Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 121 of 318
Found at i:38072130 original size:49 final size:49
Alignment explanation
Indices: 38071954--38072140 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 49
38071944 TTGTGAGGTC
* * *
38071954 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGAT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTG-GTT
* * * * ** *
38072004 -CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTC
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATT-GGTT
* * *
38072055 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGTATAATTGGTT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-ATAATTGGTT
38072104 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
38072141 AGACAGGTTC
Statistics
Matches: 112, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
49 39 0.35
50 36 0.32
51 35 0.31
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGGTT
Found at i:38075404 original size:26 final size:29
Alignment explanation
Indices: 38075374--38075437 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
38075364 AAGCAATAGG
*
38075374 TAATAATAAATATAATAAT-AG-A-AATA
1 TAATAATAAAGATAATAATAAGTATAATA
* *
38075400 TAATATTAAAGATAATACTAAGTATAATA
1 TAATAATAAAGATAATAATAAGTATAATA
38075429 TAATAATAA
1 TAATAATAA
38075438 TAATGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 16 0.52
27 2 0.06
28 1 0.03
29 12 0.39
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (29 bp):
TAATAATAAAGATAATAATAAGTATAATA
Found at i:38075446 original size:14 final size:14
Alignment explanation
Indices: 38075374--38075449 Score: 59
Period size: 14 Copynumber: 5.3 Consensus size: 14
38075364 AAGCAATAGG
38075374 TAATAATAAATATAA
1 TAATAAT-AATATAA
38075389 TAATAGA-AATATAA
1 TAATA-ATAATATAA
* *
38075403 TATTAA-AGATAATAC
1 TAATAATA-AT-ATAA
38075418 TAAGT-ATAATATAA
1 TAA-TAATAATATAA
*
38075432 TAATAATAATGTAA
1 TAATAATAATATAA
38075446 TAAT
1 TAAT
38075450 GATAGTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.06
14 31 0.62
15 13 0.26
16 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:38079575 original size:31 final size:31
Alignment explanation
Indices: 38079538--38079596 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
38079528 CCCGAGCCTA
38079538 GGGGCAAAA-GTGTAATTATGCAAAAGTTTAG
1 GGGGCAAAATG-GTAATTATGCAAAAGTTTAG
* *
38079569 GGGGCAAAATGGTAATTTTGCCAAAGTT
1 GGGGCAAAATGGTAATTATGCAAAAGTT
38079597 CGTATTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.27
Consensus pattern (31 bp):
GGGGCAAAATGGTAATTATGCAAAAGTTTAG
Found at i:38080327 original size:51 final size:50
Alignment explanation
Indices: 38080251--38080384 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 50
38080241 TGAGGTCGCA
*
38080251 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAACTA-GATCACG
* * * **** *
38080302 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAACTAGATCACG
*
38080352 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
38080385 TAGACAGCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
50 35 0.50
51 35 0.50
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAACTAGATCACG
Found at i:38080373 original size:50 final size:51
Alignment explanation
Indices: 38080251--38080377 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
38080241 TGAGGTCGCA
* *
38080251 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAACTATGATCACG
* * **** *
38080302 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA-GGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAACTATGATCACG
38080352 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38080378 TGCGTACTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 31 0.47
51 35 0.53
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAACTATGATCACG
Found at i:38096321 original size:23 final size:21
Alignment explanation
Indices: 38096301--38096340 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38096291 ACCGAAAGAC
38096301 TGCTAGAAACAGAGAGAAAAG
1 TGCTAGAAACAGAGAGAAAAG
* *
38096322 TGGTAGAAATAGAGAGAAA
1 TGCTAGAAACAGAGAGAAA
38096341 CGTTGATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.30, T:0.12
Consensus pattern (21 bp):
TGCTAGAAACAGAGAGAAAAG
Found at i:38097402 original size:21 final size:23
Alignment explanation
Indices: 38097378--38097430 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
38097368 TAGATTTAAA
38097378 AATTTTAATTTTAATTGA-A-TT
1 AATTTTAATTTTAATTGAGATTT
* *
38097399 AATTTTAAATTTAGTTGAGATTT
1 AATTTTAATTTTAATTGAGATTT
*
38097422 AATTATAAT
1 AATTTTAAT
38097431 CTAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 16 0.62
22 1 0.04
23 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (23 bp):
AATTTTAATTTTAATTGAGATTT
Found at i:38099534 original size:13 final size:14
Alignment explanation
Indices: 38099516--38099544 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38099506 CTATCGTAAT
38099516 AATATTT-TATAAA
1 AATATTTATATAAA
38099529 AATATTTATATAAA
1 AATATTTATATAAA
38099543 AA
1 AA
38099545 CAGGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATTTATATAAA
Found at i:38100403 original size:10 final size:10
Alignment explanation
Indices: 38100388--38100414 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38100378 ATACTCACTA
38100388 TCTTTTAGCT
1 TCTTTTAGCT
38100398 TCTTTTAGCT
1 TCTTTTAGCT
38100408 TCTTTTA
1 TCTTTTA
38100415 TCGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.07, T:0.63
Consensus pattern (10 bp):
TCTTTTAGCT
Found at i:38106265 original size:24 final size:24
Alignment explanation
Indices: 38106209--38106265 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
38106199 CCGTGTGTGT
* * *
38106209 GAATCTGAATATGCATTTGTTTCT
1 GAATATGAATATGCATTTGTATCC
* *
38106233 GAATCTGAATATGTATTTGTATCC
1 GAATATGAATATGCATTTGTATCC
*
38106257 GATTATGAA
1 GAATATGAA
38106266 ATACATATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.42
Consensus pattern (24 bp):
GAATATGAATATGCATTTGTATCC
Found at i:38110069 original size:16 final size:17
Alignment explanation
Indices: 38110042--38110082 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
38110032 TATATATTTG
*
38110042 TAATTTTATTATATT-A
1 TAATTATATTATATTCA
*
38110058 TGATTATATTATATTCA
1 TAATTATATTATATTCA
38110075 TAATTATA
1 TAATTATA
38110083 AACTCTCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TAATTATATTATATTCA
Found at i:38110787 original size:19 final size:20
Alignment explanation
Indices: 38110736--38110787 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
38110726 CTAGCAGTTA
*
38110736 CAAATCAAGCAATGAAAATCC
1 CAAAT-AAGCCATGAAAATCC
*
38110757 CAAATAATCCATGAAAAT-C
1 CAAATAAGCCATGAAAATCC
*
38110776 CAAATAGGCCAT
1 CAAATAAGCCAT
38110788 TATTACAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 11 0.41
21 5 0.19
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.17
Consensus pattern (20 bp):
CAAATAAGCCATGAAAATCC
Found at i:38111597 original size:18 final size:17
Alignment explanation
Indices: 38111571--38111604 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38111561 CATGTAATTT
38111571 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
38111589 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
38111605 AGGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:38114163 original size:21 final size:20
Alignment explanation
Indices: 38114126--38114178 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
38114116 ATCAGCTCAC
*
38114126 TTGAGCTCATTTCAGCTTGT
1 TTGAGCTCATTTCAGCTCGT
* *
38114146 TTGAGCTTGATTTTAGCTCGT
1 TTGAGC-TCATTTCAGCTCGT
* *
38114167 TTCAGCCCATTT
1 TTGAGCTCATTT
38114179 ATTTTTTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (20 bp):
TTGAGCTCATTTCAGCTCGT
Found at i:38114422 original size:13 final size:13
Alignment explanation
Indices: 38114404--38114428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38114394 TAGTTGTGTT
38114404 TTATTTAATTATG
1 TTATTTAATTATG
38114417 TTATTTAATTAT
1 TTATTTAATTAT
38114429 ATAGGTTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTATTTAATTATG
Found at i:38115527 original size:13 final size:14
Alignment explanation
Indices: 38115511--38115546 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
38115501 CAATCTCATA
38115511 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
38115524 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
38115537 TCTC-ATTTCA
1 TCTCAATTTCA
38115547 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:38115536 original size:18 final size:19
Alignment explanation
Indices: 38115498--38115538 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
38115488 TGGTTCATGT
38115498 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
38115517 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
38115535 TTTC
1 TTTC
38115539 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:38115728 original size:39 final size:38
Alignment explanation
Indices: 38115661--38115795 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
38115651 ACCAATATGG
* * *
38115661 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
38115700 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
38115738 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
38115779 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
38115796 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:38116061 original size:18 final size:19
Alignment explanation
Indices: 38116035--38116073 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
38116025 TTTCAATTCA
38116035 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
38116054 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
38116072 AT
1 AT
38116074 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:38117399 original size:5 final size:5
Alignment explanation
Indices: 38117389--38117445 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
38117379 TTACTTATTT
* * *
38117389 ATATA ATATAA TATATA ATATA ATATA CTATA GTATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
38117437 ATAT- ATATA
1 ATATA ATATA
38117446 TTTTAACACA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 4 0.09
5 28 0.65
6 7 0.16
7 4 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:38117405 original size:12 final size:12
Alignment explanation
Indices: 38117388--38117443 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
38117378 TTTACTTATT
38117388 TATATAATATAA
1 TATATAATATAA
38117400 TATATAATATAA
1 TATATAATATAA
38117412 TATACTATAGTATAA
1 TATA-TA-A-TATAA
*
38117427 TA-ATAATTTAA
1 TATATAATATAA
38117438 TATATA
1 TATATA
38117444 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:38121199 original size:74 final size:74
Alignment explanation
Indices: 38121118--38121266 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
38121108 TTGTAGCTTA
38121118 TACCGTTTATAATTTTATATTTTTATGATTTAATTATTTGTAGTTTTGCTTAGAGCAATATTTGG
1 TACCGTTTATAATTTTATATTTTTATGATTTAATTATTTGTAGTTTTGCTTAGAGCAATATTTGG
38121183 AATCAACTT
66 AATCAACTT
38121192 TACCGTTTATAATTTTATATTTTTATGATTTAATTATTTGTAGTTTTGCTTAGAGCAATATTTGG
1 TACCGTTTATAATTTTATATTTTTATGATTTAATTATTTGTAGTTTTGCTTAGAGCAATATTTGG
38121257 AATCAACTT
66 AATCAACTT
38121266 T
1 T
38121267 TTTTTATATT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (74 bp):
TACCGTTTATAATTTTATATTTTTATGATTTAATTATTTGTAGTTTTGCTTAGAGCAATATTTGG
AATCAACTT
Found at i:38122874 original size:5 final size:5
Alignment explanation
Indices: 38122864--38122906 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
38122854 TATCCCTTCT
* * *
38122864 TTTCC TTTCC TTGCC TTTCT TTTCC TTTCC TTGCC TTTCC TTT
