Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 21 of 172
Found at i:5217356 original size:9 final size:9
Alignment explanation
Indices: 5217339--5217544 Score: 169
Period size: 9 Copynumber: 23.4 Consensus size: 9
5217329 AACCTAATAT
*
5217339 ATAAATTAC
1 ATAACTTAC
5217348 ATAACTTAC
1 ATAACTTAC
5217357 ATAACTTAC
1 ATAACTTAC
*
5217366 ATAACTTAA
1 ATAACTTAC
5217375 ATAACTTAC
1 ATAACTTAC
5217384 ATAA--TAC
1 ATAACTTAC
*
5217391 GTAACCTT-C
1 ATAA-CTTAC
*
5217400 CTAACTTAC
1 ATAACTTAC
* * *
5217409 ATTATTTAG
1 ATAACTTAC
5217418 ATAA--TAC
1 ATAACTTAC
* *
5217425 ATAGCCTAC
1 ATAACTTAC
5217434 ATAACTTAC
1 ATAACTTAC
*
5217443 AAAACTTAC
1 ATAACTTAC
* *
5217452 ATAAATTAA
1 ATAACTTAC
*
5217461 ATAACTTCC
1 ATAACTTAC
5217470 ATAACTTAC
1 ATAACTTAC
*
5217479 ATAACTCAC
1 ATAACTTAC
5217488 ATAA--TAC
1 ATAACTTAC
*
5217495 ACAACTTAC
1 ATAACTTAC
5217504 ATAACTTAC
1 ATAACTTAC
*
5217513 ATAA--AAC
1 ATAACTTAC
5217520 ATAACTTATTAC
1 ATAAC---TTAC
5217532 ATAACTTAC
1 ATAACTTAC
5217541 ATAA
1 ATAA
5217545 TACATAAAAA
Statistics
Matches: 156, Mismatches: 28, Indels: 26
0.74 0.13 0.12
Matches are distributed among these distances:
7 22 0.14
8 3 0.02
9 123 0.79
10 1 0.01
12 7 0.04
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:5217387 original size:114 final size:114
Alignment explanation
Indices: 5217120--5217360 Score: 272
Period size: 114 Copynumber: 2.1 Consensus size: 114
5217110 TCATTTTAGG
* * * *** * *
5217120 TAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTAT
1 TAACTTACATAATATTAACATAAAATTAATAATTACATAACTGATATAATATTAAGATAACTTAT
* *
5217185 ATAATATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAGA
66 ATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAACA
* * * **
5217234 TTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGAT-TAATATTAAGATAACTTA
1 TAACTTACATAATATTAACATAAAATTAATAATTACATAACT-GATATAATATTAAGATAACTTA
* *
5217298 TATAATATTAAGATAAAATTTCTAATTCCGTAACCTAATATATAA-ATT-ACA
65 TATAATATTAAGATAAAATTTCTAATTACATAA-CT--TATATAATATTAACA
5217349 TAACTTACATAA
1 TAACTTACATAA
5217361 CTTACATAAC
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
114 86 0.77
115 16 0.14
116 3 0.03
117 7 0.06
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (114 bp):
TAACTTACATAATATTAACATAAAATTAATAATTACATAACTGATATAATATTAAGATAACTTAT
ATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAACA
Found at i:5217506 original size:25 final size:25
Alignment explanation
Indices: 5217344--5217548 Score: 119
Period size: 25 Copynumber: 7.8 Consensus size: 25
5217334 AATATATAAA
*
5217344 TTACATAACTTACATAACTTACATAAC
1 TTACATAACTTACATAA--TACACAAC
* **
5217371 TTAAATAACTTACATAATACGTAACC
1 TTACATAACTTACATAATACACAA-C
* * * *
5217397 TT-CCTAACTTACATTATTTAGATAA-
1 TTACATAACTTACA-TA-ATACACAAC
* * *
5217422 -TACATAGCCTACATAACTTACAAAAC
1 TTACATAACTTACATAA--TACACAAC
* * * *
5217448 TTACATAAATTAAATAACTTCCATAAC
1 TTACATAACTTACATAA--TACACAAC
*
5217475 TTACATAACTCACATAATACACAAC
1 TTACATAACTTACATAATACACAAC
* *
5217500 TTACATAACTTACATAAAACATAAC
1 TTACATAACTTACATAATACACAAC
5217525 TTATTACATAACTTACATAATACA
1 ---TTACATAACTTACATAATACA
5217549 TAAAAATATA
Statistics
Matches: 139, Mismatches: 28, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
24 3 0.02
25 56 0.40
26 5 0.04
27 55 0.40
28 20 0.14
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (25 bp):
TTACATAACTTACATAATACACAAC
Found at i:5217507 original size:34 final size:34
Alignment explanation
Indices: 5217339--5217551 Score: 180
Period size: 34 Copynumber: 6.1 Consensus size: 34
5217329 AACCTAATAT
* *
5217339 ATAAATTACATAACTTACATAACTTACATAACTTAA
1 ATAACTTACATAA--TACATAACTTACATAACTTAC
* *
5217375 ATAACTTACATAATACGTAACCTT-CCTAACTTAC
1 ATAACTTACATAATACATAA-CTTACATAACTTAC
* * * * *
5217409 ATTATTTAGATAATACATAGCCTACATAACTTAC
1 ATAACTTACATAATACATAACTTACATAACTTAC
* * *
5217443 AAAACTTACATAAATTAAATAACTTCCATAACTTAC
1 ATAACTTACAT-AA-TACATAACTTACATAACTTAC
* *
5217479 ATAACTCACATAATACACAACTTACATAACTTAC
1 ATAACTTACATAATACATAACTTACATAACTTAC
* * *
5217513 ATAAAACATAACTTATTACATAACTTACATAA--TAC
1 AT--AAC-TTACATAATACATAACTTACATAACTTAC
5217548 ATAA
1 ATAA
5217552 AAATATATCA
Statistics
Matches: 142, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
33 4 0.03
34 65 0.46
35 12 0.08
36 41 0.29
37 20 0.14
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (34 bp):
ATAACTTACATAATACATAACTTACATAACTTAC
Found at i:5217522 original size:95 final size:94
Alignment explanation
Indices: 5217339--5217522 Score: 210
Period size: 95 Copynumber: 1.9 Consensus size: 94
5217329 AACCTAATAT
* * * * *
5217339 ATAAATTACATAACTTACATAACTTACATAACTTAAATAACTTACATAATACGTAACCTTCCTAA
1 ATAAATTACAAAACTTACATAAATTAAATAACTTAAATAACTTACATAATACATAA-CTACCTAA
* * * *
5217404 CTTACATTATTTAGATAATACATAGCCTAC
65 CTTACATAACTTACATAAAACATAGCCTAC
* **
5217434 ATAACTTACAAAACTTACATAAATTAAATAACTTCCATAACTTACATAACTCACATAA-TACAC-
1 ATAAATTACAAAACTTACATAAATTAAATAACTTAAATAACTTACATAA-T-ACATAACTAC-CT
5217497 AACTTACATAACTTACATAAAACATA
63 AACTTACATAACTTACATAAAACATA
5217523 ACTTATTACA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
95 67 0.91
96 2 0.03
97 5 0.07
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (94 bp):
ATAAATTACAAAACTTACATAAATTAAATAACTTAAATAACTTACATAATACATAACTACCTAAC
TTACATAACTTACATAAAACATAGCCTAC
Found at i:5223077 original size:21 final size:20
Alignment explanation
Indices: 5223015--5223082 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
5223005 AGCTACAACT
*
5223015 CAGAGGCAGCAGCGATGGAAG
1 CAGAGGCTGCAGCGA-GGAAG
* **
5223036 CAGCGGCTGCAGTAAGGGAAG
1 CAGAGGCTGCAGCGA-GGAAG
5223057 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCTGCAGCGAG-GAAG
5223078 CAGAG
1 CAGAG
5223083 CAGAGCAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 1 0.03
21 37 0.97
ACGTcount: A:0.32, C:0.19, G:0.43, T:0.06
Consensus pattern (20 bp):
CAGAGGCTGCAGCGAGGAAG
Found at i:5223501 original size:41 final size:42
Alignment explanation
Indices: 5223447--5223570 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 42
5223437 TTTGTGAATA
* * * *
5223447 AAGCGCTGCTAAAGAACCTGATCTTTAGTGTCATTTTTTT-G
1 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCC
*
5223488 AAGCGCTGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTTCC
1 AAGCGCTGCTAAAGAACATGATC-TTTAGCGGCATTTTTTTCC
* * *
5223530 AAGCGCCGTTAAAGAACATGATCTTTAGCGGCGTTTATTTT
1 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCATTT-TTTT
5223571 TGTAAACGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.01
41 34 0.47
42 32 0.44
43 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
AAGCGCTGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCC
Found at i:5223543 original size:42 final size:41
Alignment explanation
Indices: 5223389--5223570 Score: 143
Period size: 41 Copynumber: 4.3 Consensus size: 41
5223379 CAAAAATAGT
* *
5223389 GGCGTTTTTTATAAAAGCGCCGCTAAAGAAACAT-TTCTTTTAGC
1 GGCGTTTTTT-T-CAAGCGCCGCTAAAG-AACATGATC-TTTAGC
* ** * * * *
5223433 GGCATTTGTGAATAAAGCGCTGCTAAAGAACCTGATCTTTAGT
1 GGCGTTT-T-TTTCAAGCGCCGCTAAAGAACATGATCTTTAGC
* * * *
5223476 GTCATTTTTTTGAAGCGCTGCTAAAGAACATGA-CTTTTAGC
1 GGCGTTTTTTTCAAGCGCCGCTAAAGAACATGATC-TTTAGC
*
5223517 GGCGTTTTTTTCCAAGCGCCGTTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTT-CAAGCGCCGCTAAAGAACATGATCTTTAGC
5223559 GGCGTTTATTTT
1 GGCGTTT-TTTT
5223571 TGTAAACGCT
Statistics
Matches: 113, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 35 0.31
42 33 0.29
43 20 0.18
44 22 0.19
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTTTCAAGCGCCGCTAAAGAACATGATCTTTAGC
Found at i:5225662 original size:19 final size:20
Alignment explanation
Indices: 5225616--5225686 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
5225606 AAAAATTAAA
5225616 AAAATTCAAAATAATTTTAT
1 AAAATTCAAAATAATTTTAT
5225636 AAAATTCAAAATAATTTT-T
1 AAAATTCAAAATAATTTTAT
*
5225655 AAATTTCAAAAT-A-TTTAT
1 AAAATTCAAAATAATTTTAT
5225673 AAAAATTCCAAAAT
1 -AAAATT-CAAAAT
5225687 TTATATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.07
18 2 0.04
19 17 0.37
20 24 0.52
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTCAAAATAATTTTAT
Found at i:5225722 original size:21 final size:20
Alignment explanation
Indices: 5225696--5225746 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
5225686 TTTATATTTT
5225696 TTAAAAAATTAT-AAGAAATTC
1 TTAAAAAATTATAAAGAAA--C
* *
5225717 TTAAAATA-TATAAAGAAAG
1 TTAAAAAATTATAAAGAAAC
5225736 TTAAAAAATTA
1 TTAAAAAATTA
5225747 AAAATTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 13 0.52
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (20 bp):
TTAAAAAATTATAAAGAAAC
Found at i:5225862 original size:16 final size:16
Alignment explanation
Indices: 5225843--5225873 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5225833 TTGAAAAAGT
5225843 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
5225859 TTTCAAATTTATATG
1 TTTCAAATATATATG
5225874 CTTTAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:5227564 original size:253 final size:253
Alignment explanation
Indices: 5227111--5227605 Score: 936
Period size: 253 Copynumber: 2.0 Consensus size: 253
5227101 ACAGGAAGAG
5227111 GAGTAGGAGGATGAAGTAAAGCGGTAAGTGAAAACCCATTTGCGTTGTTATTTGGTTTGAGGGAA
1 GAGTAGGAGGATGAAGTAAAGCGGTAAGTGAAAACCCATTTGCGTTGTTATTTGGTTTGAGGGAA
*
5227176 ATCAATGAAGATTTAAAGAAACAAAGGATGTTTGAGTGAGAAGCAAATGAAAAGTATTTGGTCAC
