAACGAAATAGTAGTAAAAC
* * *
57443526 AATAGCGAAATGGTAGTAAAAC
1 AACAACGAAATAGTAGTAAAAC
57443548 AACAACGAAA
1 AACAACGAAA
57443558 CAGTTGATTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (22 bp):
AACAACGAAATAGTAGTAAAAC
Found at i:57447367 original size:21 final size:21
Alignment explanation
Indices: 57447341--57447395 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
57447331 AACAGCGGTG
*
57447341 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
57447362 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
57447383 GCGGTGAGATTAG
1 GCGGTGAGATTAG
57447396 AAACAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:57447511 original size:32 final size:32
Alignment explanation
Indices: 57447475--57447539 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57447465 ATTAAGGACA
57447475 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
57447507 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
57447539 T
1 T
57447540 TAAATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
TCATATTAGAATTGATATATAATAGAAGTTAT
Found at i:57447516 original size:16 final size:16
Alignment explanation
Indices: 57447481--57447533 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
57447471 GACATCATAT
57447481 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
57447497 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
57447513 TAGAATTGATATATAA
1 TAGAATTGATATATAA
57447529 TAGAA
1 TAGAA
57447534 GTTATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (16 bp):
TAGAATTGATATATAA
Found at i:57447740 original size:22 final size:22
Alignment explanation
Indices: 57447689--57447740 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
57447679 TTTTATAGTT
*
57447689 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
57447712 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
57447734 ATAATAA
1 ATAATAA
57447741 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:57448475 original size:30 final size:29
Alignment explanation
Indices: 57448339--57448577 Score: 410
Period size: 29 Copynumber: 8.2 Consensus size: 29
57448329 GAATAAACCG
*
57448339 AATACAGTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
57448368 AATACACTACATATA-TTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
57448396 AATACAGTACATATA-TTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
57448424 AATACACTAAATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
57448453 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
57448483 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
57448512 AATACACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTT-TTTATTTTTAA
*
57448542 AATACATTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
57448571 AATACAC
1 AATACAC
57448578 AAATACAATG
Statistics
Matches: 200, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
28 53 0.26
29 90 0.45
30 57 0.28
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.51
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:57448502 original size:59 final size:58
Alignment explanation
Indices: 57448339--57448577 Score: 410
Period size: 59 Copynumber: 4.1 Consensus size: 58
57448329 GAATAAACCG
*
57448339 AATACAGTACATATATTTTTTATTTTTAAAATACACTACATATA-TTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
* *
57448396 AATACAGTACATATA-TTTTTATTTTTAAAATACACTAAATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
57448453 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
*
57448512 AATACACTACATATATTTCTTTATTTTTAAAATACATTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTT-TTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
57448571 AATACAC
1 AATACAC
57448578 AAATACAATG
Statistics
Matches: 174, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
56 27 0.16
57 42 0.24
58 3 0.02
59 102 0.59
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.51
Consensus pattern (58 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
Found at i:57448698 original size:45 final size:44
Alignment explanation
Indices: 57448623--57448713 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
57448613 TTTCCATCGA
*
57448623 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCA-TTCCCAT
1 TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTTCCCAT
*
57448666 TTCCCCTCTTCCATCGATTCCCCTCCTCCCATTTCCCATTTCCCAT