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTT
38122907 ATAATTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.35, G:0.05, T:0.60
Consensus pattern (5 bp):
TTTCC
Found at i:38122883 original size:20 final size:20
Alignment explanation
Indices: 38122860--38122902 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
38122850 TAACTATCCC
38122860 TTCTTTTCCTTTCCTTGCCT
1 TTCTTTTCCTTTCCTTGCCT
38122880 TTCTTTTCCTTTCCTTGCCT
1 TTCTTTTCCTTTCCTTGCCT
38122900 TTC
1 TTC
38122903 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.05, T:0.60
Consensus pattern (20 bp):
TTCTTTTCCTTTCCTTGCCT
Found at i:38134282 original size:131 final size:129
Alignment explanation
Indices: 38133903--38134345 Score: 415
Period size: 131 Copynumber: 3.4 Consensus size: 129
38133893 CCCAAACGGT
* * * ** * *
38133903 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAA-TTTCCAAATATGAAACATTGCCTCAT
1 AAAT-GAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCA-
* * * * * * *
38133967 TTTAA----TTTGAGAAAACATGGACGAAAGTTCAAAAGGATATTCTGTATTTTAGTCGAATAGA
64 TTTAATTTTTTTTAAAAAAAATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAAGAAA
38134028 A
129 A
* * * * * **
38134029 AATTGAAGCCCAGCATGATTGGGCACGA-CTCCCCAAACT-TCCAAGCACGAAATATTGCCTC--
1 AAATGAAACCCAGCACGATTGGGCACGATCT-CTCAAACTCCCCAAATACGAAATATTGCCTCAT
* * * * *
38134090 GT--TTTATTTTAAGAAAACGA-GGATGAAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAA
65 TTAATTTTTTTTAA-AAAA-AATGGACG-AAATTTC--AAAAGGATATTCCGTATTTTAGTCGAA
38134152 CGAAAA
125 -GAAAA
*
38134158 AAATGAAACCCAGCACAATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCATT
1 AAATGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCATT
*
38134223 TAATTTTTTTTTAAAAAAAATGGACGAAATTTCCAAAGGATATTCCGTATTTTAGTCGAATGAAA
66 TAA-TTTTTTTTAAAAAAAATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAA-GAAA
38134288 A
129 A
* * * *
38134289 GAACGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAACTACGAGATATT
1 AAATGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATT
38134346 TCCTTATGTT
Statistics
Matches: 256, Mismatches: 41, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
122 1 0.00
124 5 0.02
125 51 0.20
126 11 0.04
128 25 0.10
129 34 0.13
130 21 0.08
131 82 0.32
132 1 0.00
133 8 0.03
134 8 0.03
135 9 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (129 bp):
AAATGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCATT
TAATTTTTTTTAAAAAAAATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAAGAAAA
Found at i:38134984 original size:15 final size:16
Alignment explanation
Indices: 38134972--38135001 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38134962 GTATATAAGA
38134972 AAATT-TAAAATAAAC
1 AAATTATAAAATAAAC
38134987 AAATTATAAAATAAA
1 AAATTATAAAATAAA
38135002 ACAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATTATAAAATAAAC
Found at i:38136341 original size:89 final size:88
Alignment explanation
Indices: 38136241--38136438 Score: 288
Period size: 89 Copynumber: 2.2 Consensus size: 88
38136231 CCTGCTCCAT
* ** *
38136241 TGCAACTTCAGGGAGATAAGGTTGGTAGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
1 TGCAACTTCAGGAAGATAAGACTAGTAGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
*
38136306 TCTGTAACTTTTCAGTCTGCTTCC
66 TCTGTAA-TTTTCAGCCTGCTTCC
* * *
38136330 TGCAACTTCAGGAAGATAAGACTAGTAGCTGAGATCTGCTCCATAGCTGATACATGGAGATAAGA
1 TGCAACTTCAGGAAGATAAGACTAGTAGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
*
38136395 TTTGTAATTTTCAGCCTGCTTCC
66 TCTGTAATTTTCAGCCTGCTTCC
* *
38136418 TACAACTTCAAGAAGATAAGA
1 TGCAACTTCAGGAAGATAAGA
38136439 TTTGCTATCT
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 34 0.35
89 64 0.65
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (88 bp):
TGCAACTTCAGGAAGATAAGACTAGTAGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
TCTGTAATTTTCAGCCTGCTTCC
Found at i:38136479 original size:89 final size:89
Alignment explanation
Indices: 38136297--38136770 Score: 273
Period size: 89 Copynumber: 5.3 Consensus size: 89
38136287 CCGATACATG
* * * *
38136297 GAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTAG-TAGC-T
1 GAGATAAGATTTGTAA-TTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGCTATCTT
* * *
38136360 GAGATCTGCTCCA-TAGCTGA-TACATG-
65 CAG-TCTGCTCCACT-G-TAACTTCA-GA
* * *
38136386 GAGATAAGATTTGTAATTTTCAGCCTGCTTCCTACAACTTCAAGAAGATAAGATTTGCTATCTTC
1 GAGATAAGATTTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGCTATCTTC
38136451 AGTCTGCTCCACTGTAACTTCAGA
66 AGTCTGCTCCACTGTAACTTCAGA
* * * * *
38136475 GAGATAAAACTTGCT-ATCTTT-AGTCTGC-TCCACAGCAACTTCAGGGAGATAAGGCTTGCTAT
1 GAGATAAGATTTG-TAAT-TTTCAGTCTGCTTCC-TA-CAACTTCAGGAAGATAAGACTTGCTAT
*
38136537 CTTCAGTCTGCTCCACTGCAACTTCA-A
62 CTTCAGTCTGCTCCACTGTAACTTCAGA
* * ** ** * * * * * ** *
38136564 GGAGATAAGGTTGGT-GGTTGAAATCTGC-TCCATAGCCGA-TACATGTAGATAAGACCCGCCA-
1 -GAGATAAGATTTGTAATTTTCAGTCTGCTTCC-TA--CAACTTCAGGAAGATAAGACTTGCTAT
** * *
38136625 CTTTTGATCTGCTCCA-TAGTCGA-TACATG-
62 CTTCAG-TCTGCTCCACT-GT-AACTTCA-GA
* * * * *
38136654 GAGATAAGATCTGTAA-TTTCGGTTTGCTTCCTGCAACTTCAGGAAGATAAGACTTGCTATTTTC
1 GAGATAAGATTTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGCTATCTTC
* *
38136718 AGTCTGCTCTACTGCAACTTCAGA
66 AGTCTGCTCCACTGTAACTTCAGA
* *
38136742 GAGATAAGACTTGTCATTTTC-GATCTGCT
1 GAGATAAGATTTGTAATTTTCAG-TCTGCT
38136771 CTATAGCCGA
Statistics
Matches: 289, Mismatches: 70, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
87 4 0.01
88 91 0.31
89 123 0.43
90 71 0.25
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (89 bp):
GAGATAAGATTTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGCTATCTTC
AGTCTGCTCCACTGTAACTTCAGA
Found at i:38136527 original size:134 final size:134
Alignment explanation
Indices: 38136316--38137330 Score: 919
Period size: 134 Copynumber: 7.6 Consensus size: 134
38136306 TCTGTAACTT
* * ** * *
38136316 TTCAGTCTGCTTC-CTGCAACTTCAG-GAAGATAAGACTAG-TAGCTGAGATCTGCTCCATAGCT
1 TTCAGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTCGCTATTTTAGATCTGCTCCATAGCC
* * * *
38136378 GATACATGGAGATAAGATTTGTAATTTTCAGCCTGCTTCCTACAACTTCAAGAAGATAAGATTTG
65 GATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTG
38136443 CTATC
130 CTATC
* * * *
38136448 TTCAGTCTGCTCCACTGTAACTTCAGAGAGATAAAACTTGCTATCTTTAG-TCTGCTCCACAG-C
1 TTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCTAT-TTTAGATCTGCTCCATAGCC
* * * * * * *
38136511 AACTTCAGGGAGATAAG-GCTTGCT-ATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAG-
65 GA-TACATGGAGATAAGATC-TG-TAATTTTCAGTCTGCTTC-CTGCAACTTCAAGAAGATAAGA
* * *
38136573 GTTGGTGGT-
126 CTTGCT-ATC
** * * * * * *
38136582 TGAAATCTGCTCCA-TAGCCGA-TACATG-TAGATAAGACCCGCCACTTTT-GATCTGCTCCATA
1 TTCAGTCTGCTCCACT-G-CAACTTCA-GAGAGATAAGACTCGCTA-TTTTAGATCTGCTCCATA
* * * *
38136643 GTCGATACATGGAGATAAGATCTGTAA-TTTCGGTTTGCTTCCTGCAACTTCAGGAAGATAAGAC
62 GCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGAC
*
38136707 TTGCTATT
127 TTGCTATC
* * * *
38136715 TTCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACTTG-TCATTTTCGATCTGCTCTATAGCC
1 TTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCT-ATTTTAGATCTGCTCCATAGCC
* *
38136779 GATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTA
65 GATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTT
**
38136844 G-TGGC
129 GCTATC
** * * * *
38136849 TAAAATCTGCTCCA-TAGCCGA-TACATG-GAGATAAGACTCGCCATTTCTA-ATCTGCTCCATA
1 TTCAGTCTGCTCCACT-G-CAACTTCA-GAGAGATAAGACTCGCTATTT-TAGATCTGCTCCATA
* * * *
38136910 GCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTACTTCCTGCAACTTTAGGAAGATAAGAC
62 GCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGAC
*
38136975 TTGCTATT
127 TTGCTATC
* * *
38136983 TTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCG-TCATTTTCGATCTACTCCATAGCC
1 TTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCT-ATTTTAGATCTGCTCCATAGCC
38137047 GATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTT
65 GATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTT
*
38137112 CCTATC
129 GCTATC
* * * * * * *
38137118 TTCAGTCTACTCCACTGCAACTTTAGAGAGATAAGACTTG-TCATTTTCGATCTACTCTATAGCT
1 TTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCT-ATTTTAGATCTGCTCCATAGCC
* * * *
38137182 GGTACATGAAGATAAGATCTGTAACTTTTCGGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTT
65 GATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTT
38137247 G-TATC
129 GCTATC
* ** * * * * * *** *
38137252 TCCAACCTGCT-CTCTGCAACTTCAGGGAAATAAGGCT-GGTGGCTTAAATCTGCTCCATAGCCG
1 TTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCTATTTTAGATCTGCTCCATAGCCG
38137315 ATACATGGAGATAAGA
66 ATACATGGAGATAAGA
38137331 CCCGCCATTT
Statistics
Matches: 717, Mismatches: 126, Indels: 80
0.78 0.14 0.09
Matches are distributed among these distances:
132 69 0.10
133 166 0.23
134 252 0.35
135 230 0.32
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (134 bp):
TTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCTATTTTAGATCTGCTCCATAGCCG
ATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGC
TATC
Found at i:38136573 original size:45 final size:45
Alignment explanation
Indices: 38136385--38137157 Score: 228
Period size: 45 Copynumber: 17.3 Consensus size: 45
38136375 GCTGATACAT
* * * * *
38136385 GGAGATAAGATTTG-TAATTTTCAGCCTGCTTC-CTACAACTTCAA
1 GGAGATAAGACTTGCT-ATCTTCAGTCTGCTCCACTGCAACTTCAA
* * *
38136429 GAAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGTAACTTC-A
1 GGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
* * * *
38136473 GAGAGATAAAACTTGCTATCTTTAGTCTGCTCCACAGCAACTTCAG
1 G-GAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
*
38136519 GGAGATAAGGCTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
1 GGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
* * * ** * * * *
38136564 GGAGATAAG-GTTGGTGGT-TGAAATCTGCTCCA-TAGCCGA-TACAT
1 GGAGATAAGACTTGCT-ATCTTCAGTCTGCTCCACT-G-CAACTTCAA
* ** * ** * * *
38136608 GTAGATAAGACCCGCCA-CTTTTGATCTGCTCCA-TAGTCGA-TACAT
1 GGAGATAAGACTTGCTATCTTCAG-TCTGCTCCACT-G-CAACTTCAA
* * *
38136653 GGAGATAAGA-TCTG-TAAT-TTCGGTTTGCTTC-CTGCAACTTC-A
1 GGAGATAAGACT-TGCT-ATCTTCAGTCTGCTCCACTGCAACTTCAA
* *
38136695 GGAAGATAAGACTTGCTATTTTCAGTCTGCTCTACTGCAACTTC-A
1 GG-AGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
* * * * *
38136740 GAGAGATAAGACTTG-TCATTTTC-GATCTGCTCTA-TAGCCGA-TACAT
1 G-GAGATAAGACTTGCT-ATCTTCAG-TCTGCTCCACT-G-CAACTTCAA
* *
38136786 GGAGATAAGA-TCTG-TAAATTTTCAGTCTGCTTC-CTGCAACTTC-A
1 GGAGATAAGACT-TGCT--ATCTTCAGTCTGCTCCACTGCAACTTCAA
* ** ** * * * *
38136830 GGAAGATAAGACTAG-TGGCTAAAATCTGCTCCA-TAGCCGA-TACAT
1 GG-AGATAAGACTTGCTATCTTCAGTCTGCTCCACT-G-CAACTTCAA
* * * * * *
38136875 GGAGATAAGACTCGCCAT-TTCTAATCTGCTCCA-TAGCCGA-TACAT
1 GGAGATAAGACTTGCTATCTTC-AGTCTGCTCCACT-G-CAACTTCAA
* * * *
38136920 GGAGATAAGA-TCTG-TAACTTTCAGTCTACTTC-CTGCAACTT-TA
1 GGAGATAAGACT-TGCTATC-TTCAGTCTGCTCCACTGCAACTTCAA
* *
38136963 GGAAGATAAGACTTGCTATTTTTAGTCTGCTCCACTGCAACTTC-A
1 GG-AGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
* * * * * *
38137008 GAGAGATAAGACTCG-TCATTTTC-GATCTACTCCA-TAGCCGA-TACAT
1 G-GAGATAAGACTTGCT-ATCTTCAG-TCTGCTCCACT-G-CAACTTCAA
* *
38137054 GGAGATAAGA-TCTG-TAAATTTTCAGTCTGCTTC-CTGCAACTTCAA
1 GGAGATAAGACT-TGCT--ATCTTCAGTCTGCTCCACTGCAACTTCAA
* * * *
38137099 GAAGATAAGACTTCCTATCTTCAGTCTACTCCACTGCAACTT-TA
1 GGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
38137143 GAGAGATAAGACTTG
1 G-GAGATAAGACTTG
38137158 TCATTTTCGA
Statistics
Matches: 549, Mismatches: 116, Indels: 127
0.69 0.15 0.16