66 ATCAATGAAGATTTAAAGAAACAAAGGATGTTTGAGTGAGAAGCAAATGAAAAGTATTTGCTCAC
5227241 ACTTTCCTTGAAGTTCCAGTATAAGTGCATTTGATTTGAGAATAATTCATTAATTTGCAAAGACT
131 ACTTTCCTTGAAGTTCCAGTATAAGTGCATTTGATTTGAGAATAATTCATTAATTTGCAAAGACT
5227306 GTTGGATACAATTTTCCAGCTACACGTAAGAGGTCTCCATTCAAAGAAATAAAGGGAA
196 GTTGGATACAATTTTCCAGCTACACGTAAGAGGTCTCCATTCAAAGAAATAAAGGGAA
*
5227364 GAGTAGGAGGATGAAGTAAAGCGGTAAGTGAAAACCCATTTGCGTTGTTATTTTGTTTGAGGGAA
1 GAGTAGGAGGATGAAGTAAAGCGGTAAGTGAAAACCCATTTGCGTTGTTATTTGGTTTGAGGGAA
*
5227429 ATGAATGAAGATTTAAAGAAACAAAGGATGTTTGAGTGAGAAGCAAATGAAAAGTATTTGCTCAC
66 ATCAATGAAGATTTAAAGAAACAAAGGATGTTTGAGTGAGAAGCAAATGAAAAGTATTTGCTCAC
* *
5227494 ACTTTCCTTGAAGTTCCAGTGTAAGTGCATTTGATTTGAGAATAATTCATTAATTTGCAAAGATT
131 ACTTTCCTTGAAGTTCCAGTATAAGTGCATTTGATTTGAGAATAATTCATTAATTTGCAAAGACT
*
5227559 GTTGGATACAATTTTCCAGCTACACGTAAGTGGTCTCCATTCAAAGA
196 GTTGGATACAATTTTCCAGCTACACGTAAGAGGTCTCCATTCAAAGA
5227606 GTAGGTTACG
Statistics
Matches: 236, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
253 236 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (253 bp):
GAGTAGGAGGATGAAGTAAAGCGGTAAGTGAAAACCCATTTGCGTTGTTATTTGGTTTGAGGGAA
ATCAATGAAGATTTAAAGAAACAAAGGATGTTTGAGTGAGAAGCAAATGAAAAGTATTTGCTCAC
ACTTTCCTTGAAGTTCCAGTATAAGTGCATTTGATTTGAGAATAATTCATTAATTTGCAAAGACT
GTTGGATACAATTTTCCAGCTACACGTAAGAGGTCTCCATTCAAAGAAATAAAGGGAA
Found at i:5228319 original size:14 final size:17
Alignment explanation
Indices: 5228283--5228319 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
5228273 TGAGACAACC
5228283 TTTTTACATCATTCAAT
1 TTTTTACATCATTCAAT
5228300 TGTTTT-CAT-ATTCAAT
1 T-TTTTACATCATTCAAT
5228316 TTTT
1 TTTT
5228320 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 8 0.42
17 4 0.21
18 4 0.21
ACGTcount: A:0.24, C:0.14, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTTACATCATTCAAT
Found at i:5251044 original size:40 final size:41
Alignment explanation
Indices: 5250991--5251085 Score: 97
Period size: 41 Copynumber: 2.3 Consensus size: 41
5250981 ATATATAAGT
* * * *
5250991 TGATTTTTGGAAAACGTTTCTAA-TTGAAAGCATTTTCAA-G
1 TGATTTGTAGAAAACGTTTCCAACTAG-AAGCATTTTCAACG
*
5251031 TGATTTGTAGAAAAATGTTTCCAACTAGAAGCATTTTCAACG
1 TGATTTGTAG-AAAACGTTTCCAACTAGAAGCATTTTCAACG
*
5251073 T-ATTGGTAGAAAA
1 TGATTTGTAGAAAA
5251086 ATGCTTCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
40 12 0.26
41 30 0.65
42 4 0.09
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (41 bp):
TGATTTGTAGAAAACGTTTCCAACTAGAAGCATTTTCAACG
Found at i:5251063 original size:41 final size:41
Alignment explanation
Indices: 5251018--5251097 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
5251008 TTCTAATTGA
* *
5251018 AAGCATTTTCAA-GTGATTTGTAGAAAAATGTTTCCAACTAG
1 AAGCATTTTCAACGT-ATTGGTAGAAAAATGCTTCCAACTAG
5251059 AAGCATTTTCAACGTATTGGTAGAAAAATGCTTCCAACT
1 AAGCATTTTCAACGTATTGGTAGAAAAATGCTTCCAACT
5251098 GAAAACGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.94
42 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (41 bp):
AAGCATTTTCAACGTATTGGTAGAAAAATGCTTCCAACTAG
Found at i:5251360 original size:3 final size:3
Alignment explanation
Indices: 5251352--5251382 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5251342 TTGGTTCCTT
5251352 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5251383 AATACTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5251584 original size:5 final size:5
Alignment explanation
Indices: 5251576--5251601 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5251566 ACTTTATCCA
5251576 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
5251602 TCACAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:5252990 original size:3 final size:3
Alignment explanation
Indices: 5252982--5253009 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5252972 GCTATAGTGT
5252982 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5253010 CTCTATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5253487 original size:19 final size:19
Alignment explanation
Indices: 5253463--5253499 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5253453 CCAAGAAAAT
*
5253463 AAAATACAACCGGCCCAAA
1 AAAATACAAACGGCCCAAA
5253482 AAAATACAAACGGCCCAA
1 AAAATACAAACGGCCCAA
5253500 TTTTTAGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.30, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAATACAAACGGCCCAAA
Found at i:5254796 original size:24 final size:24
Alignment explanation
Indices: 5254751--5254814 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
5254741 TATATATATA
5254751 ATATTATTTATTTTAAAATTTTTT
1 ATATTATTTATTTTAAAATTTTTT
**
5254775 ATATTCATTTATTTTAAGTTTTCTTGT
1 ATATT-ATTTATTTTAAAATTT-TT-T
*
5254802 ATATTGTTTATTT
1 ATATTATTTATTT
5254815 GAACCTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.15
25 14 0.41
26 9 0.26
27 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (24 bp):
ATATTATTTATTTTAAAATTTTTT
Found at i:5255406 original size:109 final size:109
Alignment explanation
Indices: 5255215--5255485 Score: 425
Period size: 109 Copynumber: 2.5 Consensus size: 109
5255205 AAAAGTTTTA
* * *
5255215 AATTAAGGAAATATTTTGCGTTTGGAAAATTTGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 AATTAAGGAAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACTTGCTGGGTTTCGAT
5255280 TTCTCGTTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
66 TTCTCGTTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
*
5255324 AATTAAGGTAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACTTGCTGGGTTTCGAT
1 AATTAAGGAAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACTTGCTGGGTTTCGAT
* *
5255389 TTCTTGTTCGACCAAATGGCTAAATACCCTTTTAAACTTTCAAT
66 TTCTCGTTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
* * * ** *
5255433 AATAAAGGCAATATTCCGTATTTAGAAAATTCGAGAAAATCGTGCCCTAACTT
1 AATTAAGGAAATATTTCGCGTTTGGAAAATTCGAGAAAA-CGTGCCCTAACTT
5255486 ATTGAGCTTC
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 136 0.91
110 13 0.09
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (109 bp):
AATTAAGGAAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACTTGCTGGGTTTCGAT
TTCTCGTTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
Found at i:5260571 original size:11 final size:11
Alignment explanation
Indices: 5260566--5260637 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 11
5260556 GAAAAAAAGC
5260566 AAAAAAGCAAAA
1 AAAAAAGC-AAA
5260578 AAGAAGAAGCAAA
1 AA-AA-AAGCAAA
5260591 AAAAATGAG-AAA
1 AAAAA--AGCAAA
5260603 ATAAAAAGCAAA
1 A-AAAAAGCAAA
*
5260615 AAAAAACCAAA
1 AAAAAAGCAAA
5260626 AATAAAAG-AAA
1 AA-AAAAGCAAA
5260637 A
1 A
5260638 GACCTCTACC
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 18 0.35
12 16 0.31
13 13 0.25
14 4 0.08
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAGCAAA
Found at i:5260601 original size:16 final size:14
Alignment explanation
Indices: 5260544--5260620 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
5260534 GAACAGTTCG
*
5260544 AAAAAAAAGAGAGAA
1 AAAAAAAAGA-AGCA
*
5260559 AAAAAGCAAAAAAGCA
1 AAAAA--AAAGAAGCA
*
5260575 AAAAAGAAGAAGCA
1 AAAAAAAAGAAGCA
*
5260589 AAAAAAATG-AG--
1 AAAAAAAAGAAGCA
*
5260600 AAAATAAA-AAGCA
1 AAAAAAAAGAAGCA
5260613 AAAAAAAA
1 AAAAAAAA
5260621 CCAAAAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
11 8 0.17
13 9 0.19
14 14 0.29
15 5 0.10
16 8 0.17
17 4 0.08
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAAGCA
Found at i:5260617 original size:14 final size:13
Alignment explanation
Indices: 5260566--5260620 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
5260556 GAAAAAAAGC
5260566 AAAAAAGCAAAAA
1 AAAAAAGCAAAAA
*
5260579 AGAAGAAGCAAAAA
1 A-AAAAAGCAAAAA
**
5260593 AAATGAG--AAAA
1 AAAAAAGCAAAAA
*
5260604 TAAAAAGCAAAAA
1 AAAAAAGCAAAAA
5260617 AAAA
1 AAAA
5260621 CCAAAAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
11 8 0.25
13 12 0.38
14 12 0.38
ACGTcount: A:0.78, C:0.05, G:0.13, T:0.04
Consensus pattern (13 bp):
AAAAAAGCAAAAA
Found at i:5260627 original size:24 final size:23
Alignment explanation
Indices: 5260559--5260632 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
5260549 AAAGAGAGAA
* * *
5260559 AAAAAGC-AAAAAAGCAAAAAAG
1 AAAAAGCAAAAAAAACCAAAAAT
* **
5260581 AAGAAGCAAAAAAAATGAGAAAAT
1 AAAAAGCAAAAAAAACCA-AAAAT
5260605 AAAAAGCAAAAAAAAACCAAAAAT
1 AAAAAGC-AAAAAAAACCAAAAAT
5260629 AAAA
1 AAAA
5260633 GAAAAGACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 6 0.15
23 7 0.17
24 19 0.46
25 9 0.22
ACGTcount: A:0.77, C:0.08, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAAAGCAAAAAAAACCAAAAAT
Found at i:5261017 original size:13 final size:12
Alignment explanation
Indices: 5260994--5261037 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
5260984 TTCACTTGAA
5260994 AAAAAATGAAAAG
1 AAAAAA-GAAAAG
5261007 AAAAAGAGAAAAG
1 AAAAA-AGAAAAG
5261020 -AAAAAGAAAAG
1 AAAAAAGAAAAG
5261031 AAAAAAG
1 AAAAAAG
5261038 GAGATGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.24
12 10 0.34
13 11 0.38
14 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:5261027 original size:11 final size:11
Alignment explanation
Indices: 5260991--5261035 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
5260981 TACTTCACTT
*
5260991 GAAAA-AAAAT
1 GAAAAGAAAAA
5261001 GAAAAGAAAAAGA
1 GAAAAG-AAAA-A
5261014 GAAAAGAAAAA
1 GAAAAGAAAAA
5261025 GAAAAGAAAAA
1 GAAAAGAAAAA
5261036 AGGAGATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 5 0.16