1 TTCCCCTCTTCCACCG--TCCCCTCCTCCCATTTCCCATTTCCCAT
57448712 TT
1 TT
57448714 ACGGTTGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 15 0.35
45 19 0.44
46 9 0.21
ACGTcount: A:0.10, C:0.51, G:0.03, T:0.36
Consensus pattern (44 bp):
TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTTCCCAT
Found at i:57448711 original size:14 final size:15
Alignment explanation
Indices: 57448647--57448713 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 15
57448637 CGTGCCCTCC
57448647 TCCCATTTCCCA--T
1 TCCCATTTCCCATCT
*
57448660 TCCCATTTCCCCTCT
1 TCCCATTTCCCATCT
* *
57448675 T-CCATCGATTCCCCTCC
1 TCCCAT---TTCCCATCT
57448692 TCCCATTTCCCAT-T
1 TCCCATTTCCCATCT
57448706 TCCCATTT
1 TCCCATTT
57448714 ACGGTTGCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 11 0.25
14 12 0.27
15 8 0.18
17 9 0.20
18 4 0.09
ACGTcount: A:0.12, C:0.48, G:0.01, T:0.39
Consensus pattern (15 bp):
TCCCATTTCCCATCT
Found at i:57449831 original size:28 final size:30
Alignment explanation
Indices: 57449769--57449832 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
57449759 CAAAGCCAAA
57449769 TATATTATGTTATAAAAAAAATTATATTAAT
1 TATA-TATGTTATAAAAAAAATTATATTAAT
* * *
57449800 TATATATGTTA-AATAATAATTATA-TATT
1 TATATATGTTATAAAAAAAATTATATTAAT
57449828 TATAT
1 TATAT
57449833 TTATATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 11 0.37
30 7 0.23
31 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATATGTTATAAAAAAAATTATATTAAT
Found at i:57451385 original size:15 final size:14
Alignment explanation
Indices: 57451358--57451388 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
57451348 AAAATTTCAT
57451358 TTATGTTTATATTA
1 TTATGTTTATATTA
57451372 TTATGTTATATATTA
1 TTATGTT-TATATTA
57451387 TT
1 TT
57451389 TCAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTATGTTTATATTA
Found at i:57465476 original size:9 final size:9
Alignment explanation
Indices: 57465462--57465553 Score: 107
Period size: 9 Copynumber: 10.2 Consensus size: 9
57465452 TTTGGTTAAA
57465462 AATTACCCG
1 AATTACCCG
57465471 AATTACCCG
1 AATTACCCG
57465480 AATTACCCG
1 AATTACCCG
*
57465489 AATTAACCG
1 AATTACCCG
*
57465498 -ATTAACCG
1 AATTACCCG
*
57465506 AATTAACCG
1 AATTACCCG
*
57465515 AATTAACCG
1 AATTACCCG
57465524 AATTA-CCG
1 AATTACCCG
*
57465532 AAAAATACCCG
1 --AATTACCCG
57465543 AATTACCCG
1 AATTACCCG
57465552 AA
1 AA
57465554 ATTTTTTTAT
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
8 11 0.14
9 58 0.76
10 4 0.05
11 3 0.04
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:57465531 original size:26 final size:26
Alignment explanation
Indices: 57465462--57465533 Score: 101
Period size: 26 Copynumber: 2.7 Consensus size: 26
57465452 TTTGGTTAAA
* *
57465462 AATTACCCGAATTACCCGAATTACCCG
1 AATTAACCGAATTA-CCGAATTAACCG
57465489 AATTAACCG-ATTAACCGAATTAACCG
1 AATTAACCGAATT-ACCGAATTAACCG
57465515 AATTAACCGAATTACCGAA
1 AATTAACCGAATTACCGAA
57465534 AAATACCCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 29 0.71
27 12 0.29
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.22
Consensus pattern (26 bp):
AATTAACCGAATTACCGAATTAACCG
Found at i:57465670 original size:40 final size:39
Alignment explanation
Indices: 57465625--57465713 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
57465615 GACTTTAGTA
* * *
57465625 AATTGGGTTGTCTTTTAGTTTTAGTTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAGTTTTAGTCTTATTGGATTAGGT
** *
57465665 AATTGGGTAAACTTTAGTTTTAGTCTTATTGGGTTAGGT
1 AATTGGGTTGACTTTAGTTTTAGTCTTATTGGATTAGGT
57465704 AATTGGGTTG
1 AATTGGGTTG
57465714 GGTAATTGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 32 0.78
40 9 0.22
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.49
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGTTTTAGTCTTATTGGATTAGGT
Found at i:57465710 original size:13 final size:13
Alignment explanation
Indices: 57465692--57465721 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57465682 TTTTAGTCTT
57465692 ATTGGGTTAGGTA
1 ATTGGGTTAGGTA
*
57465705 ATTGGGTTGGGTA
1 ATTGGGTTAGGTA
57465718 ATTG
1 ATTG
57465722 AGTTTGGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
ATTGGGTTAGGTA
Found at i:57466987 original size:26 final size:28
Alignment explanation
Indices: 57466956--57467013 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
57466946 TATTGTAAAC
**
57466956 AAAGGAAAGGAAGTG-GCAAAGGG-GTG