Matches are distributed among these distances:
42 4 0.01
43 30 0.05
44 142 0.26
45 330 0.60
46 41 0.07
47 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
GGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAA
Found at i:38137028 original size:268 final size:267
Alignment explanation
Indices: 38136363--38137330 Score: 1041
Period size: 268 Copynumber: 3.6 Consensus size: 267
38136353 AGTAGCTGAG
* * * *
38136363 ATCTGCTCCATAGCTGATACATGGAGATAAGATTTGTAATTTTCAGCCTGCTTCCTACAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTCAGTCTGCTTCCTGCAACTTCA
* * * * *
38136428 AGAAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGTAACTTCAGAGAGATAAAACTTG-CTAT
65 GGAAGATAAGACTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTC-AT
* * * * * * * *
38136492 CTTTAG-TCTGCTCCACAG-CAACTTCAGGGAGATAAG-GCTTGCT--ATCTTCAGTCTGCTCCA
129 -TTTCGATCTGCTCCATAGCCGA-TACATGGAGATAAGATC-TG-TAAATTTTCAGTCTGCTTC-
** * * * *
38136552 CTGCAACTTCAAGG-AGATAAGGTTGGTGGTTGAAATCTGCTCCATAGCCGATACATGTAGATAA
189 CTGCAACTTC-AGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
*
38136616 GACCCGCCACTTTTG
253 GACCCGCCACTTTTA
* * *
38136631 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTCGGTTTGCTTCCTGCAACTTCAG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTCAGTCTGCTTCCTGCAACTTCAG
*
38136696 GAAGATAAGACTTGCTATTTTCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTCATTT
66 GAAGATAAGACTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTT
*
38136761 TCGATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAAC
131 TCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAAC
*
38136826 TTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCC
196 TTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCC
38136891 A-TTTCTA
261 ACTTT-TA
* *
38136898 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTACTTCCTGCAACTTTA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTCAGTCTGCTTCCTGCAACTTCA
* *
38136963 GGAAGATAAGACTTGCTATTTTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTCATT
65 GGAAGATAAGACTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATT
*
38137028 TTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
130 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
* ** ** ** * * *
38137093 CTTCAAGAAGATAAGACTTCCTATCTTCAGTCTACTCCACT-G-C-A-ACTTTAGAGAGATAAGA
195 CTTCAGGAAGATAAGAC-TAGTGGCTAAAATCTGCTCCA-TAGCCGATAC-AT-G-GAGATAAGA
** * *
38137154 CTTGTCA-TTTTCG
255 CCCGCCACTTTT-A
* * * * * *
38137167 ATCTACTCTATAGCTGGTACATGAAGATAAGATCTGTAACTTTTCGGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA--TTTCAGTCTGCTTCCTGCAACTTC
* * ** * * * * * **
38137232 AGGAAGATAAGACTTG-TATCTCCAACCTGCT-CTCTGCAACTTCAGGGAAATAAGGCTGGT-GG
64 AGGAAGATAAGACTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCAT
* **
38137294 CTTAAATCTGCTCCATAGCCGATACATGGAGATAAGA
129 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGA
38137331 CCCGCCATTT
Statistics
Matches: 606, Mismatches: 78, Indels: 33
0.85 0.11 0.05
Matches are distributed among these distances:
266 13 0.02
267 237 0.39
268 243 0.40
269 75 0.12
270 38 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (267 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTCAGTCTGCTTCCTGCAACTTCAG
GAAGATAAGACTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTT
TCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAAC
TTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCC
ACTTTTA
Found at i:38137238 original size:45 final size:43
Alignment explanation
Indices: 38136922--38137245 Score: 166
Period size: 45 Copynumber: 7.2 Consensus size: 43
38136912 CGATACATGG
* *
38136922 AGATAAGATCTGTAACTTTCAGTCTACTTCCTGCAACTTTAGGA
1 AGATAAGA-CTGTAATTTTCAGTCTACTTCCTGCAACTTCAGGA
* * *
38136966 AGATAAGACTTGCT-ATTTTTAGTCTGCTCCACTGCAACTTCA-GA
1 AGATAAGAC-TG-TAATTTTCAGTCTACTTC-CTGCAACTTCAGGA
* * *
38137010 GAGATAAGACTCGTCATTTTC-GATCTAC-TCCATAGCCGA-TACATGG-
1 -AGATAAGACT-GTAATTTTCAG-TCTACTTCC-T-G-CAACTTCA-GGA
* *
38137056 AGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAAGA
1 AGATAAGA-CTGT-AATTTTCAGTCTACTTCCTGCAACTTCAGGA
* * * *
38137101 AGATAAGACT-TCCTATCTTCAGTCTACTCCACTGCAACTTTA-GA
1 AGATAAGACTGT--AATTTTCAGTCTACTTC-CTGCAACTTCAGGA
* ** * *
38137145 GAGATAAGACTTGTCATTTTC-GATCTAC-T-CTATAGCTGGTACATGA
1 -AGATAAGAC-TGTAATTTTCAG-TCTACTTCCTGCAACT--T-CAGGA
* *
38137191 AGATAAGATCTGTAACTTTTCGGTCTGCTTCCTGCAACTTCAGGA
1 AGATAAGA-CTGTAA-TTTTCAGTCTACTTCCTGCAACTTCAGGA
38137236 AGATAAGACT
1 AGATAAGACT
38137246 TGTATCTCCA
Statistics
Matches: 213, Mismatches: 34, Indels: 66
0.68 0.11 0.21
Matches are distributed among these distances:
42 5 0.02
43 3 0.01
44 53 0.25
45 110 0.52
46 29 0.14
47 8 0.04
48 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (43 bp):
AGATAAGACTGTAATTTTCAGTCTACTTCCTGCAACTTCAGGA
Found at i:38137552 original size:64 final size:64
Alignment explanation
Indices: 38137443--38137567 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
38137433 TTCTATATCT
* *
38137443 ATGCTTATGCCAAATAACTAGGATGCTATGATCGAAATAATTCAAATGCTCCTACCTAGATGTG
1 ATGCTTATGCCAAATAACTAGGATGCTATGATCGAAAGAATTCAAATGCTCCTAACTAGATGTG
* *
38137507 ATGCTTATGTCAAATAATTAGGATGCTATGATC-AAGACGAA-TCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAACTAGGATGCTATGATCGAA-A-GAATTCAAATGCTCCTAACTAGAT
38137568 TTACTATGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
63 2 0.04
64 51 0.93
65 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAACTAGGATGCTATGATCGAAAGAATTCAAATGCTCCTAACTAGATGTG
Found at i:38148755 original size:130 final size:127
Alignment explanation
Indices: 38148527--38148902 Score: 388
Period size: 129 Copynumber: 2.9 Consensus size: 127
38148517 ATACGAAACG
* * **
38148527 TTGCCTCATTTTAA--TTTGAGAAAACATGGACGAAACTTCAAAAGGATATTTTGTATTTTAGTC
1 TTGCCTCATTTTAATTTTTAAGAAAA-ATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTC
* ** * * *
38148590 GAATG-GAAAATTGAAGCCCAGCACGATTGCGCACGA-CTCCCCAAACT-TCCAAGCATGAAATA
65 GAATGAAAAAAACGAAACCCAGCACGATTG-GCACGATCT-CCCAAACTCCCCAAACATGAAATA
* * ** *
38148652 TTGCCTCGTTTT-A-TTTTAAGAAAACGTGGGTGAAAATTTCAAAAAAAGGATATTCCATATTTT
1 TTGCCTCATTTTAATTTTTAAGAAAA-ATGGACG-AAATTTC---AAAAGGATATTCCGTATTTT
* * *
38148715 AGTCGAACGAAAAAAACGAAACCCAGCACGATTCGGCACGATCTCTCAAACTCCCCAAATATGAA
61 AGTCGAATGAAAAAAACGAAACCCAGCACGATT-GGCACGATCTCCCAAACTCCCCAAACATGAA
38148780 ATA
125 ATA
*** *
38148783 TTGCCTCATTTTAATTTTTTTTTAAAAATGGACGAAATTTCCAAAGGATATTCCGTATTTTAGTC
1 TTGCCTCATTTTAA-TTTTTAAGAAAAATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTC
* *
38148848 GAATGAAAAGAACGAAACCCAGCACGATTAGGCACGATCTCTCAAACTCCCCAAA
65 GAATGAAAAAAACGAAACCCAGCACGATT-GGCACGATCTCCCAAACTCCCCAAA
38148903 TACGAGATAT
Statistics
Matches: 209, Mismatches: 30, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
124 1 0.00
125 25 0.12
126 6 0.03
129 99 0.47
130 32 0.15
131 26 0.12
132 8 0.04
133 4 0.02
134 8 0.04
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (127 bp):
TTGCCTCATTTTAATTTTTAAGAAAAATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCG
AATGAAAAAAACGAAACCCAGCACGATTGGCACGATCTCCCAAACTCCCCAAACATGAAATA
Found at i:38149615 original size:20 final size:21
Alignment explanation
Indices: 38149590--38149643 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
38149580 TTTAGAACGT
38149590 AAAATATTAAAAAAGA-TAAA
1 AAAATATTAAAAAAGAGTAAA
**
38149610 AAAATAAAAAAAAAGAGTAAA
1 AAAATATTAAAAAAGAGTAAA
*
38149631 AGAAT-TTAAAAAA
1 AAAATATTAAAAAA
38149644 CTAAGAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (21 bp):
AAAATATTAAAAAAGAGTAAA
Found at i:38152380 original size:23 final size:23
Alignment explanation
Indices: 38152354--38152398 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38152344 CAAACCTGTG
*
38152354 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
38152377 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
38152399 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:38159101 original size:23 final size:23
Alignment explanation
Indices: 38159075--38159119 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38159065 CAAACCTGTG
*
38159075 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
38159098 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
38159120 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:38162051 original size:26 final size:24
Alignment explanation
Indices: 38162021--38162070 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
38162011 AAATAAAAAA
*
38162021 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
38162047 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
38162071 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:38163240 original size:22 final size:23
Alignment explanation
Indices: 38163215--38163260 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
38163205 CAACCAAACG
38163215 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
38163237 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
38163260 A
1 A
38163261 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:38163266 original size:23 final size:23
Alignment explanation
Indices: 38163222--38163266 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38163212 ACGAATTCAA
*
38163222 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
38163245 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
38163267 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:38164917 original size:47 final size:47
Alignment explanation
Indices: 38164848--38164943 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
38164838 CTTATACCGT
38164848 TTATTCTATGAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTG
1 TTATTCTATGAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTG
*
38164895 TTATTCTTTGAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTG
1 TTATTCTATGAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTG
38164942 TT
1 TT
38164944 CATCTTCTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (47 bp):
TTATTCTATGAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTG
Found at i:38168345 original size:3 final size:3
Alignment explanation
Indices: 38168337--38168384 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
38168327 CTTTATTAAA
*
38168337 TAT TAT TAT TAT T-T CTAA TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
38168383 TA
1 TA
38168385 GTGTATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 1 0.03
3 36 0.90
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:38168521 original size:143 final size:144
Alignment explanation
Indices: 38168359--38168908 Score: 792
Period size: 143 Copynumber: 3.8 Consensus size: 144
38168349 TTCTAATATT
*
38168359 ATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTGTATATGTATATGTATATATATT
1 ATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATT
38168424 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTTTTTGTA
66 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTTTTTGTA
38168489 TTTCAATATGA-TC
131 TTTCAATATGATTC
* *
38168502 ATTATTATTATTATTATTATATATTAATGTATATTTTTTATTGTATATGTATATGTATATATATT
1 ATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATT
* * *
38168567 TATATATAGTATTATTTTTTATTATTTTATTTTAATACTTTTATTATATTTGC--TTTTTTTGCA
66 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTTTTTGTA
*
38168630 TTTCAACATGATTAC
131 TTTCAATATGATT-C
*
38168645 TATTATTATTATCATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATAT
1 -ATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATAT
* *
38168710 TTATATATAGTATTATTTTTTATTACTTTGTTTTAATATTTTTATTATATTGGCTTTTTGTATTT