11 12 0.39
12 8 0.26
13 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:5261028 original size:24 final size:23
Alignment explanation
Indices: 5260991--5261055 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 23
5260981 TACTTCACTT
*
5260991 GAAAAAAAATGAAAAGAAAAAGA
1 GAAAAAAAAAGAAAAGAAAAAGA
5261014 GAAAAGAAAAAGAAAAGAAAAAAGGA
1 GAAAA-AAAAAGAAAAG-AAAAA-GA
*
5261040 GATGAAAAAAAGAAAA
1 GA-AAAAAAAAGAAAA
5261056 AGGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 10 0.28
25 5 0.14
26 14 0.39
27 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAGAAAAAGA
Found at i:5261057 original size:6 final size:6
Alignment explanation
Indices: 5261002--5261035 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
5260992 AAAAAAAATG
5261002 AAAAGA AAAAGA GAAAAGA AAAAG- AAAAGA AAAA
1 AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAA
5261036 AGGAGATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:5262302 original size:46 final size:46
Alignment explanation
Indices: 5262132--5262338 Score: 122
Period size: 46 Copynumber: 4.6 Consensus size: 46
5262122 GCAGAGGTGG
* * * * *
5262132 TTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG-CGAAGCAGA
1 TTGAAGATTGCAGATCTTACCTCCCTGTATTTGGCAGTGGAA-TAGA
* * * * * * *
5262178 TCGAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACA
1 TTGAAGATTGCAGATCTTACCTCCCTGTATTTGGCAGTGGAATAGA
* * * *
5262221 TTGAAG-TCG-ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGA
1 TTGAAGATTGCAGATCT-TACCTCCCTGTATTTGGCAGTGGAATAGA
* * * *
5262266 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG-CGAAGCAGA
1 TTGAAGATTGCAGATCTTACCTCCCTGTATTTGGCAGTGGAA-TAGA
** * *
5262312 TCAAAGATGGCAGATTTTACCTCCCTG
1 TTGAAGATTGCAGATCTTACCTCCCTG
5262339 ACTATAGTGG
Statistics
Matches: 117, Mismatches: 36, Indels: 16
0.69 0.21 0.09
Matches are distributed among these distances:
41 3 0.03
42 11 0.09
43 11 0.09
44 4 0.03
45 20 0.17
46 64 0.55
47 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (46 bp):
TTGAAGATTGCAGATCTTACCTCCCTGTATTTGGCAGTGGAATAGA
Found at i:5262372 original size:134 final size:134
Alignment explanation
Indices: 5262132--5262406 Score: 496
Period size: 134 Copynumber: 2.1 Consensus size: 134
5262122 GCAGAGGTGG
*
5262132 TTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
5262197 CCTCCCTGACTACAGTGGAGTACATTGAAGTCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
5262262 TAGA
131 TAGA
*
5262266 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
5262331 CCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
5262396 TAGA
131 TAGA
*
5262400 GTGAAGA
1 TTGAAGA
5262407 AAACCAGATC
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
TAGA
Found at i:5262459 original size:40 final size:40
Alignment explanation
Indices: 5262415--5262634 Score: 253
Period size: 40 Copynumber: 5.3 Consensus size: 40
5262405 GAAAACCAGA
*
5262415 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * * *
5262455 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT--CA-CATCAAG
5262498 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * * *
5262539 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG
*
5262582 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
*
5262623 TCTTGTCTCCCT
1 TCTTATCTCCCT
5262635 GAAGTTACAG
Statistics
Matches: 151, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 70 0.46
41 8 0.05
42 4 0.03
43 8 0.05
44 60 0.40
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
Found at i:5262501 original size:84 final size:84
Alignment explanation
Indices: 5262407--5262634 Score: 411
Period size: 84 Copynumber: 2.7 Consensus size: 84
5262397 AGAGTGAAGA
*
5262407 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
* *
5262472 GTAGTGGAGCAGATGAAAG
66 ATAGTGGAGCAGACGAAAG
5262491 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5262556 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
* *
5262575 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTACATCAAGTCTTGTCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
5262635 GAAGTTACAG
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 139 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
ATAGTGGAGCAGACGAAAG
Found at i:5262511 original size:44 final size:41
Alignment explanation
Indices: 5262406--5262613 Score: 249
Period size: 44 Copynumber: 5.0 Consensus size: 41
5262396 TAGAGTGAAG
* *
5262406 AAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATA
* * *
5262447 ACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAA
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT--A
*
5262489 AGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 A-AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATA
* * * * *
5262531 ACATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGACGAA
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA--TA
5262573 AGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 A-AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
5262614 TACATCAAGT
Statistics
Matches: 139, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
40 59 0.42
41 9 0.06
42 3 0.02
43 8 0.06
44 60 0.43
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATA
Found at i:5263813 original size:19 final size:19
Alignment explanation
Indices: 5263789--5263825 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5263779 CCAAGAAAAT
*
5263789 AAAATACAACCGGCCCAAA
1 AAAATACAAACGGCCCAAA
5263808 AAAATACAAACGGCCCAA
1 AAAATACAAACGGCCCAA
5263826 TTTTTAGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.30, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAATACAAACGGCCCAAA
Found at i:5265124 original size:24 final size:24
Alignment explanation
Indices: 5265079--5265142 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
5265069 TATATATATA
5265079 ATATTATTTATTTTAAAATTTTTT
1 ATATTATTTATTTTAAAATTTTTT
**
5265103 ATATTCATTTATTTTAAGTTTTCTTGT
1 ATATT-ATTTATTTTAAAATTT-TT-T
*
5265130 ATATTGTTTATTT
1 ATATTATTTATTT
5265143 GAACCTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.15
25 14 0.41
26 9 0.26
27 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (24 bp):
ATATTATTTATTTTAAAATTTTTT
Found at i:5265217 original size:2 final size:2
Alignment explanation
Indices: 5265210--5265245 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5265200 TAGATTGTTG
*
5265210 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5265246 TTTGTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:5265742 original size:109 final size:109
Alignment explanation
Indices: 5265551--5265819 Score: 421
Period size: 109 Copynumber: 2.5 Consensus size: 109
5265541 AAAAGTTTTA
* *
5265551 AATTAAGGCAATATTTCGCGTTTGGAAAATTTGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 AATTAAGGCAATATTTCGCGTTTGGAAAATTAGAGAAAACGTGCCCTAACGTGCTGAGTTTCGAT
* *
5265616 TTCTCGTTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
66 TTCTCATTCGACCAAATGGCCAAAAACCCTTTTAAACTTTCAAT
* *
5265660 AATTAAGGTAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGAGTTTCGAT
1 AATTAAGGCAATATTTCGCGTTTGGAAAATTAGAGAAAACGTGCCCTAACGTGCTGAGTTTCGAT
*
5265725 TTCTCATTCGGCCAAATGGCCAAAAACCCTTTTAAACTTTCAAT
66 TTCTCATTCGACCAAATGGCCAAAAACCCTTTTAAACTTTCAAT
* * ** *
5265769 AATAAAGGCAATATTCCGTATTTAGAAAATTAGAGAAAATCGTGCCCTAAC
1 AATTAAGGCAATATTTCGCGTTTGGAAAATTAGAGAAAA-CGTGCCCTAAC
5265820 TTATTGAGCT
Statistics
Matches: 146, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
109 135 0.92
110 11 0.08
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
AATTAAGGCAATATTTCGCGTTTGGAAAATTAGAGAAAACGTGCCCTAACGTGCTGAGTTTCGAT
TTCTCATTCGACCAAATGGCCAAAAACCCTTTTAAACTTTCAAT
Found at i:5268822 original size:9 final size:10
Alignment explanation
Indices: 5268808--5268877 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 10
5268798 AAAAGAGAGC
5268808 AAAAAAGCAA
1 AAAAAAGCAA
5268818 AAAAAAGCAAAA
1 AAAAAAGC--AA
5268830 AAGAAGAAGCAA
1 AA-AA-AAGCAA
*
5268842 AAAAACGAGAAA
1 AAAAA--AGCAA
5268854 ATAAAAAGCAA
1 A-AAAAAGCAA
*
5268865 AAAAAACCAA
1 AAAAAAGCAA
5268875 AAA
1 AAA
5268878 TAAAAGAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
10 20 0.40
11 7 0.14
12 13 0.26
13 6 0.12
14 4 0.08
ACGTcount: A:0.77, C:0.10, G:0.11, T:0.01
Consensus pattern (10 bp):
AAAAAAGCAA
Found at i:5268877 original size:23 final size:23
Alignment explanation
Indices: 5268809--5268882 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 23
5268799 AAAGAGAGCA
*
5268809 AAAAAGCAAAAAAAAGCAAAAA-
1 AAAAAGCAAAAAAAACCAAAAAT
*
5268831 AGAAGAAGC-AAAAAAACGAGAAAAT
1 A-AA-AAGCAAAAAAAACCA-AAAAT
5268856 AAAAAGCAAAAAAAACCAAAAAT
1 AAAAAGCAAAAAAAACCAAAAAT
5268879 AAAA
1 AAAA
5268883 GAAAGGACCT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
22 1 0.02
23 23 0.52
24 19 0.43
25 1 0.02
ACGTcount: A:0.77, C:0.09, G:0.11, T:0.03
Consensus pattern (23 bp):
AAAAAGCAAAAAAAACCAAAAAT
Found at i:5269278 original size:11 final size:11
Alignment explanation
Indices: 5269242--5269286 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
5269232 TACTTCACTT
*
5269242 GAAAA-AAAAT
1 GAAAAGAAAAA
5269252 GAAAAGAAAAA
1 GAAAAGAAAAA
5269263 GAGAAACGAAAAA
1 GA-AAA-GAAAAA
5269276 GAAAAGAAAAA
1 GAAAAGAAAAA
5269287 AGGAGATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 5 0.16
11 12 0.39
12 6 0.19
13 8 0.26
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:5269287 original size:13 final size:13