1 AAAGGAAAAAAAGTGAGCAAAGGGAGTG
57466982 AAAGGAAAAAAAGTGAAGCAAAGGGAGTG
1 AAAGGAAAAAAAGTG-AGCAAAGGGAGTG
57467011 AAA
1 AAA
57467014 TCTACCCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
28 8 0.30
29 6 0.22
ACGTcount: A:0.52, C:0.03, G:0.38, T:0.07
Consensus pattern (28 bp):
AAAGGAAAAAAAGTGAGCAAAGGGAGTG
Found at i:57467728 original size:21 final size:22
Alignment explanation
Indices: 57467704--57467758 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
57467694 TCCATCTATC
57467704 GTGCTCATGTT-TAGCACTTAT
1 GTGCTCATGTTCTAGCACTTAT
*
57467725 GTGCTCGAAT-TTCTAGCACTTTT
1 GTGCTC--ATGTTCTAGCACTTAT
57467748 GTGCTCATGTT
1 GTGCTCATGTT
57467759 GTTCTACGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 8 0.28
22 4 0.14
23 17 0.59
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (22 bp):
GTGCTCATGTTCTAGCACTTAT
Found at i:57467840 original size:16 final size:16
Alignment explanation
Indices: 57467821--57467859 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
57467811 AAAGGTTAAT
57467821 TGAAGAAAGTGCTAAG
1 TGAAGAAAGTGCTAAG
* *
57467837 TGAAGTAAGTGTTAAG
1 TGAAGAAAGTGCTAAG
57467853 TGAAGAA
1 TGAAGAA
57467860 TTTATACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.31, T:0.23
Consensus pattern (16 bp):
TGAAGAAAGTGCTAAG
Found at i:57468072 original size:15 final size:15
Alignment explanation
Indices: 57468052--57468081 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57468042 TGTAGATTGC
57468052 ACAAAGTGATCGAGT
1 ACAAAGTGATCGAGT
*
57468067 ACAAAGTGTTCGAGT
1 ACAAAGTGATCGAGT
57468082 GTGGTTTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
ACAAAGTGATCGAGT
Found at i:57470896 original size:114 final size:114
Alignment explanation
Indices: 57470736--57471171 Score: 710
Period size: 114 Copynumber: 3.8 Consensus size: 114
57470726 GTTTACTCTC
* * * *
57470736 AAGCGCCGCAAAATATCTTAACCAAAATGCAGCTTTTAGTCTTGAGGCATATTAGAATTAGTGGT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGC
* * *
57470801 GCTTATGGGAAAACGCCGCTCAAGCACAGTATTAGTGGCGCTTTGTGGA
66 GCTTATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGA
*
57470850 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTTTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGC
* *
57470915 GCTTAAGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTTGA
66 GCTTATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGA
* * *
57470964 AATCGCCGCAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGC
57471029 GCTTATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGA
66 GCTTATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGA
* * *
57471078 AATCGCCGCAAAATATCTTAACAAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGC
* *
57471143 GCTTATGGGACAACGCCGCTAAAGCACAG
66 GCTTATGGAAAAACGCCGCTAAAGCACAG
57471172 AGCACCGCAA
Statistics
Matches: 302, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 302 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGA
Found at i:57471008 original size:228 final size:228
Alignment explanation
Indices: 57470739--57471533 Score: 802
Period size: 228 Copynumber: 3.6 Consensus size: 228
57470729 TACTCTCAAG
* *
57470739 CGCCGCAAAATATCTTAACCAAAATGCAGCTTTTAGTCTTGAGGCATATTAGAATTAGTGGTGCT
1 CGCCGCAAAATATCTTAACCAAAATGCAGCGTTTAGTCTTGAGGCATATTAGAATTAGTGGCGCT
* * *
57470804 TATGGGAAAACGCCGCTCAAGCACAGTATTAGTGGCGCTTTGTGGAAAGCGCCGCAAAATATCTT
66 TATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAAGCGCCGCAAAATATCTT
* *
57470869 AACCAAAACGCAGCGTTTAGTTTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGC
131 AACAAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGC
57470934 TAAAGCACAGTATTAGCGGCGCTTTGTTGAAAT
196 TAAAGCACAGTATTAGCGGCGCTTTGTTGAAAT
* *
57470967 CGCCGCAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAATGCAGCGTTTAGTCTTGAGGCATATTAGAATTAGTGGCGCT
*
57471032 TATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTT
66 TATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAAGCGCCGCAAAATATCTT
* * * *
57471097 AACAAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGACAACGCCGC
131 AACAAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGC
** * **** * *
57471162 TAAAGCACAG-AGCA-CCGCAAAATATT-TAA-
196 TAAAGCACAGTATTAGCGGCGCTTTGTTGAAAT
** *** * * * **
57471191 ---C-C-AAA-A-CGCAA-C-GTTTG--GTC-TTGAGGTATATTA-G-A-ATTAG---T-GGCGC
1 CGCCGCAAAATATCTTAACCAAAATGCAG-CGTTTA-GTCT-TGAGGCATATTAGAATTAGTGGC