65 TTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTT-T-TTT
* * * *
38168775 CATTATTATTATTATTATTTTATTT
128 --GTATT-TCA--A-TA--TGATTC
* *
38168800 ATTATTATTATTATTATTATATATTAGTGTATA-CTTTTATTATATACGTATATG----TATATT
1 ATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATT
38168860 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
66 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
38168909 ATGTATGTAT
Statistics
Matches: 370, Mismatches: 22, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
141 19 0.05
142 1 0.00
143 116 0.31
144 111 0.30
146 3 0.01
147 1 0.00
148 3 0.01
149 54 0.15
150 3 0.01
151 2 0.01
153 20 0.05
154 33 0.09
156 4 0.01
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.62
Consensus pattern (144 bp):
ATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATT
TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTTTTTGTA
TTTCAATATGATTC
Found at i:38168536 original size:26 final size:27
Alignment explanation
Indices: 38168507--38168597 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 27
38168497 TGATCATTAT
38168507 TATTATTATTATTATATAT-TA-ATGTA
1 TATTATT-TTATTATATATGTATATGTA
*
38168533 TATT-TTTTATTGTATATGTATATGTA
1 TATTATTTTATTATATATGTATATGTA
* *
38168559 TA-TATATTTA-TATATA-GTATTATTTTT
1 TATTAT-TTTATTATATATGTA-TA-TGTA
38168586 TATTATTTTATT
1 TATTATTTTATT
38168598 TTAATACTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
24 10 0.19
25 8 0.15
26 19 0.36
27 12 0.23
28 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (27 bp):
TATTATTTTATTATATATGTATATGTA
Found at i:38168672 original size:287 final size:290
Alignment explanation
Indices: 38168358--38168908 Score: 848
Period size: 287 Copynumber: 1.9 Consensus size: 290
38168348 TTTCTAATAT
* *
38168358 TATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTGTATATGTATATGTATATATAT
1 TATTATTATTATCATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATAT
*
38168423 TTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTT-T-TTT
66 TTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTGGCTTTTTGTATTT
* *
38168486 -GTATT-TCA-A-TA-TGA-TCATTATTATTATTATTATTATATATTAATGTATATTTTTTATTG
131 AGTATTATCATATTATTGATTCATTATTATTATTATTATTATATATTAATGTATA-CTTTTATTA
* *
38168545 TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTATTTTATTTTAATACTTTTA
195 TATACGTATATG----TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATACTTTTA
38168610 TTATATTTGCTTTTTTTGCATTTCAACATGATTAC
256 TTATATTTGCTTTTTTTGCATTTCAACATGATTAC
38168645 TATTATTATTATCATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATAT
1 TATTATTATTATCATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATAT
*
38168710 TTATATATAGTATTATTTTTTATTACTTTGTTTTAATATTTTTATTATATTGGCTTTTTGTATTT
66 TTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTGGCTTTTTGTATTT
* * * * *
38168775 CATTATTATTATTATTATTTTATTTATTATTATTATTATTATTATATATTAGTGTATACTTTTAT
131 -AGTATTATCA-TATTA-TTGATTCATTATTATTATTATTATTATATATTAATGTATACTTTTAT
*
38168840 TATATACGTATATGTATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATT
193 TATATACGTATATGTATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATACTTTTATT
38168905 ATAT
258 ATAT
38168909 ATGTATGTAT
Statistics
Matches: 239, Mismatches: 14, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
287 120 0.50
288 1 0.00
289 3 0.01
291 4 0.02
292 2 0.01
293 53 0.22
294 1 0.00
295 2 0.01
297 20 0.08
298 33 0.14
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.62
Consensus pattern (290 bp):
TATTATTATTATCATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATAT
TTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTGGCTTTTTGTATTT
AGTATTATCATATTATTGATTCATTATTATTATTATTATTATATATTAATGTATACTTTTATTAT
ATACGTATATGTATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATACTTTTATTATA
TTTGCTTTTTTTGCATTTCAACATGATTAC
Found at i:38168784 original size:3 final size:3
Alignment explanation
Indices: 38168776--38168825 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
38168766 TTTGTATTTC
38168776 ATT ATT ATT ATT ATT ATT -TT ATTT ATT ATT ATT ATT ATT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT AT-T
38168822 ATT A
1 ATT A
38168826 GTGTATACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:38168803 original size:24 final size:25
Alignment explanation
Indices: 38168770--38168817 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
38168760 TGGCTTTTTG
38168770 TATTTCATTATTATTATTATTATTT
1 TATTTCATTATTATTATTATTATTT
38168795 TATTT-ATTATTATTATTATTATT
1 TATTTCATTATTATTATTATTATT
38168818 ATATATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTTCATTATTATTATTATTATTT
Found at i:38168948 original size:149 final size:149
Alignment explanation
Indices: 38168502--38168908 Score: 449
Period size: 144 Copynumber: 2.7 Consensus size: 149
38168492 CAATATGATC
* * * * *
38168502 ATTATTATTATTATTATTATATATTAATGTATATTTTTTATTGTATATGTATATGTATATATATT
1 ATTATTATTATCATTATTATATATTAGTGTATATCTTTTATTATATACGTATATG---ATATATT
* * * * *
38168567 TATATATAGTATTATTTTTTATTATTTTATTTTAATACTTTTATTATATTTGCTT-T-TTTTGCA
63 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATA-TTGGTTATGTATTACA
* ** *
38168630 TT-TCAACA-TGAT-TAC----T
127 TTATTATTATTAATATACTATTT
* *
38168646 ATTATTATTATCATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATT
1 ATTATTATTATCATTATTATATATTAGTGTATATCTTTTATTATATACGTATATG---ATATATT
* * *
38168711 TATATATAGTATTATTTTTTATTACTTTGTTTTAATATTTTTATTATATTGGCTTTTTGTATTTC
63 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTGG--TTATGTATTAC
* **
38168776 ATTATTATTATTATTATTTTATTT
126 ATTATTATTATTAATATACTATTT
*
38168800 ATTATTATTATTATTATTATATATTAGTGTATA-CTTTTATTATATACGTATATG-TATATTTAT
1 ATTATTATTATCATTATTATATATTAGTGTATATCTTTTATTATATACGTATATGATATATTTAT
38168863 ATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
66 ATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
38168909 ATGTATGTAT
Statistics
Matches: 232, Mismatches: 20, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
143 3 0.01
144 107 0.46
145 2 0.01
146 1 0.00
147 7 0.03
148 3 0.01
149 56 0.24
150 1 0.00
153 19 0.08
154 33 0.14
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.61
Consensus pattern (149 bp):
ATTATTATTATCATTATTATATATTAGTGTATATCTTTTATTATATACGTATATGATATATTTAT
ATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTGGTTATGTATTACATTAT
TATTATTAATATACTATTT
Found at i:38168976 original size:72 final size:73
Alignment explanation
Indices: 38168842--38168980 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 73
38168832 ACTTTTATTA
* * * * * *
38168842 TATACGTATATGTATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTAT
1 TATACGTATA-GTATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACACTATTATTAT
38168907 ATATGTATG
65 ATATGTATG
*
38168916 TATACGTATA-TATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACGCTATTATTATA
1 TATACGTATAGTATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACACTATTATTATA
38168980 T
66 T
38168981 TATATTTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 48 0.83
74 10 0.17
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (73 bp):
TATACGTATAGTATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACACTATTATTATA
TATGTATG
Found at i:38177967 original size:77 final size:76
Alignment explanation
Indices: 38177837--38178225 Score: 539
Period size: 76 Copynumber: 5.1 Consensus size: 76
38177827 TGATATTTTT
* *
38177837 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG-GACCTCGGATCACACGC
1 ATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCGGGTCACACGC
*
38177901 CGAGGTATTTTCA
64 TGAGGTATTTTCA
38177914 ATTTCTGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
1 ATTTCTGTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
38177979 GAGGTATCTTT-A
65 GAGGTAT-TTTCA
* * *
38177991 ATTCCTATTTTTCAATAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
1 ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
*
38178056 AGGTATTTTTA
66 AGGTATTTTCA
* *
38178067 GTTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
1 ATTTCTGTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
*
38178132 CTGAGGTATTTTTA
63 CTGAGGTATTTTCA
* * ** * * * *
38178146 GTCTCTGTTTTTCAAAAAATCAACTCATATTGTAAAAGGTGAGTTGAACCTTGGGTCACACACTG
1 ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
38178211 AGGTATTTTCA
66 AGGTATTTTCA
38178222 ATTT
1 ATTT
38178226 TTTTTTACTT
Statistics
Matches: 285, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
75 3 0.01
76 127 0.45
77 78 0.27
78 4 0.01
79 73 0.26
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (76 bp):
ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
AGGTATTTTCA
Found at i:38178166 original size:155 final size:151
Alignment explanation
Indices: 38177830--38178225 Score: 569
Period size: 155 Copynumber: 2.6 Consensus size: 151
38177820 GGTATCCTGA
*
38177830 TATTTTTATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG-GACCTCGGAT
1 TATTTTTA-TTCTGTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAG-CCTCGGGT
* * *
38177894 CACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGT
63 CACACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
38177959 TGAGCCTCGGGTCACACGCTGAGG
128 TGAGCCTCGGGTCACACGCTGAGG
* * * *
38177983 TATCTTTAATTCCTATTTTTCAATAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TAT-TTTTATT-CTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTC
* *
38178048 ACACGCTGAGGTATTTTTAGTTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
64 ACACGCTGAGGTATTTTCAATTTCTATTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAG
38178113 TTGAGCCTCGGGTCACACGCTGAGG
127 TTGAGCCTCGGGTCACACGCTGAGG
** * *
38178138 TATTTTTAGTCTCTGTTTTTCAAAAAATCAACTCATATTGTAAAAGGTGAGTTGAACCTTGGGTC
1 TATTTTTA-T-TCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTC
*
38178203 ACACACTGAGGTATTTTCAATTT
64 ACACGCTGAGGTATTTTCAATTT
38178226 TTTTTTACTT
Statistics
Matches: 215, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
153 72 0.33
154 17 0.08
155 125 0.58
156 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (151 bp):
TATTTTTATTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCAC
ACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGGTCACACGCTGAGG
Found at i:38179889 original size:3 final size:3
Alignment explanation
Indices: 38179881--38179943 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
38179871 CTTTATTAAA
* * * *
38179881 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT CAC TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38179926 TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT -TAT TA
38179944 GTGTATATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.92
4 3 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:38179902 original size:9 final size:9
Alignment explanation
Indices: 38179873--38179943 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
38179863 TTTCGTTTCT
38179873 TTATTAAATA
1 TTATT-AATA
*
38179883 TTATTATTA
1 TTATTAATA
38179892 TT-TCTAATA
1 TTAT-TAATA
38179901 TTATTAATA
1 TTATTAATA
* *
38179910 TTATCACTA
1 TTATTAATA
*
38179919 TTATTATTA
1 TTATTAATA
*
38179928 TTATTATTA
1 TTATTAATA
38179937 TATATTA
1 T-TATTA
38179944 GTGTATATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
8 1 0.02
9 40 0.77
10 11 0.21
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATTAATA
Found at i:38179902 original size:18 final size:18
Alignment explanation
Indices: 38179879--38179931 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
38179869 TTCTTTATTA
38179879 AATATTATTATTATT-TC