Alignment explanation
Indices: 5269244--5269306 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
5269234 CTTCACTTGA
5269244 AAAAAAATGAAAAG
1 AAAAAAA-GAAAAG
* *
5269258 AAAAAGAGAAACG
1 AAAAAAAGAAAAG
5269271 --AAAAAGAAAAG
1 AAAAAAAGAAAAG
* * *
5269282 AAAAAAGGAGATG
1 AAAAAAAGAAAAG
5269295 AAAAAAAGAAAA
1 AAAAAAAGAAAA
5269307 AGGAGAGGCC
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
11 9 0.24
13 22 0.59
14 6 0.16
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:5270621 original size:134 final size:134
Alignment explanation
Indices: 5270381--5270655 Score: 496
Period size: 134 Copynumber: 2.1 Consensus size: 134
5270371 GCAGAGGTGG
* *
5270381 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGAAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAAATCAAAGATGGAAGATTTTA
*
5270446 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
5270511 TAGA
131 TAGA
*
5270515 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAAATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAAATCAAAGATGGAAGATTTTA
*
5270580 CCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
5270645 TAGA
131 TAGA
*
5270649 GTGAAGA
1 TTGAAGA
5270656 AAACCAAATC
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAAATCAAAGATGGAAGATTTTA
CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
TAGA
Found at i:5270751 original size:84 final size:84
Alignment explanation
Indices: 5270656--5273796 Score: 3720
Period size: 84 Copynumber: 37.7 Consensus size: 84
5270646 AGAGTGAAGA
* *
5270656 AAACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
*
5270721 GTAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5270740 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTC-TATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
*
5270804 ATAG-GGAGCAGACAAAAG
66 ATAGTGGAGCAGACGAAAG
* *
5270822 AAACCAGATCTTATCTCTCTAAGCAGTAGT-GAGCAGATCACATCAAGTCTTATCTCCCTAGGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
*
5270886 GTAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5270905 AAACCAGATCTTATCTCCCT-AGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5270969 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
* * * *
5270988 ACACTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATGAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
* *
5271053 GTAGTGGAGCAGATC-ACATG
66 ATAGTGGAGCAGA-CGA-AAG
* * * *
5271073 --A--AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGGCGA-AAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCA---GATCA-CATCAAG-TCTTATCTCCCT
* *
5271132 AAGCAGTAGTGGAGCATATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * * *
5271153 CATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGACACGAGATCTCATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TCA--AG-TCTTATCTCCCT
* *
5271216 AAGCAGTAGTGGAGCAGATC-ACATG
61 AAGCAATAGTGGAGCAGA-CGA-AAG
* * *
5271241 --A--AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
* *
5271300 AAGCAGTAGTGGAGCATATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * *
5271321 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
*
5271384 AAGCAGTAGTGGAGCAGATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * * * *
5271405 CATCAAG-TTTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
* *
5271468 AAGCAGTAGTGGAGTAGATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * *
5271489 CATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGACAGCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TCA--AG-TCTTATCTCCCT
*
5271552 AAGCAGTAGTGGAGCAGATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * * *
5271573 CATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGACACCAGATCTCATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TCA--AG-TCTTATCTCCCT
* * *
5271636 GAGCAGTAGTGGAGCAGATC-ACATG
61 AAGCAATAGTGGAGCAGA-CGA-AAG
* * * *
5271661 --A--AG-TCTTATCTCCCAAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
* *
5271720 AAGCAGTAGTGGAGCATATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * *
5271741 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
*
5271804 AAGCAGTAGTGGAGCAGATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * * * *
5271825 CATCAAG-TTTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
* *
5271888 AAGCAGTAGTGGAGTAGATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * * *
5271909 CATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGACAGCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TCA--AG-TCTTATCTCCCT
*
5271972 AAGCAGTAGTGGAGCAGATC---A-
61 AAGCAATAGTGGAGCAGA-CGAAAG
* * * * ** * * *
5271993 CATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGCGAAAGACACCAAATCTCATCTCCCTAA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCA--G-ATCACATCAAGTCTTATCTCCCTAA
* *
5272057 GCAGTAGTGGAGCAGATC-ACATG
63 GCAATAGTGGAGCAGA-CGA-AAG
* * *
5272080 --A--AG-TCTTATCTCCC-AAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
*
5272138 AAGCAGTAGTGGAGCAGACGAAAG
61 AAGCAATAGTGGAGCAGACGAAAG
5272162 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCA-ATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272226 ATAGTGGAGCA-ACGAAAG
66 ATAGTGGAGCAGACGAAAG
5272244 -AACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCA-ATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
*
5272307 GTAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5272326 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGC-
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272390 A-AGT-GAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5272407 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272472 ATAGTGGAGCAGACG-AA-
66 ATAGTGGAGCAGACGAAAG
5272489 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272554 ATAGTGGAGCAGACGAAA-
66 ATAGTGGAGCAGACGAAAG
5272572 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272637 ATAGTGGAGCAG-CGAAAG
66 ATAGTGGAGCAGACGAAAG
5272655 -AACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCT-CCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272718 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
*
5272737 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATGAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272802 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5272821 -AACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272885 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5272904 -AACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5272968 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
*
5272987 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTTTTA-CTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273051 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5273070 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273135 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
*
5273154 ACACCAGATCTTATCTCCCTAAGCAGTAGT-GAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273218 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
* *
5273237 ACACCA-ATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
*
5273301 GTAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
*
5273320 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273385 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5273404 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273469 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5273488 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273553 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5273572 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273637 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
5273656 AAACCAGATCTTATCT-CCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
5273720 ATAGTGGAGCAGACGAAAG
66 ATAGTGGAGCAGACGAAAG
* * *
5273739 AAACCAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATTACATCAAGTCTTGTCTCC
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
5273797 TGAAGTTACG
Statistics
Matches: 2866, Mismatches: 107, Indels: 168
0.91 0.03 0.05
Matches are distributed among these distances:
79 1 0.00
80 28 0.01
81 200 0.07
82 284 0.10
83 842 0.29
84 1460 0.51
85 4 0.00
86 11 0.00
87 19 0.01
88 17 0.01
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (84 bp):
AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
ATAGTGGAGCAGACGAAAG
Found at i:5274111 original size:19 final size:19
Alignment explanation
Indices: 5274089--5274125 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5274079 CCCAAGAAAT
*
5274089 AAAATACAACCGGCCCAAA
1 AAAATACAAACGGCCCAAA
5274108 AAAATACAAACGGCCCAA
1 AAAATACAAACGGCCCAA
5274126 TTTTTATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.30, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAATACAAACGGCCCAAA
Found at i:5275404 original size:24 final size:24
Alignment explanation
Indices: 5275359--5275422 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
5275349 TATATATATA
5275359 ATATTATTTATTTTAAAATTTTTT
1 ATATTATTTATTTTAAAATTTTTT
**
5275383 ATATTCATTTATTTTAAGTTTTCTTGT
1 ATATT-ATTTATTTTAAAATTT-TT-T
*
5275410 ATATTGTTTATTT
1 ATATTATTTATTT
5275423 GAACCTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.15
25 14 0.41
26 9 0.26
27 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (24 bp):
ATATTATTTATTTTAAAATTTTTT
Found at i:5276018 original size:109 final size:109