*** **** ** ** * * *
57471237 TTATGGAAAAACGCCG-CTA--AAGCACAGTATTAGCGGCGTTTTGTGGAAATCGCTGCAAAATA
63 GCTTATGGAAA-AACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAAGCGCCGCAAAATA
* * * * *
57471299 TCTTAACCAAAACGTAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAGAAACG
127 TCTTAACAAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACG
57471364 CCGCTAAAGCACAGTATTAGCGGCGCTTTG-TGAAAAGT
192 CCGCTAAAGCACAGTATTAGCGGCGCTTTGTTG-AAA-T
* * * *
57471402 -GCCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAATGCAGCGTTTAGTCTTGAGGCATATTAGAATTAGTGGCGCT
* *
57471466 TATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTG-GGAAAAGCGCCGTAAAATATCT
66 TATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGG-AAAGCGCCGCAAAATATCT
57471530 TAAC
130 TAAC
57471534 CATGCATTAT
Statistics
Matches: 444, Mismatches: 91, Indels: 64
0.74 0.15 0.11
Matches are distributed among these distances:
206 113 0.25
207 3 0.01
208 12 0.03
209 5 0.01
212 5 0.01
213 5 0.01
214 6 0.01
215 7 0.02
216 2 0.00
217 6 0.01
218 2 0.00
219 6 0.01
220 6 0.01
221 5 0.01
222 5 0.01
225 5 0.01
226 13 0.03
227 4 0.01
228 234 0.53
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (228 bp):
CGCCGCAAAATATCTTAACCAAAATGCAGCGTTTAGTCTTGAGGCATATTAGAATTAGTGGCGCT
TATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAAGCGCCGCAAAATATCTT
AACAAAAACGCAGCGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGC
TAAAGCACAGTATTAGCGGCGCTTTGTTGAAAT
Found at i:57471241 original size:92 final size:93
Alignment explanation
Indices: 57471083--57471263 Score: 319
Period size: 92 Copynumber: 2.0 Consensus size: 93
57471073 GTGGAAATCG
*
57471083 CCGCAAAATATCTTAACAAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACAAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
* *
57471148 TGGGACAACGCCGCTAAAGCACAGAGCA
66 TGGAAAAACGCCGCTAAAGCACAGAGCA
*
57471176 CCGCAAAATAT-TTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACAAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
57471240 TGGAAAAACGCCGCTAAAGCACAG
66 TGGAAAAACGCCGCTAAAGCACAG
57471264 TATTAGCGGC
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
92 73 0.87
93 11 0.13
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (93 bp):
CCGCAAAATATCTTAACAAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
TGGAAAAACGCCGCTAAAGCACAGAGCA
Found at i:57471335 original size:206 final size:207
Alignment explanation
Indices: 57470969--57471377 Score: 723
Period size: 206 Copynumber: 2.0 Consensus size: 207
57470959 GTTGAAATCG
* *
57470969 CCGCAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
57471034 TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
66 TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
* *
57471099 CAAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGG-GACAACGCCGCT
131 CAAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAGA-AACGCCGCT
57471163 AAAGCACAGAGCA
195 AAAGCACAGAGCA
57471176 CCGCAAAATAT-TTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
* *
57471240 TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTTTTGTGGAAATCGCTGCAAAATATCTTAA
66 TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
* *
57471305 CCAAAACGTAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAGAAACGCCGCTA
131 CAAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAGAAACGCCGCTA
57471370 AAGCACAG
196 AAGCACAG
57471378 TATTAGCGGC
Statistics
Matches: 193, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
206 180 0.93
207 13 0.07
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (207 bp):
CCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
CAAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAGAAACGCCGCTA
AAGCACAGAGCA
Found at i:57471387 original size:114 final size:114
Alignment explanation
Indices: 57471176--57471535 Score: 575
Period size: 114 Copynumber: 3.2 Consensus size: 114
57471166 GCACAGAGCA
* *
57471176 CCGCAAAATAT-TTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
* *
57471240 TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTTTTGTGGAAATCG
66 TGGAGAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCG
* *
57471289 CTGCAAAATATCTTAACCAAAACGTAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
* *
57471354 AGGAGAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAAAAGT-G