1 AATATTATTATTATTATC
*
38179896 TAATATTATTAATATTATC
1 -AATATTATTATTATTATC
*
38179915 ACTATTATTATTATTAT
1 AATATTATTATTATTAT
38179932 TATTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 29 0.94
19 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTATTATTATTATC
Found at i:38179971 original size:6 final size:6
Alignment explanation
Indices: 38179960--38179990 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
38179950 ATTTTTTTAT
38179960 TGTATA TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA TGTATA T
38179991 ATATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TGTATA
Found at i:38180001 original size:18 final size:18
Alignment explanation
Indices: 38179962--38180007 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
38179952 TTTTTTATTG
* *
38179962 TATATGTATATGTATATG
1 TATATGTATATATATATA
*
38179980 TATATGTATATATATTTA
1 TATATGTATATATATATA
38179998 TATATAGTAT
1 TATAT-GTAT
38180008 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (18 bp):
TATATGTATATATATATA
Found at i:38180081 original size:3 final size:3
Alignment explanation
Indices: 38180073--38180102 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
38180063 ATATGATCAC
38180073 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
38180103 ATGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:38180369 original size:3 final size:3
Alignment explanation
Indices: 38180354--38180389 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
38180344 TGTATTTCAA
*
38180354 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
38180390 GTGTATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:38180380 original size:143 final size:142
Alignment explanation
Indices: 38179974--38180664 Score: 898
Period size: 143 Copynumber: 4.8 Consensus size: 142
38179964 TATGTATATG
38179974 TATATGTATATGTATATATATTTATATATAGTATTA-TTTTT-TTACTTTATTTTAATATTTTTA
1 TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTA
* *
38180037 TTATATTTGCTTTTTTTTGTATTTCAATATGATCACTATTATTATTATTATTATTATTATATATT
66 TTATATTTGC---TTTTTGTATTTCAATAT--T-ATTACTATTATTATTATTATTATTATATATT
* *
38180102 AATGTATATTTTTTATTG
125 AGTGTATATTTTTTATTA
*
38180120 TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATACTTTTA
1 TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTA
* * *
38180185 TTATATTTACTTTTTTTGTATTTCAATATGATTACTATTATTATTATCATTATTATATATTA-TA
66 TTATATTTGC--TTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAGT-
38180249 GTATATTTTTTTATTA
128 GTATA-TTTTTTATTA
* *
38180265 TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTATTTTGTTTTAATATTTTTA
1 TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTA
*
38180330 TTATATTGGCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAGTGTA
66 TTATATTTGCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAGTGTA
*
38180395 TACTTTTTATTA
131 TATTTTTTATTA
* * * * * *
38180407 TATACGTATACGTAAATGTATATTTATATATAATATT-TTTATTATTATTTTATTTTAATATTTT
1 TATATGTATATGT--ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTT
*
38180471 TATTATATTTGCTTTTTGTATTTCAATATTATTACTATTATCATTATTATTATTA-ATATTAGTG
64 TATTATATTTGCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAGTG
38180535 TATA-TTTTTATTA
129 TATATTTTTTATTA
* * * * **
38180548 TATATGTATGTATACGTATATATATTTATACATAATACTATTTTTAATTACTTTATTTTAACGTT
1 TATATGTA--TAT--GTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATT
* * * *
38180613 ATTATTAT-TTT--TTTTTGTATTTCATTATTATTGCTAGTT-TTATTATCATTAT
62 TTTATTATATTTGCTTTTTGTATTTCAATATTATTACTA-TTATTATTATTATTAT
38180665 CATCATTATT
Statistics
Matches: 494, Mismatches: 38, Indels: 31
0.88 0.07 0.06
Matches are distributed among these distances:
141 50 0.10
142 35 0.07
143 156 0.32
144 82 0.17
145 81 0.16
146 36 0.07
147 24 0.05
148 30 0.06
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.60
Consensus pattern (142 bp):
TATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTA
TTATATTTGCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAGTGTA
TATTTTTTATTA
Found at i:38180470 original size:13 final size:12
Alignment explanation
Indices: 38180426--38180480 Score: 58
Period size: 13 Copynumber: 4.5 Consensus size: 12
38180416 ACGTAAATGT
*
38180426 ATATTTATATATA
1 ATATTTTTAT-TA
38180439 ATATTTTTATTA
1 ATATTTTTATTA
* *
38180451 TTATTTTATTTTA
1 ATATTTT-TATTA
38180464 ATATTTTTATT-
1 ATATTTTTATTA
38180475 ATATTT
1 ATATTT
38180481 GCTTTTTGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 6 0.17
12 11 0.31
13 19 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTTTTATTA
Found at i:38180493 original size:24 final size:25
Alignment explanation
Indices: 38180437--38180486 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
38180427 TATTTATATA
*
38180437 TAATATTTTTATTATTATTTTATTT
1 TAATATTTTTATTATTATTTGATTT
*
38180462 TAATATTTTTATTA-TATTTGCTTT
1 TAATATTTTTATTATTATTTGATTT
38180486 T
1 T
38180487 TGTATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (25 bp):
TAATATTTTTATTATTATTTGATTT
Found at i:38180592 original size:287 final size:287
Alignment explanation
Indices: 38179906--38180664 Score: 933
Period size: 287 Copynumber: 2.6 Consensus size: 287
38179896 TAATATTATT
* *
38179906 AATATTATCACTATTATTATTATTATTATTATATATTAGTGTATATTTTTTTATTGTATATGTAT
1 AATATTATTACTATTATTATTATTATTATTATATATTAGTGTATA--TTTTTATTATATATG--T
* * * *
38179971 ATGTATATGTATATGTATATATATTTATATATAGTATTATTTTTTTACTTTATTTTAATATTTTT
62 ATGTATATGTATA--TATATTTATATATA-ATACTATT-TTTTATTACTTTATTTTAATATTTTT
* *
38180036 ATTATATTTGCTTTTTTTTGTATTTCAATATGATCACTATTATTATTATTATTATTATTATATAT
123 ATTATA-TTGC---TTTTTGTATTTCAATAT--T-ATTACTATTATTATTATTATTATTATATAT
* * * * * *
38180101 TAATGTATATTTTTTATTGTATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTA
181 TAATGTATACTTTTTATTATATACGTATACGTATATATATTTATATATAATATTATTTATTATTA
38180166 CTTTATTTTAATACTTTTATTATATTTACTTTTTTTGTATTTC
246 CTTTATTTTAATACTTTTATTATATTTAC-TTTTTTGTATTTC
* * *
38180209 AATATGATTACTATTATTATTATCATTATTATATATTA-TAGTATATTTTT-TTAT-TATATATG
1 AATATTATTACTATTATTATTATTATTATTATATATTAGT-GTATATTTTTATTATATATGTATG
* * * *
38180271 TATATGTATATATATTTATATATAGTATTATTTTTTATTATTTTGTTTTAATATTTTTATTATAT
65 TATATGTATATATATTTATATATAATACTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
*
38180336 TGGCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAGTGTATACTTT
130 T-GCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAATGTATACTTT
* *
38180401 TTATTATATACGTATACGTAAATGTATATTTATATATAATATT-TTTATTATTATTTTATTTTAA
194 TTATTATATACGTATACGT--ATATATATTTATATATAATATTATTTATTATTACTTTATTTTAA
* *
38180465 TATTTTTATTATATTTGC-TTTTTGTATTTC
257 TACTTTTATTATATTTACTTTTTTGTATTTC
*
38180495 AATATTATTACTATTATCATTATTATTATTA-ATATTAGTGTATATTTTTATTATATATGTATGT
1 AATATTATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATGT
* * * ** *
38180559 ATACGTATATATATTTATACATAATACTATTTTTAATTACTTTATTTTAACGTTATTATTAT-TT
66 ATATGTATATATATTTATATATAATACTATTTTTTATTACTTTATTTTAATATTTTTATTATATT
* * * *
38180623 -TTTTTTGTATTTCATTATTATTGCTAGTT-TTATTATCATTAT
131 GCTTTTTGTATTTCAATATTATTACTA-TTATTATTATTATTAT
38180665 CATCATTATT
Statistics
Matches: 405, Mismatches: 43, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
284 35 0.09
285 18 0.04
286 47 0.12
287 115 0.28
288 36 0.09
289 20 0.05
290 17 0.04
292 2 0.00
293 31 0.08
294 6 0.01
295 12 0.03
297 14 0.03
299 3 0.01
300 3 0.01
301 5 0.01
302 1 0.00
303 40 0.10
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (287 bp):
AATATTATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATGT
ATATGTATATATATTTATATATAATACTATTTTTTATTACTTTATTTTAATATTTTTATTATATT
GCTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATATATTAATGTATACTTTTT
ATTATATACGTATACGTATATATATTTATATATAATATTATTTATTATTACTTTATTTTAATACT
TTTATTATATTTACTTTTTTGTATTTC
Found at i:38182159 original size:22 final size:22
Alignment explanation
Indices: 38182112--38182153 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38182102 ATTTGAATTC
38182112 TAAAATTTAAAAAATAAAAAAT
1 TAAAATTTAAAAAATAAAAAAT
* *
38182134 TAAATTTTTAAAAATAAAAA
1 TAAAATTTAAAAAATAAAAA
38182154 TATAAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATTTAAAAAATAAAAAAT
Found at i:38188299 original size:18 final size:20
Alignment explanation
Indices: 38188259--38188301 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
38188249 TTTCAGGATG
* *
38188259 TTAACATTTTTAAATTTACA
1 TTAACATTTTTAAATTAAAA
38188279 TTAACA-TTTT-AATTAAAA
1 TTAACATTTTTAAATTAAAA
38188297 TTAAC
1 TTAAC
38188302 TAATAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAACATTTTTAAATTAAAA
Found at i:38195682 original size:68 final size:68
Alignment explanation
Indices: 38195573--38195709 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
38195563 ACCGCGATAC
*
38195573 CTGCAATGACCGCAATAGCATCCGTTATGTCCGCAACCGCGATAAACGCACTGCGACCGAAAACG
1 CTGCAATGACCGCAATAGCATCCGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACG
38195638 CGA
66 CGA
38195641 CTGCAATGACCGCAATAGCATCCGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACG
1 CTGCAATGACCGCAATAGCATCCGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACG
38195706 CGA
66 CGA
38195709 C
1 C
38195710 CGCGACCGCA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.31, C:0.32, G:0.22, T:0.15
Consensus pattern (68 bp):
CTGCAATGACCGCAATAGCATCCGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACG
CGA
Found at i:38195713 original size:32 final size:32
Alignment explanation
Indices: 38195608--38195714 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
38195598 TATGTCCGCA
*
38195608 ACCGCGATAAACGCACTGCGACCGAAAACGCG
1 ACCGCGATAAACGCAATGCGACCGAAAACGCG
* * * * *** *
38195640 ACTGCAATGACCGCAATAGC-ATCCGTTATGTCCGCA
1 ACCGCGATAAACGCAAT-GCGA-CCG--A-AAACGCG
38195676 ACCGCGATAAACGCAATGCGACCGAAAACGCG
1 ACCGCGATAAACGCAATGCGACCGAAAACGCG
38195708 ACCGCGA
1 ACCGCGA
38195715 CCGCAATTTA
Statistics
Matches: 52, Mismatches: 17, Indels: 12
0.64 0.21 0.15
Matches are distributed among these distances:
32 23 0.44
33 6 0.12
35 6 0.12
36 17 0.33
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.11
Consensus pattern (32 bp):
ACCGCGATAAACGCAATGCGACCGAAAACGCG
Found at i:38203026 original size:6 final size:6
Alignment explanation
Indices: 38203010--38203057 Score: 87
Period size: 6 Copynumber: 7.8 Consensus size: 6
38203000 AGTTGATAAC
38203010 GATTGAG GATTAG GATTAG GATTAG GATTAG GATTAG GATTAG GATTA
1 GATT-AG GATTAG GATTAG GATTAG GATTAG GATTAG GATTAG GATTA
38203058 AAGAGAAGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
GATTAG
Found at i:38204075 original size:59 final size:59
Alignment explanation
Indices: 38203895--38204075 Score: 142
Period size: 59 Copynumber: 3.1 Consensus size: 59
38203885 ACCCAGATTA
38203895 GCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAACATCG
1 GCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAACATCG
*** ** ** * * *** * * **
38203954 GCAGTTCTGGAAG--T-AAAAAAAGCAACATTTGTGTCAATGCATATTAC-C-C--AGATTA
1 GCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCT-TC--TTTTTCTTACTCTCTAACATCG
38204009 GCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAACATCG
1 GCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAACATCG
38204068 GCAGTTCT
1 GCAGTTCT
38204076 GGAAGTAAAA
Statistics
Matches: 80, Mismatches: 32, Indels: 20
0.61 0.24 0.15
Matches are distributed among these distances:
55 19 0.24
56 13 0.16
57 8 0.10
58 13 0.16
59 27 0.34
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (59 bp):
GCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAACATCG
Found at i:38204085 original size:114 final size:114