Alignment explanation
Indices: 5275823--5276090 Score: 448
Period size: 109 Copynumber: 2.5 Consensus size: 109
5275813 AAAAGTTTTA
*
5275823 AATTAAGGCAATATTTCGCGTTTGGAAAATTTGAGAAAACGTG-CCTAACGTGCTGGGTTTCGAT
1 AATTAAGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
5275887 TTCTCATTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
66 TTCTCATTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
*
5275931 AATTAAGGTAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 AATTAAGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
5275996 TTCTCGTTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
66 TTCTCATTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
* * ** *
5276040 AATAAAGGCAATATTCCGTATTTAGAAAATTCGAGAAAATCGTGCCCTAAC
1 AATTAAGGCAATATTTCGCGTTTGGAAAATTCGAGAAAA-CGTGCCCTAAC
5276091 TTACTGAGCT
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
108 41 0.28
109 97 0.65
110 11 0.07
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (109 bp):
AATTAAGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCATTCGACCAAATGGCCAAATACCCTTTTAAACTTTCAAT
Found at i:5277589 original size:105 final size:105
Alignment explanation
Indices: 5277404--5277592 Score: 265
Period size: 105 Copynumber: 1.8 Consensus size: 105
5277394 GATACAGGGT
* *
5277404 TCCCGATTGGCTGTGATCCTGCATGTGTTGCAGACACACCATAGCTCTTACGAGCGTCCCTATAT
1 TCCCGATTGGCTGTGATCCTACATGTGTTGCAGACACACCACAGCTCTTACGAGCGTCCCTATAT
*
5277469 TTGGCTCTCACGAGCTTCCTGTTACTAGTTCTTTGGAGCA
66 ATGGCTCTCACGAGCTTCCTGTTACTAGTTCTTTGGAGCA
* ** * * *
5277509 TCCCGATTGGTTGTGATCCTACATGTGTTGTGGATACACCGCAGCTCTTATGAGCGT-CCTGATA
1 TCCCGATTGGCTGTGATCCTACATGTGTTGCAGACACACCACAGCTCTTACGAGCGTCCCT-ATA
5277573 TATGGCTCTC-CAGAGCTTCC
65 TATGGCTCTCAC-GAGCTTCC
5277593 CATTATATGG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
104 4 0.05
105 69 0.95
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (105 bp):
TCCCGATTGGCTGTGATCCTACATGTGTTGCAGACACACCACAGCTCTTACGAGCGTCCCTATAT
ATGGCTCTCACGAGCTTCCTGTTACTAGTTCTTTGGAGCA
Found at i:5277701 original size:25 final size:25
Alignment explanation
Indices: 5277552--5277749 Score: 83
Period size: 25 Copynumber: 8.0 Consensus size: 25
5277542 ATACACCGCA
* *
5277552 GCTCTTATGAGCGTCCTGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
*
5277577 GCTCTCCA-GAGCTTCCC-ATTATATG
1 GCTCT-TATGAGCTTCCCGA-TATATG
* * ** * *
5277602 GTTATTGCGAGGTTCTC-AT-TATG
1 GCTCTTATGAGCTTCCCGATATATG
* * *
5277625 GATCTTATGAGCTTCTCGATA-ATTA
1 GCTCTTATGAGCTTCCCGATATA-TG
*
5277650 GCTTTTCA-GAGCTTCCCGATA-ACTG
1 GCTCTT-ATGAGCTTCCCGATATA-TG
* *
5277675 GCTCTTATGAGCTTCTCGTTATATG
1 GCTCTTATGAGCTTCCCGATATATG
* *
5277700 GCTC-GATAGAGCTTCCCG-TTTATG
1 GCTCTTAT-GAGCTTCCCGATATATG
* *
5277724 TGCTCGTATGAGCATTCCTGA-ATATG
1 -GCTCTTATGAGC-TTCCCGATATATG
5277750 AATTGACGAA
Statistics
Matches: 130, Mismatches: 29, Indels: 27
0.70 0.16 0.15
Matches are distributed among these distances:
23 16 0.12
24 13 0.10
25 87 0.67
26 14 0.11
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:5280640 original size:63 final size:63
Alignment explanation
Indices: 5280528--5280660 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
5280518 GGTGTTTAAT
* * * * * *
5280528 ATGATTGTGAGTGCTATGGTGCTTGTGTAAAATAAATTGGTGTTGAAGGTGTT-GATGCAGGGA
1 ATGATTGGGAGTGCTATGGTACTTGTGTAAAATAAATTGGAGCTAAAGGTGTTAAAT-CAGGGA
* * *
5280591 ATGATTGGGCGTGCTATGGTATTTGTGTAAAATAAATTGGAGCTAAAGGTGTTAAATCGGGGA
1 ATGATTGGGAGTGCTATGGTACTTGTGTAAAATAAATTGGAGCTAAAGGTGTTAAATCAGGGA
5280654 ATGATTG
1 ATGATTG
5280661 TGCATATTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
63 58 0.97
64 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.34
Consensus pattern (63 bp):
ATGATTGGGAGTGCTATGGTACTTGTGTAAAATAAATTGGAGCTAAAGGTGTTAAATCAGGGA
Found at i:5281531 original size:8 final size:8
Alignment explanation
Indices: 5281518--5281542 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5281508 TTTTAAATGA
5281518 TATTTTAT
1 TATTTTAT
5281526 TATTTTAT
1 TATTTTAT
5281534 TATTTTAT
1 TATTTTAT
5281542 T
1 T
5281543 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:5284779 original size:7 final size:7
Alignment explanation
Indices: 5284755--5284859 Score: 93
Period size: 7 Copynumber: 15.0 Consensus size: 7
5284745 TTAAAAAAGT
5284755 AATTGAG
1 AATTGAG
*
5284762 AAATGAG
1 AATTGAG
*
5284769 AATTGAT
1 AATTGAG
*
5284776 AATTAAG
1 AATTGAG
5284783 AATTGAG
1 AATTGAG
*
5284790 GATTGAG
1 AATTGAG
*
5284797 GATTGAG
1 AATTGAG
*
5284804 GATTGAG
1 AATTGAG
* *
5284811 AAATGAA
1 AATTGAG
5284818 AATTGAG
1 AATTGAG
*
5284825 GATTGAG
1 AATTGAG
*
5284832 AATTTAG
1 AATTGAG
*
5284839 GATTGAG
1 AATTGAG
*
5284846 GATTGAG
1 AATTGAG
*
5284853 TATTGAG
1 AATTGAG
5284860 TTGAAAAGAA
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 80 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:5288672 original size:29 final size:29
Alignment explanation
Indices: 5288640--5288695 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
5288630 ATACGGATTT
*
5288640 GATCAAATTAGT-TCCTATATTATTAAATA
1 GATCAAATTAGTCT-CTATACTATTAAATA
*
5288669 GATCAATTTAGTCTCTATACTATTAAA
1 GATCAAATTAGTCTCTATACTATTAAA
5288696 AAGAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (29 bp):
GATCAAATTAGTCTCTATACTATTAAATA
Found at i:5291419 original size:20 final size:21
Alignment explanation
Indices: 5291396--5291445 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
5291386 AATTAAAGAT
**
5291396 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAAAGTTA
5291416 ATAAAAA-TATTTAAAAGTTA
1 ATAAAAATTATTTAAAAGTTA
*
5291436 TTAAAAATTA
1 ATAAAAATTA
5291446 GAAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAAAATTATTTAAAAGTTA
Found at i:5291462 original size:10 final size:11
Alignment explanation
Indices: 5291438--5291473 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5291428 AAAAGTTATT
*
5291438 AAAAATTAGAAA
1 AAAAATT-GTAA
5291450 AAAAATTGTAA
1 AAAAATTGTAA
5291461 AAAAATTGTAA
1 AAAAATTGTAA
5291472 AA
1 AA
5291474 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (11 bp):
AAAAATTGTAA
Found at i:5291492 original size:20 final size:20
Alignment explanation
Indices: 5291395--5291499 Score: 56
Period size: 20 Copynumber: 5.2 Consensus size: 20
5291385 CAATTAAAGA
*
5291395 TATAAAAATTATT-AAATTT
1 TATAAAAATAATTAAAATTT
*
5291414 TAATAAAAATATTTAAAAGTTAT
1 T-ATAAAAATAATTAAAA-TT-T
* ** *
5291437 TA-AAAATTAGAAAAAAAATTG
1 TATAAAA--ATAATTAAAATTT
*
5291458 TA-AAAAA-ATTGTAAAATTT
1 TATAAAAATAAT-TAAAATTT
*
5291477 TATAAAAATAATTAAAAATT
1 TATAAAAATAATTAAAATTT
5291497 TAT
1 TAT
5291500 CAAATATATA
Statistics
Matches: 64, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
18 1 0.02
19 10 0.16
20 25 0.39
21 15 0.23
22 5 0.08
23 8 0.12
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
TATAAAAATAATTAAAATTT
Found at i:5291566 original size:19 final size:18
Alignment explanation
Indices: 5291544--5291598 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
5291534 TTATAAAGTC
5291544 GTAAGAAAATTATAAAAAT
1 GTAA-AAAATTATAAAAAT
*
5291563 GTAAAGAAA-TATAAAATTT
1 GTAAA-AAATTATAAAA-AT
*
5291582 TTAAAAAATTATAAAAA
1 GTAAAAAATTATAAAAA
5291599 CTATTGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (18 bp):
GTAAAAAATTATAAAAAT
Found at i:5292413 original size:13 final size:13
Alignment explanation
Indices: 5292395--5292421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5292385 GAAAGAGAGA
5292395 TTTCCTTTTATTT
1 TTTCCTTTTATTT
5292408 TTTCCTTTTATTT
1 TTTCCTTTTATTT
5292421 T
1 T
5292422 CTTTTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCCTTTTATTT
Found at i:5298789 original size:7 final size:7
Alignment explanation
Indices: 5298772--5298822 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
5298762 ATTTCAAAAA
5298772 AAAAGATG
1 AAAA-ATG
5298780 AAAAATG
1 AAAAATG
5298787 -AAAATG
1 AAAAATG
5298793 AAAAATG
1 AAAAATG
5298800 AAAAAAATG
1 --AAAAATG
5298809 AAAAA-G
1 AAAAATG
5298815 TAAAAATG
1 -AAAAATG
5298823 GAGAGGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 5 0.13
9 7 0.18
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:5298793 original size:13 final size:13
Alignment explanation
Indices: 5298777--5298803 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5298767 AAAAAAAAAG
5298777 ATGAAAAATGAAA
1 ATGAAAAATGAAA
5298790 ATGAAAAATGAAA
1 ATGAAAAATGAAA
5298803 A
1 A
5298804 AAATGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:5298796 original size:22 final size:22
Alignment explanation
Indices: 5298780--5298822 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
5298770 AAAAAAGATG
5298780 AAAAATGAAAATGAAAAATGAA
1 AAAAATGAAAATGAAAAATGAA
*
5298802 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAATG-AAAAATG
5298823 GAGAGGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATGAAAATGAAAAATGAA
Found at i:5298820 original size:16 final size:16
Alignment explanation
Indices: 5298770--5298813 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
5298760 GAATTTCAAA
5298770 AAAAAAGATGAAAAATG
1 AAAAAA-ATGAAAAATG
5298787 ---AAAATGAAAAATG
1 AAAAAAATGAAAAATG
5298800 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
5298814 GTAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
16 11 0.46
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAAAATGAAAAATG
Found at i:5300180 original size:88 final size:88