66 TGGAGAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAA-TCG
57471403 CCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
*
57471468 TGG-GAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTG-GGAAAAGCG
66 TGGAG-AAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGG-AAATCG
*
57471517 CCGTAAAATATCTTAACCA
1 CCGCAAAATATCTTAACCA
57471536 TGCATTATAT
Statistics
Matches: 228, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
113 12 0.05
114 215 0.94
115 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (114 bp):
CCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
TGGAGAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCG
Found at i:57471449 original size:320 final size:321
Alignment explanation
Indices: 57470855--57471491 Score: 1107
Period size: 320 Copynumber: 2.0 Consensus size: 321
57470845 GTGGAAAGCG
* *
57470855 CCGCAAAATATCTTAACCAAAACGCAGCGTTTAGTTTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGCAACGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
*
57470920 AGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTTGAAATCGCCGCAAAATATCTTAA
66 AGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
* * *
57470985 CCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTA
131 CCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGCTA
*
57471050 AAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAACAAAAACGCAGCGTTT
196 AAGCACAGTATTAGCGGCGCTTTGTGAAAATCGCCGCAAAATATCTTAACAAAAACGCAGCGTTT
*
57471115 GGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGACAACGCCGCTAAAGCACAGAGCA
261 GGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTAAAGCACAGAGCA
*
57471176 CCGCAAAATAT-TTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAACGCAACGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
* * *
57471240 TGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTTTTGTGGAAATCGCTGCAAAATATCTTAA
66 AGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
* *
57471305 CCAAAACGTAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAGAAACGCCGCTA
131 CCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGCTA
* *
57471370 AAGCACAGTATTAGCGGCGCTTTGTGAAAAGT-GCCGCAAAATATCTTAACCAAAACGTAGCGTT
196 AAGCACAGTATTAGCGGCGCTTTGTGAAAA-TCGCCGCAAAATATCTTAACAAAAACGCAGCGTT
57471434 TGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTAAAGCACAG
260 TGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTAAAGCACAG
57471492 TATTAGCGGC
Statistics
Matches: 299, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
320 287 0.96
321 12 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (321 bp):
CCGCAAAATATCTTAACCAAAACGCAACGTTTAGTCTTGAGGTATATTAGAATTAGTGGCGCTTA
AGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGGAAATCGCCGCAAAATATCTTAA
CCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAAGGAAAAACGCCGCTA
AAGCACAGTATTAGCGGCGCTTTGTGAAAATCGCCGCAAAATATCTTAACAAAAACGCAGCGTTT
GGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTAAAGCACAGAGCA
Found at i:57472824 original size:82 final size:82
Alignment explanation
Indices: 57472670--57472912 Score: 285
Period size: 83 Copynumber: 2.9 Consensus size: 82
57472660 TAATAGTAAT
* * * * * *
57472670 AAAAATTTGATAATGGCATTTTTAGGGGAAAA-GCCGCAATGATTGATTAACTTTTCCCAA-AGC
1 AAAAATTTAATAGTGGCGTTTTTA-AGGAAAACGCCGCAATGATTAATTAA-ATTTCCCAATA-C
*
57472733 GGCGCCGTTTCAGTGTTGGA
63 GGCGCCGTTTCAGTATTGGA
*
57472753 AAAAATTTTATAGTGGCGTTTTTAAGGAAAACGCCGCAATGATTAATTAAATTTCCCAATACGGC
1 AAAAATTTAATAGTGGCGTTTTTAAGGAAAACGCCGCAATGATTAATTAAATTTCCCAATACGGC
*
57472818 GCCGTTTCTGTATTGGA
66 GCCGTTTCAGTATTGGA
*
57472835 AAATAATTGAATAGTGGCGTTTTTTAA-GAAAACGCCGCAATGATTTATATATAAACTTTCCCAA
1 AAA-AATTTAATAGTGGCG-TTTTTAAGGAAAACGCCGCAATGA-TTA-AT-TAAA-TTTCCCAA
*
57472899 TGCGGCGCCGTTTC
60 TACGGCGCCGTTTC
57472913 TGAACTTCAT
Statistics
Matches: 141, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
82 36 0.26
83 68 0.48
84 10 0.07
85 2 0.01
86 4 0.03
87 21 0.15
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (82 bp):
AAAAATTTAATAGTGGCGTTTTTAAGGAAAACGCCGCAATGATTAATTAAATTTCCCAATACGGC
GCCGTTTCAGTATTGGA
Found at i:57474396 original size:24 final size:23
Alignment explanation
Indices: 57474364--57474414 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
57474354 GGGTAGTTAC
* *
57474364 TTAACGTATTGATATATATATAAT
1 TTAACGTATTAATATAT-TAAAAT
57474388 TTAACGTATTAATATATTAAAAT