Alignment explanation
Indices: 38203885--38204105 Score: 442
Period size: 114 Copynumber: 1.9 Consensus size: 114
38203875 ATTTATGGCC
38203885 ACCCAGATTAGCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAAC
1 ACCCAGATTAGCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAAC
38203950 ATCGGCAGTTCTGGAAGTAAAAAAAGCAACATTTGTGTCAATGCATATT
66 ATCGGCAGTTCTGGAAGTAAAAAAAGCAACATTTGTGTCAATGCATATT
38203999 ACCCAGATTAGCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAAC
1 ACCCAGATTAGCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAAC
38204064 ATCGGCAGTTCTGGAAGTAAAAAAAGCAACATTTGTGTCAAT
66 ATCGGCAGTTCTGGAAGTAAAAAAAGCAACATTTGTGTCAAT
38204106 ACAAATATGC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (114 bp):
ACCCAGATTAGCAGTTCTCCTAGCTTCAAAGCATCCACCATTTCTTCTTTTTCTTACTCTCTAAC
ATCGGCAGTTCTGGAAGTAAAAAAAGCAACATTTGTGTCAATGCATATT
Found at i:38210745 original size:29 final size:29
Alignment explanation
Indices: 38210713--38210771 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
38210703 TTTTAGTTGT
*
38210713 AAATAAATTATATTTATTAAATTCATTAA
1 AAATAAATGATATTTATTAAATTCATTAA
* *
38210742 AAATAAATGGTCTTTATTAAATTCATTAA
1 AAATAAATGATATTTATTAAATTCATTAA
38210771 A
1 A
38210772 TTAAGTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATAAATGATATTTATTAAATTCATTAA
Found at i:38214254 original size:24 final size:24
Alignment explanation
Indices: 38214239--38214288 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
38214229 AATCAAATTC
38214239 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
38214263 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
38214287 AA
1 AA
38214289 CTCTTCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:38215373 original size:20 final size:19
Alignment explanation
Indices: 38215331--38215376 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
38215321 TAAAAATTAG
* *
38215331 AAAAATTATTAGAAATTGT
1 AAAAATTATTAGAAATAGC
38215350 AAAATATTATTAGAAATAGC
1 AAAA-ATTATTAGAAATAGC
38215370 AAAAATT
1 AAAAATT
38215377 GTTATTGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (19 bp):
AAAAATTATTAGAAATAGC
Found at i:38217130 original size:26 final size:26
Alignment explanation
Indices: 38217101--38217183 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
38217091 ATACAATACT
38217101 AACTATCTTCATCTT-AATACCATTCA
1 AACTATCTTCAT-TTCAATACCATTCA
* * * * * *
38217127 AACTTTAATT-ATTTTCATTACAATACT
1 AACTAT-CTTCA-TTTCAATACCATTCA
*
38217154 AACTATCTTCATTTGAATACCATTCA
1 AACTATCTTCATTTCAATACCATTCA
38217180 AACT
1 AACT
38217184 TTAACTATTT
Statistics
Matches: 40, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
26 24 0.60
27 16 0.40
ACGTcount: A:0.36, C:0.22, G:0.01, T:0.41
Consensus pattern (26 bp):
AACTATCTTCATTTCAATACCATTCA
Found at i:38217203 original size:32 final size:32
Alignment explanation
Indices: 38217153--38217216 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
38217143 ATTACAATAC
38217153 TAACTATCTTCATTTGAATACCATTCAAACTT
1 TAACTATCTTCATTTGAATACCATTCAAACTT
*
38217185 TAACTATTTTC-TTCTGAATACCATTCAAACTT
1 TAACTATCTTCATT-TGAATACCATTCAAACTT
38217217 GAACAAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (32 bp):
TAACTATCTTCATTTGAATACCATTCAAACTT
Found at i:38217205 original size:53 final size:53
Alignment explanation
Indices: 38217092--38217195 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
38217082 TAGCTATCAA
*
38217092 TACAATACTAACTATCTTCATCTTAATACCATTCAAACTTTAATTATTTTCAT
1 TACAATACTAACTATCTTCATCTTAATACCATTCAAACTTTAACTATTTTCAT
38217145 TACAATACTAACTATCTTCAT-TTGAATACCATTCAAACTTTAACTATTTTC
1 TACAATACTAACTATCTTCATCTT-AATACCATTCAAACTTTAACTATTTTC
38217196 TTCTGAATAC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 2 0.04
53 47 0.96
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (53 bp):
TACAATACTAACTATCTTCATCTTAATACCATTCAAACTTTAACTATTTTCAT
Found at i:38227914 original size:35 final size:37
Alignment explanation
Indices: 38227837--38227917 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 37
38227827 TGGTAATATA
* *
38227837 ATTTTTTAAAAATAAAAAATAATTTAAAGTCATTAAAT
1 ATTTTTTAAAAAT-AAAAATAATTTAAAATCATAAAAT
38227875 -TTTTTTAAAAAT-AAAATAA-TTAAAATC-TAAAAGT
1 ATTTTTTAAAAATAAAAATAATTTAAAATCATAAAA-T
38227909 ATTTTTTAA
1 ATTTTTTAA
38227918 TATTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 4 0.10
34 8 0.21
35 15 0.38
37 12 0.31
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (37 bp):
ATTTTTTAAAAATAAAAATAATTTAAAATCATAAAAT
Found at i:38231836 original size:19 final size:20
Alignment explanation
Indices: 38231814--38231853 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
38231804 TTATGTTTTT
*
38231814 AAAAATTTTAAATAT-ATTA
1 AAAAATGTTAAATATAATTA
*
38231833 AAAAATGTTAAGTATAATTA
1 AAAAATGTTAAATATAATTA
38231853 A
1 A
38231854 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATGTTAAATATAATTA
Found at i:38231961 original size:17 final size:17
Alignment explanation
Indices: 38231941--38231981 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
38231931 TAAAAAATTT
38231941 AAAAAATAAATATATTA
1 AAAAAATAAATATATTA
** *
38231958 AAAATTTAAATATGTTA
1 AAAAAATAAATATATTA
38231975 AAAAAAT
1 AAAAAAT
38231982 GTTGATTATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAAATAAATATATTA
Found at i:38241807 original size:26 final size:26
Alignment explanation
Indices: 38241771--38241821 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
38241761 TTAAAATTTA
*
38241771 TAAATGACTATTATGCCACTATGAGG
1 TAAATAACTATTATGCCACTATGAGG
*
38241797 TAAATAACTATTATGCCCCTATGAG
1 TAAATAACTATTATGCCACTATGAG
38241822 ATGTATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (26 bp):
TAAATAACTATTATGCCACTATGAGG
Found at i:38245009 original size:27 final size:26
Alignment explanation
Indices: 38244944--38245027 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
38244934 ACCCCTTAAT
* *
38244944 TGATAAAATGACTGATATACCCCATT
1 TGATAAAATGACTGTTATACCCCATG
**
38244970 TGATAAAATGACTGTTATACCTTTATG
1 TGATAAAATGACTGTTATACC-CCATG
* *
38244997 TGGTAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATACCCC-ATG
38245024 TGAT
1 TGAT
38245028 GTATGATTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 20 0.43
27 27 0.57
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (26 bp):
TGATAAAATGACTGTTATACCCCATG
Found at i:38250630 original size:45 final size:44
Alignment explanation
Indices: 38250550--38250856 Score: 162
Period size: 44 Copynumber: 6.8 Consensus size: 44
38250540 TTATTTATAG
* * * * * *
38250550 CTTCAATCTGTTCCACTGCAACTT-TGAGGAAATAAGATTCGCTAT
1 CTTCAGTCTGCTCCACTACAACTTCAG-GGAGATAAGATTTG-TAT
* *
38250595 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAACATGGTAGAT
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGAT------TTGT--AT
* * * * *
38250647 -TTGA-TCTGAC-CTACTACAACTTCAGAGG-TATAGGATTTGTAA
1 CTTCAGTCTG-CTCCACTACAACTTCAG-GGAGATAAGATTTGTAT
* * *
38250689 CTTTAATCTGC-CCTACTACAACTTCAGAGAGATAAGATTTGCTAT
1 CTTCAGTCTGCTCC-ACTACAACTTCAGGGAGATAAGATTTG-TAT
* * * * *
38250734 CTTCAGGCTGGTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAT
* * * **
38250778 CTTC-GACCTGCCCCACTACAACTTCAAGGGA-ATAAGGTTTGTGG
1 CTTCAG-TCTGCTCCACTACAACTTC-AGGGAGATAAGATTTGTAT
* *
38250822 CTTCAATCTACTCCACTACAACTTCAGGGAGATAA
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAA
38250857 ACTCCACCAT
Statistics
Matches: 203, Mismatches: 38, Indels: 43
0.71 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 12 0.06
44 83 0.41
45 70 0.34
46 3 0.01
50 24 0.12
51 8 0.04
52 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAT
Found at i:38250728 original size:44 final size:44
Alignment explanation
Indices: 38250650--38250965 Score: 160
Period size: 44 Copynumber: 7.0 Consensus size: 44
38250640 GGTAGATTTG
* *
38250650 ATCTGACCTACTACAACTTCAGAG-GTATAGGATTTGTAACTTTA
1 ATCTGCCCTACTACAACTTCAGAGAG-ATAAGATTTGTAACTTTA
* *
38250694 ATCTGCCCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCA
1 ATCTGCCCTACTACAACTTCAGAGAGATAAGATTTG-TAACTTTA
** * * * * **
38250739 GGCTGGTCC-ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCG
1 ATCT-GCCCTACTACAACTTCAGAGAGATAAGATTTGTAACTTTA
* * * * ** *
38250783 ACCTGCCCCACTACAACTTCA-AGGGAATAAGGTTTGTGGCTTCA
1 ATCTGCCCTACTACAACTTCAGAGAG-ATAAGATTTGTAACTTTA
* * * *
38250827 ATCTACTCC-ACTACAACTTCAGGGAGATAA-ACTCCACCATGGTAGA-TTTG
1 ATCTGC-CCTACTACAACTTCAGAGAGATAAGA-T------TTGTA-ACTTTA
* * * *
38250877 ATCTGTCCTACTGCAACTTCAGAG-GTATAGGATTTGTAGCTTTA
1 ATCTGCCCTACTACAACTTCAGAGAG-ATAAGATTTGTAACTTTA
* * * * *
38250921 ATCTACTCTACTGCAGCTTCAGAGAGATAAGATTTGCTATCTTTA
1 ATCTGCCCTACTACAACTTCAGAGAGATAAGATTTG-TAACTTTA
38250966 GTTTACTCCA
Statistics
Matches: 204, Mismatches: 47, Indels: 41
0.70 0.16 0.14
Matches are distributed among these distances:
43 5 0.02
44 121 0.59
45 45 0.22
46 3 0.01
49 3 0.01
50 26 0.13
51 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTGCCCTACTACAACTTCAGAGAGATAAGATTTGTAACTTTA
Found at i:38251111 original size:132 final size:132
Alignment explanation
Indices: 38250969--38251614 Score: 845
Period size: 132 Copynumber: 4.9 Consensus size: 132
38250959 ATCTTTAGTT
*
38250969 TACTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCA-GAGA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGA-A
* * * * **
38251033 GACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACCTCAGGGAAGCAAGATCTGTAATCTTCA
65 GACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCA
38251098 GCC
130 GCC
* * * *
38251101 TACTCCACTACTTCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCAGGAAG
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGAAG
* ** *
38251166 ACAAGATTTGCCGTCTTCGATCTAATCCACTGCAACTTCAGAGAGGCAAGATCTACAATCTTCAG
66 ACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCAG
38251231 CC
131 CC
* *
38251233 TACTCCACTACTACTTAGGGAGATAGGATGGTGG-TTCAATTCTGCT-TCACTGCAACTTCAGGA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT-AAATCTGCTCT-ACTGCAACTTCAGGA
* * *
38251296 AGACAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTGAGGGAGACAAGATCTA-AATCTTC
64 AGACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTC
38251360 AGCC
129 AGCC
* * * *
38251364 TACTCCACTACTGTTTTGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCAACTTCA-AAGA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGA-A
* * ** *
38251428 GACAAGATTCGCCGTCTTCGATCTACTCCACTACAACTTCAAAGAGGAAAGATCTACAATCTTCA
65 GACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCA
*
38251493 ACC
130 GCC
* * * *
38251496 TACACCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATTTGCT-TCACTGTAACTTCAGGAA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCT-ACTGCAACTTCAGGAA
* * * * * *
38251560 GACAAGTTTCACCTTCTTCGATCTGTTCTACTGTAACTTCAGGGAGGCAAGATCT
65 GACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCT
38251615 GTAGAATTGG
Statistics
Matches: 445, Mismatches: 60, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
130 1 0.00
131 114 0.26
132 327 0.73
133 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (132 bp):
TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGAAG
ACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCAG
CC
Found at i:38251482 original size:263 final size:264
Alignment explanation
Indices: 38250969--38251615 Score: 907
Period size: 263 Copynumber: 2.5 Consensus size: 264
38250959 ATCTTTAGTT
* *
38250969 TACTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTGC-TCTACTGCAACTTCA-GAG
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAATTCTGCTTC-ACTGCAACTTCAGGA-
* * * *