Alignment explanation
Indices: 5300031--5300454 Score: 629
Period size: 88 Copynumber: 4.8 Consensus size: 88
5300021 TGAAGATAGC
** * * *
5300031 AGATCTTGCCTTCCCACATTGATAGCGAAACAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTG
*
5300096 TAGTGGAGCTGGTTAAAGACAAG
66 TAGTGGAGCTGGTTGAAGACAAG
* *
5300119 AGATCTTGTCTTCCTGTATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTG
5300184 TAGTGGAGCTGGTTGAAGACAAG
66 TAGTGGAGCTGGTTGAAGACAAG
* *
5300207 AGATCTTGTCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTTCCTCTCTC-GTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTG
*
5300271 TAGTGGAGCTGGTTGAAGACAAC
66 TAGTGGAGCTGGTTGAAGACAAG
* * *
5300294 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTC-CTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTG
*
5300358 TAGTGGAGCTGGTTGAAGA-TAG
66 TAGTGGAGCTGGTTGAAGACAAG
** * * *
5300380 CAGATCTTGCCTTCCTGCATCAACGGCGAAGCAGATCGAAAACACAAGCCTTGCCTCCCTCGGTT
1 -AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTT
*
5300445 GTAATGGAGC
65 GTAGTGGAGC
5300455 AGATCAAAGA
Statistics
Matches: 308, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
86 4 0.01
87 151 0.49
88 153 0.50
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTG
TAGTGGAGCTGGTTGAAGACAAG
Found at i:5300391 original size:43 final size:42
Alignment explanation
Indices: 5300067--5300391 Score: 145
Period size: 44 Copynumber: 7.5 Consensus size: 42
5300057 GAAACAGATC
* * *
5300067 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
1 GAAGACACAGATCTTGCCTC-CTCAGTTGTAGTGGAGCTGGTT
* * * * * * * * * *
5300110 AAAGACAAGAGATCTTGTCTTCCTGTA-TTGACAGCGAAGCAGATC
1 GAAGAC-ACAGATCTTG-CCTCCT-CAGTTG-TAGTGGAGCTGGTT
* * * *
5300155 GAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
1 GAAGACACAGATCTTGCCTC-CTCAGTTGTAGTGGAGCTGGTT
* * * * * * * *
5300198 GAAGACAAGAGATCTTGTCTTCCTGCA-TTGACAGCGAAGCAGATC
1 GAAGAC-ACAGATCTTG-CCTCCT-CAGTTG-TAGTGGAGCTGGTT
* * * *
5300243 GAAAACACAAACCTTTCCTCTCTC-GTTGTAGTGGAGCTGGTT
1 GAAGACACAGATCTTGCCTC-CTCAGTTGTAGTGGAGCTGGTT
* * * * *
5300285 GAAGACAACAGATCTTGCCTTCCTGCA-TTGACAGCGAAGCAGGTC
1 GAAGAC-ACAGATCTTGCC-TCCT-CAGTTG-TAGTGGAGCTGGTT
* *
5300330 GAAGACACAAACCTTGCCTCCTCAGTTGTAGTGGAGCTGGTT
1 GAAGACACAGATCTTGCCTCCTCAGTTGTAGTGGAGCTGGTT
*
5300372 GAAGATAGCAGATCTTGCCT
1 GAAGACA-CAGATCTTGCCT
5300392 TCCTGCATCA
Statistics
Matches: 193, Mismatches: 70, Indels: 38
0.64 0.23 0.13
Matches are distributed among these distances:
42 30 0.16
43 56 0.29
44 60 0.31
45 47 0.24
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (42 bp):
GAAGACACAGATCTTGCCTCCTCAGTTGTAGTGGAGCTGGTT
Found at i:5300518 original size:44 final size:44
Alignment explanation
Indices: 5300470--5300560 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
5300460 AAAGATGGTG
** *
5300470 AATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAAT
1 AATTTTACCTCCCTAAGATTACAATGGAGTACATTGAAGCCAAT
* * *
5300514 AATTTTACCTCCCTAAGGTTACAATGGAGTATATTGAAGCCACT
1 AATTTTACCTCCCTAAGATTACAATGGAGTACATTGAAGCCAAT
5300558 AAT
1 AAT
5300561 CCTATCTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (44 bp):
AATTTTACCTCCCTAAGATTACAATGGAGTACATTGAAGCCAAT
Found at i:5300580 original size:44 final size:44
Alignment explanation
Indices: 5300475--5300586 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
5300465 TGGTGAATTT
** **
5300475 TACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTT
1 TACCTCCCTAAGATTACAGTGGAGTACATTGAAGCCAATAATCC
* * * *
5300519 TACCTCCCTAAGGTTACAATGGAGTATATTGAAGCCACTAATCC
1 TACCTCCCTAAGATTACAGTGGAGTACATTGAAGCCAATAATCC
* *
5300563 TATCTTCCTGAA-ATTACAGTGGAG
1 TACCTCCCT-AAGATTACAGTGGAG
5300587 CGGATTAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 53 0.96
45 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
TACCTCCCTAAGATTACAGTGGAGTACATTGAAGCCAATAATCC
Found at i:5301261 original size:17 final size:17
Alignment explanation
Indices: 5301224--5301262 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
5301214 GACTCCTCCT
* * *
5301224 CGCGCGTGTTGTGCCTG
1 CGCGCGTGTAGTACCTC
5301241 CGCGCGTGTAGTACCTC
1 CGCGCGTGTAGTACCTC
5301258 CGCGC
1 CGCGC
5301263 CAAATCCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.36, G:0.36, T:0.23
Consensus pattern (17 bp):
CGCGCGTGTAGTACCTC
Found at i:5302112 original size:6 final size:6
Alignment explanation
Indices: 5302100--5302147 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
5302090 CTACTTTTCC
* *
5302100 TTTTAT TTCTAT TTGTAGT GTTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTA-T -TTTTAT TTTTAT TTTTAT TTTTAT TTTT
5302148 GAATGTCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 31 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:5310397 original size:15 final size:15
Alignment explanation
Indices: 5310377--5310412 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5310367 AGTGTTATAT
5310377 TTATTGTGATTGTTA
1 TTATTGTGATTGTTA
*
5310392 TTATTGTTATTGTTA
1 TTATTGTGATTGTTA
5310407 -TATTGT
1 TTATTGT
5310413 CATTTGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (15 bp):
TTATTGTGATTGTTA
Found at i:5318452 original size:18 final size:19
Alignment explanation
Indices: 5318429--5318466 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
5318419 GGAAGCAAGC
*
5318429 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
5318447 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
5318466 A
1 A
5318467 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:5330574 original size:2 final size:2
Alignment explanation
Indices: 5330567--5330607 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
5330557 GAATTTATAA
*
5330567 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5330608 AAAATGCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5330796 original size:30 final size:29
Alignment explanation
Indices: 5330762--5330839 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 29
5330752 CCAATATCTC
5330762 GATACCCATATCTTTGACTTTCCTATATTT
1 GATACCCATATCTTTGACTTTCCT-TATTT
5330792 GATACCCATATCTTTGAC--T--TTATTT
1 GATACCCATATCTTTGACTTTCCTTATTT
* *
5330817 GATTCCCATATCATTGACTTTCC
1 GATACCCATATCTTTGACTTTCC
5330840 ATAAATATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 21 0.50
26 1 0.02
27 1 0.02
28 1 0.02
30 18 0.43
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (29 bp):
GATACCCATATCTTTGACTTTCCTTATTT
Found at i:5330807 original size:15 final size:15
Alignment explanation
Indices: 5330762--5330808 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
5330752 CCAATATCTC
5330762 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
5330777 GACTTTCC-TATATTT
1 GA-TACCCATATCTTT
5330792 GATACCCATATCTTT
1 GATACCCATATCTTT
5330807 GA
1 GA
5330809 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:5334377 original size:18 final size:18
Alignment explanation
Indices: 5334350--5334389 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5334340 ATATTACTAC
5334350 ATTT-TATACC-TTATAT
1 ATTTATATACCTTTATAT
5334366 GATTTATATACCTTTATAT
1 -ATTTATATACCTTTATAT
5334385 ATTTA
1 ATTTA
5334390 AGAACTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTATATACCTTTATAT
Found at i:5337829 original size:30 final size:31
Alignment explanation
Indices: 5337783--5337846 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
5337773 ATTTCTTATG
5337783 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
5337814 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
5337844 CCA
1 CCA
5337847 TAAATATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.27, C:0.28, G:0.06, T:0.39
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:5337838 original size:15 final size:15
Alignment explanation
Indices: 5337793--5337839 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
5337783 CCAATATCTC
5337793 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
5337808 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
5337823 GATACCCATATCTTT
1 GATACCCATATCTTT
5337838 GA
1 GA
5337840 CTTTCCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:5339116 original size:22 final size:19
Alignment explanation
Indices: 5339094--5339144 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
5339084 TATATATATT
5339094 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
5339114 TTTAAAACATATTGATAATAA
1 TTTAAAAAATATTGAT-A-AA
5339135 TTTAAAAAAT
1 TTTAAAAAAT
5339145 GGATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:5340861 original size:21 final size:22
Alignment explanation
Indices: 5340832--5340890 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
5340822 TACACCAAAA
*
5340832 TAGGTCTTTAGCGGCG-TTTTT
1 TAGGCCTTTAGCGGCGTTTTTT
5340853 TAGGCCTTTAGCGGCGTTTTTT
1 TAGGCCTTTAGCGGCGTTTTTT
*
5340875 TAGGCCTTTTGCGGCG
1 TAGGCCTTTAGCGGCG
5340891 CTTCCACAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.08, C:0.19, G:0.31, T:0.42
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGTTTTTT
Found at i:5341014 original size:42 final size:41
Alignment explanation
Indices: 5340957--5341072 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 41
5340947 GTTTACAAAC
5340957 AAAAAC-CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-A
*
5340998 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA
* * *
5341039 GAAAACGCCGCAAAAGATCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
5341073 ATTTTTCTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