1 TTAACGTATTAATATATTAAAAT
57474411 TTAA
1 TTAA
57474415 TTTAATGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (23 bp):
TTAACGTATTAATATATTAAAAT
Found at i:57474416 original size:28 final size:28
Alignment explanation
Indices: 57474384--57474670 Score: 132
Period size: 28 Copynumber: 9.8 Consensus size: 28
57474374 GATATATATA
57474384 TAATTTAACGTATTAATATATTAAAATT
1 TAATTTAACGTATTAATATATTAAAATT
* * *
57474412 TAATTTAATGTAGTAATATA-T-ATATT
1 TAATTTAACGTATTAATATATTAAAATT
*
57474438 TAATATATAA-GCTATTTAATATATT--AGTCT
1 TAAT-T-TAACG-TA-TTAATATATTAAAAT-T
*
57474468 TAATTT--CGGTAGTTACT-TAACGTATAAATATAT
1 TAATTTAAC-GTA-TTAATAT-A--T-TAAA-AT-T
57474501 ATAATTTAACGTATTAATATATTAAAATT
1 -TAATTTAACGTATTAATATATTAAAATT
* **
57474530 TAATTTAAAGTATTAATATA-TATATTTT
1 TAATTTAACGTATTAATATATTA-AAATT
*
57474558 TAATATATAA-GCTATTTAATATATT--AGTCT
1 TAAT-T-TAACG-TA-TTAATATATTAAAAT-T
* * *
57474588 TAATTTCGGTA-GTTACTTAATGTATTAATATATA
1 TAATTT---AACG-TA-TTAATATATTAA-A-ATT
57474622 TAATTTAACGTATTAATATATTAAAATT
1 TAATTTAACGTATTAATATATTAAAATT
57474650 TAATTTAACGTATTAATATAT
1 TAATTTAACGTATTAATATAT
57474671 ATTTTTAACA
Statistics
Matches: 200, Mismatches: 25, Indels: 68
0.68 0.09 0.23
Matches are distributed among these distances:
26 9 0.05
27 12 0.06
28 75 0.38
29 16 0.08
30 30 0.15
31 28 0.14
32 4 0.02
33 2 0.01
34 18 0.09
35 5 0.03
36 1 0.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (28 bp):
TAATTTAACGTATTAATATATTAAAATT
Found at i:57474512 original size:22 final size:23
Alignment explanation
Indices: 57474484--57474532 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
57474474 CGGTAGTTAC
*
57474484 TTAACGTATAAATATA-TATAAT
1 TTAACGTATAAATATATTAAAAT
*
57474506 TTAACGTATTAATATATTAAAAT
1 TTAACGTATAAATATATTAAAAT
57474529 TTAA
1 TTAA
57474533 TTTAAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAACGTATAAATATATTAAAAT
Found at i:57474564 original size:131 final size:124
Alignment explanation
Indices: 57474340--57474949 Score: 834
Period size: 120 Copynumber: 5.0 Consensus size: 124
57474330 AAATGTTCGA
* *
57474340 ATTAGTCTTAATTTGGGTAGTTACTTAACGTATTGATATATATATAATTTAACGTATTAATATAT
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTA-T-AAATATATATAATTTAACGTATTAATATAT
* *
57474405 TAAAATTTAATTT-A---ATGTA-GTA-ATATATATATTTAATATATAAGCTATTTAATAT
64 TAAAATTTAATTTAACGTATATATATATATATATATATTTAATATATAAGCTATTTAATAT
57474460 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
*
57474525 AAATTTAATTTAAAGTAT-TA-ATATATATAT-T-TTTAATATATAAGCTATTTAATAT
66 AAATTTAATTTAACGTATATATATATATATATATATTTAATATATAAGCTATTTAATAT
* *
57474580 ATTAGTCTTAATTTCGGTAGTTACTTAATGTATTAATATATATAATTTAACGTATTAATATATTA
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
* * *
57474645 AAATTTAATTTAACGTATTAATATATATTTTTAACATATAATTTTAATATATAAGCTATCTAATA
66 AAATTTAATTTAACGTA-T-ATATATA--TAT-ATATAT-A-TTTAATATATAAGCTATTTAATA
57474710 T
124 T
*
57474711 ATTAGTCTTAATTTCGATAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
57474776 AAATTTAATTTAACG--TAT-TA-ATATATAT-T-TTTAATATATAAGCTATTTAATAT
66 AAATTTAATTTAACGTATATATATATATATATATATTTAATATATAAGCTATTTAATAT
* *
57474829 ATTAGTCTTAATTTTGGTAGTTACTTAACGTATTAATATATATATAATTTAACATATTAATATAT
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTA-TAA-ATATATATAATTTAACGTATTAATATAT
*
57474894 TAAAATTTAATTTAACGTAT-TA-ATATATATAT-T-TTTAACATATAA--T-TTTAATAT
64 TAAAATTTAATTTAACGTATATATATATATATATATATTTAATATATAAGCTATTTAATAT
57474948 AT
1 AT
57474950 AAGCTATTTA
Statistics
Matches: 449, Mismatches: 19, Indels: 45
0.88 0.04 0.09
Matches are distributed among these distances:
118 95 0.21
119 15 0.03
120 179 0.40
121 9 0.02
122 32 0.07
123 4 0.01
124 3 0.01
125 1 0.00
126 4 0.01
127 5 0.01
128 2 0.00
131 100 0.22
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (124 bp):
ATTAGTCTTAATTTCGGTAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
AAATTTAATTTAACGTATATATATATATATATATATTTAATATATAAGCTATTTAATAT
Found at i:57474678 original size:13 final size:13
Alignment explanation
Indices: 57474662--57474698 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
57474652 ATTTAACGTA
*
57474662 TTAATATATATTT
1 TTAATATATAATT
*
57474675 TTAACATATAATT
1 TTAATATATAATT
57474688 TTAATATATAA
1 TTAATATATAA
57474699 GCTATCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:57474763 original size:22 final size:23