38251032 AGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACCTCAGGGA-AGCAAGATCTGTAATCTT
64 AGACAAGATTCGCCATCTTCGATCTGTTCCACTGCAACTTCAGGGAGA-CAAGATCTGAAATCTT
38251096 CAGCCTACTCCACTACTTCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCA
128 CAGCCTACTCCACTACTTCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCA
* * * * *
38251161 GGAAGACAAGATTTGCCGTCTTCGATCTAATCCACTGCAACTTCAGAGAGGCAAGATCTACAATC
193 AGAAGACAAGATTCGCCGTCTTCGATCTAATCCACTACAACTTCAAAGAGGAAAGATCTACAATC
*
38251226 TTCAGCC
258 TTCAACC
*
38251233 TACTCCACTACTACTTAGGGAGATAGGATGGTGG-TTCAATTCTGCTTCACTGCAACTTCAGGAA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT-AATTCTGCTTCACTGCAACTTCAGGAA
* *
38251297 GACAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTGAGGGAGACAAGATCT-AAATCTTCA
65 GACAAGATTCGCCATCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGAAATCTTCA
* * *
38251361 GCCTACTCCACTACTGT-TTTGGGAGATAGGATGGTGGCTTAAATCTGCTC-CACTGCAACTTCA
130 GCCTACTCCACTACT-TCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTC-CTGCAACTTCA
*
38251424 A-AGAGACAAGATTCGCCGTCTTCGATCTACTCCACTACAACTTCAAAGAGGAAAGATCTACAAT
193 AGA-AGACAAGATTCGCCGTCTTCGATCTAATCCACTACAACTTCAAAGAGGAAAGATCTACAAT
38251488 CTTCAACC
257 CTTCAACC
* * *
38251496 TACACCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATT-TGCTTCACTGTAACTTCAGGAA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT-AATTCTGCTTCACTGCAACTTCAGGAA
* * * * * *
38251560 GACAAGTTTCACCTTCTTCGATCTGTTCTACTGTAACTTCAGGGAGGCAAGATCTG
65 GACAAGATTCGCCATCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTG
38251616 TAGAATTGGT
Statistics
Matches: 342, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
262 2 0.01
263 228 0.67
264 107 0.31
265 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (264 bp):
TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAATTCTGCTTCACTGCAACTTCAGGAAG
ACAAGATTCGCCATCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGAAATCTTCAG
CCTACTCCACTACTTCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCAAGA
AGACAAGATTCGCCGTCTTCGATCTAATCCACTACAACTTCAAAGAGGAAAGATCTACAATCTTC
AACC
Found at i:38251491 original size:45 final size:45
Alignment explanation
Indices: 38251402--38251506 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 45
38251392 TGGTGGCTTA
* * * **
38251402 AATCTGCTCCACTGCAACTTCAAAGAGACAAGATTCGCCGTCTTC
1 AATCTACTCCACTACAACTTCAAAGAGACAAGATTCACAATCTTC
*
38251447 GATCTACTCCACTACAACTTCAAAGAGGA-AAGA-TCTACAATCTTC
1 AATCTACTCCACTACAACTTCAAAGA-GACAAGATTC-ACAATCTTC
* *
38251492 AACCTACACCACTAC
1 AATCTACTCCACTAC
38251507 TGCTTAGGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 2 0.04
45 45 0.92
46 2 0.04
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.23
Consensus pattern (45 bp):
AATCTACTCCACTACAACTTCAAAGAGACAAGATTCACAATCTTC
Found at i:38259660 original size:3 final size:3
Alignment explanation
Indices: 38259652--38259782 Score: 74
Period size: 3 Copynumber: 44.7 Consensus size: 3
38259642 ATTCATTAAT
** * * *
38259652 TTA TTA TTA TTA ACA -TA TTA TTA TTC TTAA TGTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* * * * * * *
38259698 TTA TTT TTA TTT TTA TTA CTA TTA TCA TT- TTT TTA -AA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
38259744 CTA TTA TTA TTA -TA TTG TTA TTA TTA CTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38259783 GTATTATCTT
Statistics
Matches: 93, Mismatches: 28, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
2 8 0.09
3 81 0.87
4 3 0.03
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:38259761 original size:20 final size:20
Alignment explanation
Indices: 38259736--38259779 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
38259726 TTTTTTAAAT
*
38259736 TATTGTTACTATTATTATTA
1 TATTGTTACTATTACTATTA
*
38259756 TATTGTTATTATTACTATTA
1 TATTGTTACTATTACTATTA
38259776 TATT
1 TATT
38259780 ATTGTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TATTGTTACTATTACTATTA
Found at i:38259764 original size:11 final size:11
Alignment explanation
Indices: 38259656--38259782 Score: 59
Period size: 11 Copynumber: 11.6 Consensus size: 11
38259646 ATTAATTTAT
**
38259656 TATTATTAACA
1 TATTATTATTA
*
38259667 TATTATTATTC
1 TATTATTATTA
*
38259678 T-TAATGTATTA
1 TATTAT-TATTA
*
38259689 TCATTACTATTA
1 T-ATTATTATTA
*
38259701 T-TT-TTATTTT
1 TATTATTA-TTA
*
38259711 TATTACTATTA
1 TATTATTATTA
*
38259722 TCATT-TTTTTA
1 T-ATTATTATTA
* *
38259733 AATTATTGTTA
1 TATTATTATTA
38259744 CTATTATTATTA
1 -TATTATTATTA
*
38259756 TATTGTTA-T-
1 TATTATTATTA
*
38259765 TATTACTATTA
1 TATTATTATTA
38259776 TATTATT
1 TATTATT
38259783 GTATTATCTT
Statistics
Matches: 84, Mismatches: 21, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
9 8 0.10
10 13 0.15
11 41 0.49
12 20 0.24
13 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTATTATTA
Found at i:38259784 original size:23 final size:26
Alignment explanation
Indices: 38259686--38259781 Score: 78
Period size: 28 Copynumber: 3.8 Consensus size: 26
38259676 TCTTAATGTA
*
38259686 TTATCATTACTATTATT-TT-TA-T-
1 TTATTATTACTATTATTATTATATTG
* * * *
38259708 TT-TTATTACTATTATCATTTTTTTAAA
1 TTATTATTACTATTATTATTATATT--G
*
38259735 TTATTGTTACTATTATTATTATATTG
1 TTATTATTACTATTATTATTATATTG
38259761 TTATTATTACTATTA-TATTAT
1 TTATTATTACTATTATTATTAT
38259782 TGTATTATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
21 12 0.21
22 4 0.07
23 1 0.02
24 1 0.02
25 6 0.10
26 14 0.24
27 2 0.03
28 18 0.31
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATTATTACTATTATTATTATATTG
Found at i:38261333 original size:43 final size:43
Alignment explanation
Indices: 38261293--38261372 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
38261283 AATAGTTTGA
* **
38261293 AAATAAATA-AT-ATATGTAAAATTTAAAATGAATAACAGTTT
1 AAATAAATATATAATATGTAAAACTTAAAACAAATAACAGTTT
* *
38261334 AAGTATATATATAATATGTAAAACTTAAAACAAATAACA
1 AAATAAATATATAATATGTAAAACTTAAAACAAATAACA
38261373 AATAGAAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 7 0.22
42 2 0.06
43 23 0.72
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (43 bp):
AAATAAATATATAATATGTAAAACTTAAAACAAATAACAGTTT
Found at i:38268682 original size:28 final size:29
Alignment explanation
Indices: 38268642--38268714 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
38268632 TTTTACCTTT
* *
38268642 TTTTTTAAATTTTTTAAATATATTTTATA-
1 TTTTTT-AGTTTTATAAATATATTTTATAG
** *
38268671 TTTTTTAGTTTTATATTTATATTTTTTAG
1 TTTTTTAGTTTTATAAATATATTTTATAG
38268700 TTTTTATAGTTTTAT
1 TTTTT-TAGTTTTAT
38268715 TTTATTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.46
29 11 0.30
30 9 0.24
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTTTTAGTTTTATAAATATATTTTATAG
Found at i:38268684 original size:15 final size:15
Alignment explanation
Indices: 38268664--38268714 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
38268654 TTTAAATATA
38268664 TTTTATATTTTTTAG
1 TTTTATATTTTTTAG
*
38268679 TTTTATA-TTTATA-
1 TTTTATATTTTTTAG
*
38268692 TTTTTTAGTTTTTATAG
1 TTTTATA-TTTTT-TAG
38268709 TTTTAT
1 TTTTAT
38268715 TTTATTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 6 0.21
14 5 0.18
15 10 0.36
16 2 0.07
17 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (15 bp):
TTTTATATTTTTTAG
Found at i:38268685 original size:22 final size:23
Alignment explanation
Indices: 38268660--38268722 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 23
38268650 ATTTTTTAAA
38268660 TATATTTTATATTTTTTAG-TTT
1 TATATTTTATATTTTTTAGTTTT
38268682 TATA-TTTATATTTTTTAGTTTT
1 TATATTTTATATTTTTTAGTTTT
38268704 TATAGTTTTAT-TTTATTTA
1 TATA-TTTTATATTT-TTTA
38268723 ATAAAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 14 0.38
22 11 0.30
23 3 0.08
24 9 0.24
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (23 bp):
TATATTTTATATTTTTTAGTTTT
Found at i:38268698 original size:30 final size:29
Alignment explanation
Indices: 38268659--38268719 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
38268649 AATTTTTTAA
*
38268659 ATATATTTTA-TATTTTTTAGTTTTATATTT
1 ATATATTTTAGT-TTTTATAGTTTTAT-TTT
*
38268689 ATATTTTTTAGTTTTTATAGTTTTATTTT
1 ATATATTTTAGTTTTTATAGTTTTATTTT
38268718 AT
1 AT
38268720 TTAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 22 0.79
31 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (29 bp):
ATATATTTTAGTTTTTATAGTTTTATTTT
Found at i:38268715 original size:28 final size:28
Alignment explanation
Indices: 38268660--38268719 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
38268650 ATTTTTTAAA
38268660 TATATTTTATATTTTTTAGTTTTATATT
1 TATATTTTATATTTTTTAGTTTTATATT
*
38268688 TATATTTTTTAGTTTTTATAGTTTTAT-TT
1 TATATTTTATA-TTTTT-TAGTTTTATATT
38268717 TAT
1 TAT
38268720 TTAATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.34
29 10 0.34
30 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (28 bp):
TATATTTTATATTTTTTAGTTTTATATT
Found at i:38269455 original size:20 final size:22
Alignment explanation
Indices: 38269430--38269471 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
38269420 TTTTTATTAA
38269430 ATAAATA-AAAACT-ATAAAAT
1 ATAAATATAAAACTAATAAAAT
38269450 ATAAATATAAAACTAATAAAAT
1 ATAAATATAAAACTAATAAAAT
38269472 TTTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAATATAAAACTAATAAAAT
Found at i:38273379 original size:4 final size:4
Alignment explanation
Indices: 38273370--38273395 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
38273360 CATTGGCATC
38273370 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
38273396 TTTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:38276886 original size:38 final size:38
Alignment explanation
Indices: 38276838--38276913 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
38276828 AATCAAAATC
* *
38276838 AAAGTTTCATGTATATAATTGCATCCATTTAAAGTTCA
1 AAAGTTTCATGTATATAATTGCACCCAATTAAAGTTCA
38276876 AAAGTTTCATGTATATAATTGCACCCAATTAAAGTTCA
1 AAAGTTTCATGTATATAATTGCACCCAATTAAAGTTCA
38276914 TATAACAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (38 bp):
AAAGTTTCATGTATATAATTGCACCCAATTAAAGTTCA
Found at i:38278395 original size:31 final size:31
Alignment explanation
Indices: 38278360--38278424 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
38278350 AAAATATTAT
38278360 AAACTATTTCAAAAAAAAGGGTAAATTATCA
1 AAACTATTTCAAAAAAAAGGGTAAATTATCA
*
38278391 AAACTATTTTAAAAAAAAGGGTAAATTATCA
1 AAACTATTTCAAAAAAAAGGGTAAATTATCA
38278422 AAA
1 AAA
38278425 TAAACACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.26
Consensus pattern (31 bp):
AAACTATTTCAAAAAAAAGGGTAAATTATCA
Found at i:38281666 original size:21 final size:21
Alignment explanation
Indices: 38281627--38281698 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
38281617 ATATATATAA
*
38281627 ATATATATAATGGTATTAGAAAT
1 ATATATATAATAG--TTAGAAAT
38281650 ATATATAGTAAT-GTTAGAAAT
1 ATATATA-TAATAGTTAGAAAT
* *
38281671 ATACATATAATAGTTCA-AAAG
1 ATATATATAATAGTT-AGAAAT
38281692 ATATATA
1 ATATATA
38281699 ACTAACAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 4 0.09
21 26 0.60
22 1 0.02
23 8 0.19
24 4 0.09
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATATATAATAGTTAGAAAT
Found at i:38285006 original size:33 final size:32
Alignment explanation
Indices: 38284959--38285033 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
38284949 CACAATTATA
** *
38284959 AATATAATTTTTTTTAAAATTAAATTTATCCC
1 AATATAATTTTTTTTAAAACGAAAATTATCCC
* *
38284991 AATATACTTTATTTTTTAAACGAAAATTATCCC
1 AATATAATTT-TTTTTAAAACGAAAATTATCCC
38285024 AA-ATAATTTT
1 AATATAATTTT
38285034 AAACAGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 15 0.42
33 20 0.56