41 37 0.54
42 32 0.46
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA
Found at i:5341089 original size:41 final size:42
Alignment explanation
Indices: 5341044--5341193 Score: 185
Period size: 42 Copynumber: 3.6 Consensus size: 42
5341034 TTAGAGAAAA
* * * * *
5341044 CGCCGCAAAAGATCATGTTCTTTAGCGGCATTTTTCT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTATAAG
* **
5341085 CGCCGCTAAAGAACATGGTCTTTAGAGATGTTTTTTTATAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTATAAG
* *
5341127 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTATAAG
* *
5341169 CGCCACTAAAGAACATGTTCTTTAG
1 CGCCGCTAAAGAACATGGTCTTTAG
5341194 TTGCGCTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 29 0.31
42 64 0.69
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTATAAG
Found at i:5341544 original size:21 final size:21
Alignment explanation
Indices: 5341518--5341583 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
5341508 TTTTGCTCTG
*
5341518 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
5341539 CTCTGCTTCCCTCGCTACAG-
1 CTCTGCTTCCCTCGCTGCAGC
*
5341559 CTGC-GCTTCCCTCGCTGCCGC
1 CT-CTGCTTCCCTCGCTGCAGC
5341580 CTCT
1 CTCT
5341584 ACTTTAAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 17 0.45
21 21 0.55
ACGTcount: A:0.05, C:0.47, G:0.18, T:0.30
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:5342777 original size:19 final size:19
Alignment explanation
Indices: 5342741--5342793 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
5342731 ATGTATCAAT
5342741 TTTTAAATATATA-T-AAA
1 TTTTAAATATATATTAAAA
5342758 TTTTAAATATATATTAAAA
1 TTTTAAATATATATTAAAA
* * *
5342777 TTATATATAAATATTAA
1 TTTTAAATATATATTAA
5342794 TAAGTTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 17 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTAAATATATATTAAAA
Found at i:5342837 original size:16 final size:16
Alignment explanation
Indices: 5342816--5342867 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
5342806 TATAAATTTA
5342816 AATTATGTAAGTTATG
1 AATTATGTAAGTTATG
5342832 AATTATGTAAGTTATG
1 AATTATGTAAGTTATG
* *
5342848 TAAATTACGTAAATTATG
1 --AATTATGTAAGTTATG
5342866 AA
1 AA
5342868 ATTTGAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
18 14 0.44
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (16 bp):
AATTATGTAAGTTATG
Found at i:5342846 original size:9 final size:9
Alignment explanation
Indices: 5342814--5342870 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
5342804 ATTATAAATT
5342814 TAAATTATG
1 TAAATTATG
*
5342823 TAAGTTATG
1 TAAATTATG
5342832 --AATTATG
1 TAAATTATG
*
5342839 TAAGTTATG
1 TAAATTATG
*
5342848 TAAATTACG
1 TAAATTATG
5342857 TAAATTATG
1 TAAATTATG
5342866 -AAATT
1 TAAATT
5342871 TGAACTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.15
8 5 0.12
9 29 0.73
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (9 bp):
TAAATTATG
Found at i:5344604 original size:44 final size:44
Alignment explanation
Indices: 5344541--5344631 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
5344531 TGGAAGGAGA
5344541 AAGGAGGCGATTTAGGGATTTGGGATTTCAAGAAATTCGACAAG
1 AAGGAGGCGATTTAGGGATTTGGGATTTCAAGAAATTCGACAAG
* * *
5344585 AAGGAGGCGATTTAGGGATTTGGTATTTCAAGAAATTGGGCAAG
1 AAGGAGGCGATTTAGGGATTTGGGATTTCAAGAAATTCGACAAG
5344629 AAG
1 AAG
5344632 ATTATTCAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.08, G:0.33, T:0.25
Consensus pattern (44 bp):
AAGGAGGCGATTTAGGGATTTGGGATTTCAAGAAATTCGACAAG
Found at i:5345848 original size:15 final size:15
Alignment explanation
Indices: 5345828--5345857 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5345818 CAAACCTAAA
5345828 TCTTAAACCCCAAAC
1 TCTTAAACCCCAAAC
*
5345843 TCTTAAACCCTAAAC
1 TCTTAAACCCCAAAC
5345858 CAAAACACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
TCTTAAACCCCAAAC
Found at i:5346383 original size:115 final size:115
Alignment explanation
Indices: 5346188--5346398 Score: 302
Period size: 115 Copynumber: 1.8 Consensus size: 115
5346178 AAAACTGTGC
*
5346188 GTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAAGTGCCGCTAATAATATGCTTTAGCGGCGA
1 GTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAAGCGCCGCTAATAATATGCTTTAGCGGCGA
* *
5346253 TTTCTCGTGAACGCCACTAATTCTAGTATACATCAAGACTTAAACACAGT
66 TTTCTCATGAACGCCACTAATTCTAATATACATCAAGACTTAAACACAGT
* * * *
5346303 GTTTTGGTTAATATATTTTGCGGCGCTT-CTAAAAATGCGCCGCTAATAGTATGCTTTTGCGGCG
1 GTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAA-GCGCCGCTAATAATATGCTTTAGCGGCG
*
5346367 -TTTATCCAT-AAGCGCCACTAATTCTAATATAC
65 ATTTCT-CATGAA-CGCCACTAATTCTAATATAC
5346399 CCCAAGACCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
114 12 0.14
115 73 0.86
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (115 bp):
GTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAAGCGCCGCTAATAATATGCTTTAGCGGCGA
TTTCTCATGAACGCCACTAATTCTAATATACATCAAGACTTAAACACAGT
Found at i:5346592 original size:74 final size:73
Alignment explanation
Indices: 5346494--5346630 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 73
5346484 CTAGTAAGCA
5346494 CCACTAACTATAGTATACATCAAGACCAAAACGCTG-AGTTTTGGTTAAGAAATTTAGCGGCGCT
1 CCACTAACTATAGTATACATCAAGACC-AAACGCTGCA-TTTTGGTTAAGAAATTTAGCGGCGCT
5346558 TCTCCAAACG
64 TCTCCAAACG
* * * * *
5346568 CCACTAATTCTAGTATAC-TACAAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCT
1 CCACTAACTATAGTATACAT-CAAGACCAAACGCTGCATTTTGGTTAAGAAATTTAGCGGCGCT
5346631 ACTAAACAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
73 32 0.57
74 24 0.43
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (73 bp):
CCACTAACTATAGTATACATCAAGACCAAACGCTGCATTTTGGTTAAGAAATTTAGCGGCGCTTC
TCCAAACG
Found at i:5348965 original size:17 final size:16
Alignment explanation
Indices: 5348943--5348992 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
5348933 ATAGGTTCAA
5348943 TTATTAAATTATTTATT
1 TTATT-AATTATTTATT
*
5348960 TTATTAATTGTTTATTT
1 TTATTAATTATTTA-TT
* *
5348977 TTAATAATTATATATT
1 TTATTAATTATTTATT
5348993 ACTTAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATTAATTATTTATT
Found at i:5348973 original size:16 final size:17
Alignment explanation
Indices: 5348943--5348977 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5348933 ATAGGTTCAA
5348943 TTATTAAATTATTTATT
1 TTATTAAATTATTTATT
*
5348960 TTATT-AATTGTTTATT
1 TTATTAAATTATTTATT
5348976 TT
1 TT
5348978 TAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTAAATTATTTATT
Found at i:5349579 original size:29 final size:29
Alignment explanation
Indices: 5349547--5349621 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
5349537 AAATAATCAA
** *
5349547 TAAAAGTTATAAAAGTTA-TTAAATTTTAT
1 TAAAA-TTATAAAAAATATTTAAATTTTAG
*
5349576 TAAAAATATAAAAAATATTTAAATTTTAG
1 TAAAATTATAAAAAATATTTAAATTTTAG
*
5349605 TAAAAATTAGAAAAAAT
1 T-AAAATTATAAAAAAT
5349622 TATAAAAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 9 0.24
29 16 0.42
30 13 0.34
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.37
Consensus pattern (29 bp):
TAAAATTATAAAAAATATTTAAATTTTAG
Found at i:5349586 original size:28 final size:29
Alignment explanation
Indices: 5349565--5349621 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
5349555 ATAAAAGTTA
*
5349565 TTAAATTTTATTAAAAATATAAAAAATAT
1 TTAAATTTTAGTAAAAATATAAAAAATAT
*
5349594 TTAAATTTTAGTAAAAATTAGAAAAAAT
1 TTAAATTTTAGTAAAAA-TATAAAAAAT
5349622 TATAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTAAATTTTAGTAAAAATATAAAAAATAT
Found at i:5349627 original size:19 final size:19
Alignment explanation
Indices: 5349605--5349644 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5349595 TAAATTTTAG
5349605 TAAAAAT-TAGAAAAAATTA
1 TAAAAATCT-GAAAAAATTA
*
5349624 TAAAAATCTTAAAAAATTA
1 TAAAAATCTGAAAAAATTA
5349643 TA
1 TA
5349645 GAATACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAAAATCTGAAAAAATTA
Found at i:5349627 original size:29 final size:29
Alignment explanation
Indices: 5349557--5349627 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
5349547 TAAAAGTTAT
* *
5349557 AAAAGTTATTAAATTTTATTAAAAATATAA
1 AAAAATTA-TAAATTTTAGTAAAAATATAA
5349587 AAAATATT-TAAATTTTAGTAAAAAT-TAGA
1 AAAA-ATTATAAATTTTAGTAAAAATATA-A
5349616 AAAAATTATAAA
1 AAAAATTATAAA
5349628 AATCTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 5 0.14
29 25 0.69
30 4 0.11
31 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAAATTATAAATTTTAGTAAAAATATAA
Found at i:5360588 original size:21 final size:22
Alignment explanation
Indices: 5360557--5360600 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
5360547 TTAGAGCATC
*
5360557 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
5360579 AGTCC-ATGAACAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
5360600 A
1 A
5360601 ATCATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATGGAGTCA
Found at i:5362560 original size:23 final size:22
Alignment explanation
Indices: 5362502--5362562 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
5362492 GTATATAATT
*
5362502 AAAATCTATGATGAAATTGTTTA
1 AAAAT-TATGATAAAATTGTTTA
* ** *
5362525 AAAATAAAAATAAAATTTTATTA
1 AAAATTATGATAAAATTGT-TTA
5362548 AAAATTATGATAAAA
1 AAAATTATGATAAAA
5362563 GAATATATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
AAAATTATGATAAAATTGTTTA
Found at i:5362589 original size:16 final size:16
Alignment explanation
Indices: 5362550--5362591 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