Alignment explanation
Indices: 57474735--57474783 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
57474725 CGATAGTTAC
*
57474735 TTAACGTATAAATATA-TATAAT
1 TTAACGTATAAATATATTAAAAT
*
57474757 TTAACGTATTAATATATTAAAAT
1 TTAACGTATAAATATATTAAAAT
57474780 TTAA
1 TTAA
57474784 TTTAACGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAACGTATAAATATATTAAAAT
Found at i:57474772 original size:251 final size:253
Alignment explanation
Indices: 57474427--57474961 Score: 952
Period size: 251 Copynumber: 2.1 Consensus size: 253
57474417 TAATGTAGTA
*
57474427 ATATATATATTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAACGTA
1 ATATA-AT-TTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTA
57474492 TAAATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAAAGTATTAATATATATATTT
64 TAAATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAAAGTATT-A-ATATATATTT
*
57474557 TTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAATGTATT-A-ATATA
127 TTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATA
*
57474620 TATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATT-A-ATATATATTTTTAAC
192 TATAATTTAACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATATTTTTAAC
*
57474680 ATATAATTTTAATATATAAGCTATCTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTATA
1 ATATAATTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTATA
*
57474745 AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
66 AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAAAGTATTAATATATATTTTTAA
*
57474810 TATATAAGCTATTTAATATATTAGTCTTAATTTTGGTAGTTACTTAACGTATTAATATATATATA
131 TATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATATATA
57474875 ATTTAACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATATTTTTAAC
196 ATTTAACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATATTTTTAAC
57474933 ATATAATTTTAATATATAAGCTATTTAAT
1 ATATAATTTTAATATATAAGCTATTTAAT
57474962 CTGTGCCATA
Statistics
Matches: 271, Mismatches: 7, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
249 65 0.24
250 2 0.01
251 153 0.56
252 3 0.01
253 48 0.18
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.47
Consensus pattern (253 bp):
ATATAATTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTATA
AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAAAGTATTAATATATATTTTTAA
TATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATATATA
ATTTAACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATATTTTTAAC
Found at i:57474785 original size:28 final size:28
Alignment explanation
Indices: 57474753--57474921 Score: 107
Period size: 28 Copynumber: 5.8 Consensus size: 28
57474743 TAAATATATA
57474753 TAATTTAACGTATTAATATATTAAAATT
1 TAATTTAACGTATTAATATATTAAAATT
**
57474781 TAATTTAACGTATTAATATA-T-ATTTT
1 TAATTTAACGTATTAATATATTAAAATT
*
57474807 TAATATATAA-GCTATTTAATATATT--AGTCT
1 TAAT-T-TAACG-TA-TTAATATATTAAAAT-T
* **
57474837 TAATTTTGGTA-GTTACTTAACGTATTAATATATAT
1 TAA-TTT--AACG-TA-TTAATATATTAA-A-AT-T
*
57474872 ATAATTTAACATATTAATATATTAAAATT
1 -TAATTTAACGTATTAATATATTAAAATT
57474901 TAATTTAACGTATTAATATAT
1 TAATTTAACGTATTAATATAT
57474922 ATATTTTTAA
Statistics
Matches: 110, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
26 7 0.06
27 3 0.03
28 45 0.41
29 11 0.10
30 8 0.07
31 14 0.13
32 10 0.09
33 3 0.03
34 1 0.01
35 5 0.05
36 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (28 bp):
TAATTTAACGTATTAATATATTAAAATT
Found at i:57474910 original size:120 final size:118
Alignment explanation
Indices: 57474675--57474949 Score: 430
Period size: 118 Copynumber: 2.3 Consensus size: 118
57474665 ATATATATTT
* * *
57474675 TTAACATATAATTTTAATATATAAGCTATCTAATATATTAGTCTTAATTTCGATAGTTACTTAAC
1 TTAATATATATTTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGATAGTTACTTAAC
*
57474740 GTATAAATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTA
66 GTATAAATATATATAATTTAACATATTAATATATTAAAATTTAATTTAACGTA
* *
57474793 TTAATATATATTTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTTGGTAGTTACTTAAC
1 TTAATATATATTTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGATAGTTACTTAAC
57474858 GTATTAATATATATATAATTTAACATATTAATATATTAAAATTTAATTTAACGTA
66 GTA-TAA-ATATATATAATTTAACATATTAATATATTAAAATTTAATTTAACGTA
*
57474913 TTAATATATATATTTTTAACATATAA--T-TTTAATATAT
1 TT-A-ATATATATTTTTAATATATAAGCTATTTAATATAT
57474950 AAGCTATTTA