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.47
Consensus pattern (32 bp):
AATATAATTTTTTTTAAAACGAAAATTATCCC
Found at i:38285723 original size:17 final size:17
Alignment explanation
Indices: 38285701--38285734 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38285691 TTTAACATAT
38285701 TGTTAAAATACTATTTA
1 TGTTAAAATACTATTTA
* *
38285718 TGTTAAACTAGTATTTA
1 TGTTAAAATACTATTTA
38285735 AACAATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
TGTTAAAATACTATTTA
Found at i:38292513 original size:53 final size:53
Alignment explanation
Indices: 38292433--38292538 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
38292423 CAACTCACTA
38292433 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
1 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
38292486 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
1 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
38292539 TTTAAACAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (53 bp):
AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
Found at i:38292520 original size:26 final size:26
Alignment explanation
Indices: 38292438--38292520 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
38292428 CACTAAGTGA
38292438 ATAAATCTACAGTATCACTTATACAT
1 ATAAATCTACAGTATCACTTATACAT
* * ** *
38292464 ATAATTCCTAGCA-TAGTAAGATAGT-GA-
1 ATAAAT-CTA-CAGTA-TCACTTA-TACAT
38292491 ATAAATCTACAGTATCACTTATACAT
1 ATAAATCTACAGTATCACTTATACAT
38292517 ATAA
1 ATAA
38292521 TTCCTAGCAT
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
24 1 0.03
25 7 0.17
26 14 0.35
27 10 0.25
28 7 0.17
29 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (26 bp):
ATAAATCTACAGTATCACTTATACAT
Found at i:38293188 original size:21 final size:21
Alignment explanation
Indices: 38293164--38293227 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
38293154 TAGAAACCCG
38293164 TAAGGGTTGAAAAGAAGCTCA
1 TAAGGGTTGAAAAGAAGCTCA
* * ** *
38293185 TAAGAGCTGAACGGAAGCCCA
1 TAAGGGTTGAAAAGAAGCTCA
*
38293206 TAAGGGTT-AAACAGAAACTCA
1 TAAGGGTTGAAA-AGAAGCTCA
38293227 T
1 T
38293228 GTGAGTTAAA
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (21 bp):
TAAGGGTTGAAAAGAAGCTCA
Found at i:38293346 original size:24 final size:24
Alignment explanation
Indices: 38293314--38293361 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
38293304 TACTTTGGTA
*
38293314 ATTTGCCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
*
38293338 ATTTACCGTCAATTCATCTTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
38293362 CATAGAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:38293476 original size:45 final size:45
Alignment explanation
Indices: 38293421--38293513 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
38293411 ATTCAATTTC
* *
38293421 ATAATTTAACAATATTCCATTTTTCAACAAC-ATGCTATATACATA
1 ATAATTTAACAATATTCCATTTTTCAAC-ACTATACTAAATACATA
*
38293466 ATAATTTAACAATATTCTATTTTTCAACACTATACTAAATACATA
1 ATAATTTAACAATATTCCATTTTTCAACACTATACTAAATACATA
38293511 ATA
1 ATA
38293514 TCATTCATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.05
45 42 0.95
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.39
Consensus pattern (45 bp):
ATAATTTAACAATATTCCATTTTTCAACACTATACTAAATACATA
Found at i:38299794 original size:27 final size:27
Alignment explanation
Indices: 38299776--38299961 Score: 266
Period size: 27 Copynumber: 6.9 Consensus size: 27
38299766 CTCAATTTGT
*
38299776 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
38299803 AGAATTACCGTTTCACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
38299830 AAAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
38299857 AGAATTACCATTTTACCCTCGAATTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
38299884 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
38299911 AAAATTACCATTTTACCCTC-AGTTTAC
1 AGAATTACCATTTTACCCTCGA-TTTAC
* *
38299938 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
38299962 GTGAAATTAT
Statistics
Matches: 142, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:38299888 original size:81 final size:80
Alignment explanation
Indices: 38299764--38299959 Score: 302
Period size: 81 Copynumber: 2.4 Consensus size: 80
38299754 TACTAAATTG
* * *
38299764 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGAATTACAGAATTACCGTTTCACCCTCGATTTA
38299829 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
*
38299845 CCCTCGATTTATAGAATTACCATTTTACCCTCGAATTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGAATTACAGAATTACCGTTTCACCCTCGATTTA
38299910 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
* * *
38299926 CCCTCAGTTTACAAAATTACCGTTTTACCCTCGA
1 CCCTCA-TTTATAGAATTACCATTTTACCCTCGA
38299960 TTGTGAAATT
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.37
Consensus pattern (80 bp):
CCCTCATTTATAGAATTACCATTTTACCCTCGAATTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:38300004 original size:27 final size:27
Alignment explanation
Indices: 38299974--38300061 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
38299964 GAAATTATTG
*
38299974 AAATACCCCT-GTAGGATAGAATTACCA
1 AAATACCCCTAGT-GGATAAAATTACCA
**
38300001 AAATACCCCTAGTTTATAAAATTACCA
1 AAATACCCCTAGTGGATAAAATTACCA
* *
38300028 AAATACCCCTAGTTTG-TAAAATTACCG
1 AAATACCCCTAG-TGGATAAAATTACCA
38300055 AAATACC
1 AAATACC
38300062 ACTGGTTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 50 0.93
28 4 0.07
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATACCCCTAGTGGATAAAATTACCA
Found at i:38300034 original size:54 final size:54
Alignment explanation
Indices: 38299974--38300089 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
38299964 GAAATTATTG
* *
38299974 AAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGTTTATAAAATTACCA
1 AAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTATAAAATTACCA
** * * * * *
38300028 AAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCG
1 AAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTATAAAATTACCA
38300082 AAATACCC
1 AAATACCC
38300090 TCAATTTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (54 bp):
AAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTATAAAATTACCA
Found at i:38300069 original size:27 final size:26
Alignment explanation
Indices: 38299993--38300227 Score: 139
Period size: 27 Copynumber: 8.7 Consensus size: 26
38299983 TGTAGGATAG
*
38299993 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATA-CCCTGGTTTATAA
* *
38300020 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTGGTTTATAA
* * *
38300047 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGGTTTATAA
* ** *
38300074 AATTACCGAAATACCCTCAATTTTTAA
1 AATTACCAAAATACCCT-GGTTTATAA
* * *
38300101 AATTACTAAAATACCCCTGATTTACAA
1 AATTACCAAAATA-CCCTGGTTTATAA
* *
38300128 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCC-TG-GTTTAT-AA
** * *
38300157 AATTATAAAAATACCATTGGTTTACAA
1 AATTACCAAAATACC-CTGGTTTATAA
** * *
38300184 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCC-TGGTTTATAA
* *
38300211 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
38300228 TGTAGGATGA
Statistics
Matches: 165, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
26 9 0.05
27 129 0.78
28 10 0.06
29 16 0.10
30 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTGGTTTATAA
Found at i:38300086 original size:81 final size:81
Alignment explanation
Indices: 38299993--38300142 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
38299983 TGTAGGATAG
* ** *
38299993 AATTACCAAAATACCC-CTAGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTATAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
38300056 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
* * *
38300074 AATTACCGAAATACCCTCAATTTTTAAAATTACTAAAATACCCCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
38300139 TACC
66 TACC
38300143 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:38300102 original size:54 final size:55
Alignment explanation
Indices: 38299993--38300226 Score: 197
Period size: 54 Copynumber: 4.3 Consensus size: 55
38299983 TGTAGGATAG
* * *
38299993 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAAAATTACCGAAATACCCTCTAATTTGTAA
* * * * *
38300047 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTC-AATTTTTAA
1 AATTACCAAAATACCCCTGGTTTATAAAATTACCGAAATACCCTCTAATTTGTAA
* * * * * *
38300101 AATTACTAAAATACCCCTGATTTACAAAATTACAGAAATACCCT-TGACTTTCTAAA
1 AATTACCAAAATACCCCTGGTTTATAAAATTACCGAAATACCCTCT-AATTTGT-AA
** ** * * ** *
38300157 AATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACCCT-TGGTTTGTAG
1 AATTACCAAAATACCCCTGGTTTATAAAATTACCGAAATACCCTCTAATTTGTAA
* *
38300211 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
38300227 TTGTAGGATG
Statistics
Matches: 143, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
54 92 0.64
55 10 0.07
56 41 0.29
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (55 bp):
AATTACCAAAATACCCCTGGTTTATAAAATTACCGAAATACCCTCTAATTTGTAA
Found at i:38301171 original size:25 final size:25
Alignment explanation
Indices: 38301133--38301202 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
38301123 AGGAAGTGCT
* *
38301133 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
38301158 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38301183 AAAAGCGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38301203 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38301473 original size:31 final size:31
Alignment explanation
Indices: 38301422--38301534 Score: 178
Period size: 30 Copynumber: 3.7 Consensus size: 31
38301412 TGCTTACAGT
*
38301422 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
38301452 AAAGGCTTCGGCCTAGTGATATGA-TTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
38301482 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
38301513 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
38301535 TCAAAATTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
30 44 0.57
31 33 0.43
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:38301507 original size:61 final size:59
Alignment explanation
Indices: 38301422--38301534 Score: 181
Period size: 61 Copynumber: 1.9 Consensus size: 59
38301412 TGCTTACAGT
*
38301422 AAAGGCTTCAGCCAGTGATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTATGA
1 AAAGGCTTCAGCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGT-ATATGATTATGA
* *
38301482 AAAGGCTTCGGCCCAGTGATATGATTTATGGAAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCAG-CCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTATATG
38301535 TCAAAATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
60 15 0.31
61 34 0.69
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (59 bp):
AAAGGCTTCAGCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTATATGATTATGA
Found at i:38310266 original size:14 final size:14
Alignment explanation
Indices: 38310249--38310278 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38310239 TAAATTTTAC
*
38310249 AAATAATTAATATA
1 AAATAATAAATATA
38310263 AAATAATAAATATA
1 AAATAATAAATATA
38310277 AA
1 AA
38310279 TTCTTGATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAATAAATATA
Found at i:38310651 original size:12 final size:12
Alignment explanation
Indices: 38310630--38310668 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38310620 TGACGTGGCA
*
38310630 GAGGAGGACGAT
1 GAGGACGACGAT
*
38310642 GAGGACGACGAA
1 GAGGACGACGAT
*
38310654 GAGGATGACGAT
1 GAGGACGACGAT
38310666 GAG
1 GAG
38310669 CTTTATGGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.46, T:0.08
Consensus pattern (12 bp):
GAGGACGACGAT
Done.