Statistics
Matches: 146, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
118 63 0.43
119 13 0.09
120 49 0.34
121 1 0.01
122 20 0.14
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (118 bp):
TTAATATATATTTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGATAGTTACTTAAC
GTATAAATATATATAATTTAACATATTAATATATTAAAATTTAATTTAACGTA
Found at i:57475806 original size:14 final size:15
Alignment explanation
Indices: 57475776--57475809 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
57475766 CTGTTTAGGG
*
57475776 TTTCATTTCTATCCA
1 TTTCATTACTATCCA
57475791 TTTCATTACT-TCCA
1 TTTCATTACTATCCA
57475805 TTTCA
1 TTTCA
57475810 CTTTTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTCATTACTATCCA
Found at i:57476301 original size:31 final size:31
Alignment explanation
Indices: 57476263--57476325 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
57476253 TATATAAGTG
57476263 ATGAAATGAGATAAGATCAAAGTGATACATT
1 ATGAAATGAGATAAGATCAAAGTGATACATT
*
57476294 ATGAAATGAGATATGATCAAAGTGATACATT
1 ATGAAATGAGATAAGATCAAAGTGATACATT
57476325 A
1 A
57476326 GTAAAGAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (31 bp):
ATGAAATGAGATAAGATCAAAGTGATACATT
Found at i:57477566 original size:17 final size:17
Alignment explanation
Indices: 57477546--57477638 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 17
57477536 TTATTTTCTA
57477546 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
57477563 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
57477577 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * *
57477593 TATTAGTATT-AAAATT
1 TATAAGTTTTCTAAATT
* *
57477609 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
*
57477624 TGTAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
57477639 AAAGTGTTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
13 10 0.17
14 2 0.03
15 10 0.17
16 15 0.25
17 22 0.37
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:57477574 original size:30 final size:30
Alignment explanation
Indices: 57477539--57477595 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
57477529 TATTGTTTTA
*
57477539 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
*
57477569 TTTTCTAAATAATTTTTCTAAATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
57477596 TAGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:57477589 original size:13 final size:13
Alignment explanation
Indices: 57477539--57477591 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
57477529 TATTGTTTTA
*
57477539 TTTTCTATATAAG
1 TTTTCTAAATAAG
57477552 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
57477569 TTTTCTAAATAAT
1 TTTTCTAAATAAG
57477582 TTTTCTAAAT
1 TTTTCTAAAT
57477592 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:57477609 original size:16 final size:16
Alignment explanation
Indices: 57477588--57477621 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57477578 TAATTTTTCT
57477588 AAATTTATTAGTATTA
1 AAATTTATTAGTATTA
57477604 AAATTTATTAGTATTA
1 AAATTTATTAGTATTA
57477620 AA
1 AA
57477622 TTTGTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
AAATTTATTAGTATTA
Found at i:57477622 original size:15 final size:15
Alignment explanation
Indices: 57477587--57477624 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
57477577 ATAATTTTTC
57477587 TAAATTTATTAGTAT
1 TAAATTTATTAGTAT
57477602 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
57477618 TAAATTT
1 TAAATTT
57477625 GTAAGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:57477685 original size:15 final size:15
Alignment explanation
Indices: 57477665--57477787 Score: 65
Period size: 15 Copynumber: 7.9 Consensus size: 15
57477655 TTATTTGCTT
57477665 ACATAATACATAATA
1 ACATAATACATAATA
57477680 ACATAATACATAACTTA
1 ACATAATACATAA--TA
* * *
57477697 TATATAAGCTTGCATAACTT
1 -ACATAA---TACATAA-TA
* *
57477717 ACATAATAACTTCCATA
1 ACATAAT-ACAT-AATA
* *
57477734 ACCT-ATATATAATA
1 ACATAATACATAATA
*
57477748 ACATAAT--A-AATT
1 ACATAATACATAATA
57477760 ACATAATACATAATA
1 ACATAATACATAATA
57477775 ACATAATACATAA
1 ACATAATACATAA
57477788 CTTATATATA
Statistics
Matches: 80, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
12 10 0.12
13 1 0.01
14 7 0.09
15 33 0.41
16 3 0.04
17 8 0.10
18 6 0.08
19 5 0.06
20 1 0.01
21 6 0.08
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (15 bp):
ACATAATACATAATA
Done.