5362540 TTTTATTAAA
5362550 AATTATGATAAAAGAAT
1 AATTAT-ATAAAAGAAT
*
5362567 -ATATATATAATAGAAT
1 AAT-TATATAAAAGAAT
5362583 AATTATATA
1 AATTATATA
5362592 TGATTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (16 bp):
AATTATATAAAAGAAT
Found at i:5365537 original size:4 final size:4
Alignment explanation
Indices: 5365528--5365570 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
5365518 AGACTTAAAA
*
5365528 TATG TATG TATT TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
5365571 ACGTATGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:5365856 original size:18 final size:19
Alignment explanation
Indices: 5365833--5365870 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
5365823 AAAATATGGG
*
5365833 AAATGT-ATGTGTATTTTA
1 AAATGTCATGTATATTTTA
5365851 AAATGTGCATGTATATTTTA
1 AAATGT-CATGTATATTTTA
5365871 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGTCATGTATATTTTA
Found at i:5366050 original size:3 final size:3
Alignment explanation
Indices: 5366042--5366101 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
5366032 ATTACAAGAT
* * *
5366042 TAA TAA TAA TAA TAA TAAA TAA TAT TAG TAC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5366088 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
5366102 GTAAACTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5366765 original size:19 final size:18
Alignment explanation
Indices: 5366728--5366767 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
5366718 GTGATTCACC
* *
5366728 TTCAATTTTTCTTTGTAT
1 TTCAATTTTTCTCTCTAT
5366746 TTCAATATTTTCTCTCTAT
1 TTCAAT-TTTTCTCTCTAT
5366765 TTC
1 TTC
5366768 TCTCTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCAATTTTTCTCTCTAT
Found at i:5367118 original size:18 final size:18
Alignment explanation
Indices: 5367085--5367132 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
5367075 GGGCTTAGGA
**
5367085 TAGTTTGGGCTTGTTTAAT
1 TAGTTTGGGCCCGTTT-AT
5367104 T-GTTTGGGCCCGTTTAT
1 TAGTTTGGGCCCGTTTAT
*
5367121 TAGTTAGGGCCC
1 TAGTTTGGGCCC
5367133 AGGCATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 21 0.84
19 1 0.04
ACGTcount: A:0.12, C:0.15, G:0.29, T:0.44
Consensus pattern (18 bp):
TAGTTTGGGCCCGTTTAT
Found at i:5367649 original size:44 final size:44
Alignment explanation
Indices: 5367600--5367719 Score: 170
Period size: 44 Copynumber: 2.7 Consensus size: 44
5367590 GATCTGTGGT
* * *
5367600 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTTTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTA
* *
5367644 TTTAATCTGCTCCACTGCAACTTCAAGGAGATATGATTATTTTA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTA
*
5367688 TTCT-GTCTGCTCCACTGCAACTTCAGGGAGAT
1 TT-TAATCTGCTCCACTGCAACTTCAGGGAGAT
5367720 CAGACTTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 67 0.99
45 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTA
Found at i:5367807 original size:44 final size:44
Alignment explanation
Indices: 5367730--5368658 Score: 773
Period size: 44 Copynumber: 21.0 Consensus size: 44
5367720 CAGACTTGTA
* * *** *
5367730 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* * *
5367775 TCTTTGATATACTTCATGCCAATACATGAAGACAAGATC--CTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
** * *
5367817 TCTTTTATTTACTTCATGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
5367861 TCTTCGATCTAGTTCACGCCAATACATAAAGACAAAATATGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
5367905 TCTTTGATCTACTTCAC-CACCA-GCATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGC-CAATACAT--GAAGACAAGATCTGCTT
** * *
5367950 TCTTCGATCTACTTCACGCCGGTACATTAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * **
5367994 TCTTCAACCTACTTCACGCTAATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
5368038 TCCTCGACCTACTTCACGCCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * * * * *
5368082 TCTCCGATTTGCTTCACACCAATACATAAAGACAAGACCAGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * *
5368126 TCTTCGATCTACTT--CGCCACTAGTATGGGAAGATAAGATTTTCTT
1 TCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTT
* * *** * *
5368171 TCTTCGATCTACTTTGC-CACCAGTATGGGAAGATAAGATCTGCTA
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTT
* * * *
5368216 TCTTC-ATTCTAATTCACGTCAATACTTGAAGACAAGATCTACTT
1 TCTTCGA-TCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
5368260 TCTTCGATCTACTTCTCGCCAAAACATGAAGACAAGATTTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
5368304 TCTTCGATCTACTTCACGCCAAAACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
5368348 TCTTCAATCTATTTCACGCCAATACATGACGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * * * * *
5368392 TCTTTGATCTAATTCGCCACCAATATAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* * *
5368437 TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *** * *
5368481 TCTTCGATCTACTCTGC-CACCAGTATGGGAAGACAAGATCTACTA
1 TCTTCGATCTACT-T-CACGCCAATACATGAAGACAAGATCTGCTT
** * *
5368526 TCTTCGATCTACTTCACGCCAATACATGGGGACAACATATGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * ****
5368570 TCTTC-ATTCTACTTTGC-CACCAGTTTGGGAAGACAAGATCTGCTT
1 TCTTCGA-TCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTT
* *
5368615 TCTTTGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
5368659 CGTTTTAACC
Statistics
Matches: 706, Mismatches: 153, Indels: 51
0.78 0.17 0.06
Matches are distributed among these distances:
42 45 0.06
43 10 0.01
44 445 0.63
45 190 0.27
46 9 0.01
47 1 0.00
48 6 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:5368574 original size:266 final size:261
Alignment explanation
Indices: 5367728--5368654 Score: 794
Period size: 266 Copynumber: 3.5 Consensus size: 261
5367718 ATCAGACTTG
* * *** * * * *
5367728 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATATACTTCATG
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACG
* ** * **
5367793 CCAATACATGAAGACAAGATC--CTTTCTTTTATTTACTTCATGCCAATACATGAAGACAAGATC
65 CCAAAACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATC
* * * * * ** * *
5367856 TGCTTTCTTCGATCTAGTTC-ACGCCAATACATAAAGACAAAATATGCTTTCTTTGATCTACTTC
130 TACTTTCTTCGATCTAATTCGCCACCAATATAGGAAGACAAGATATACTTTCTTTGATCTACTTC
** * *
5367920 ACCACCAGCATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGGTACATT-AAGACA
195 ACCAATA-CAT--GAAGACAAGATCTGCTATCTTCGATCTACTTC-CACCAGT--ATTGAAGACA
**
5367984 AGATCTGT
254 AGATCTAC
* * * * ** * *
5367992 TTTCTTCAACCTACTTCACGCTAATACATGAAGACAAGATCTATTTTCCTCGACCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * * * * * *
5368057 CAATACATGAAGACAAGATCTACTTTCTCCGATTTGCTTCACACCAATACATAAAGACAAGA-CC
66 CAAAACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCT
* * * * * * * * *
5368121 AGCTATCTTCGATCTACTTCGCCACTAGTATGGGAAGATAAGATTTTCTTTCTTCGATCTACTTT
131 A-CTTTCTTCGATCTAATTCGCCACCAATATAGGAAGACAAGATATACTTTCTTTGATCTAC-TT
* *** * * *
5368186 GCCACCAGTATGGGAAGATAAGATCTGCTATCTTC-ATTCTAATT-CACGTCAATACTTGAAGAC
194 --CACCAATACATGAAGACAAGATCTGCTATCTTCGA-TCTACTTCCAC--CAGTA-TTGAAGAC
5368249 AAGATCTAC
253 AAGATCTAC
* * * * *
5368258 TTTCTTCGATCTACTTCTCGCCAAAACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * * *
5368323 CAAAACATGAAGACAAGATCTGCTTTCTTCAATCTATTTCACGCCAATACATGACGACAAGATCT
66 CAAAACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCT
* * *
5368388 ACTTTCTTTGATCTAATTCGCCACCAATATAGGAAGACAAGATCTACTATCTTTGATCTACTTCA
131 ACTTTCTTCGATCTAATTCGCCACCAATATAGGAAGACAAGATATACTTTCTTTGATCTACTTCA
* * *
5368453 CGCTAATACATGAAGACAAGATCTACTTTCTTCGATCTACTCTGCCACCAGTATGGGAAGACAAG
196 C-C-AATACATGAAGACAAGATCTGCTATCTTCGATCTACT-T-CCACCAGTAT-TGAAGACAAG
5368518 ATCTAC
256 ATCTAC
** * * *
5368524 TATCTTCGATCTACTTCACGCCAATACATGGGGACAACATATGCTTTCTTC-ATTCTACTT--TG
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA-TCTACTTCACG
* *** *
5368586 CCACCAGTTTGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCACACCAATACATGAAGACAAG
65 CCA-AAACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAG
5368651 ATCT
127 ATCT
5368655 GCTTCGTTTT
Statistics
Matches: 527, Mismatches: 112, Indels: 45
0.77 0.16 0.07
Matches are distributed among these distances:
263 57 0.11
264 23 0.04
265 85 0.16
266 297 0.56
267 56 0.11
268 3 0.01
269 6 0.01
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (261 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
CAAAACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCT
ACTTTCTTCGATCTAATTCGCCACCAATATAGGAAGACAAGATATACTTTCTTTGATCTACTTCA
CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCCACCAGTATTGAAGACAAGATCTA
C
Found at i:5368658 original size:89 final size:89
Alignment explanation
Indices: 5367730--5368658 Score: 633
Period size: 89 Copynumber: 10.5 Consensus size: 89
5367720 CAGACTTGTA
* * *** * * *
5367730 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATATAC-TT--CAT
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCA-
* *
5367792 GCCAATACATGAAGACAAGATC--CTT
64 -CCAATATAGGAAGACAAGATCTACTT
** * * * *
5367817 TCTTTTATTTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTA-GTT-CACGC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGC-CAC
* ** * * *
5367880 CAATACATAAAGACAAAATATGCTT
65 CAATATAGGAAGACAAGATCTACTT
* * * *
5367905 TCTTTGATCTACTTCAC-CACCA-GCATGGGAAGACAAGATCTGCTATCTTCGATCTAC-TT-CA
1 TCTTCGATCTACTTCACGC-CAATACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTTGC-
* ** * ** **
5367966 CGCCGGTACATTAAGACAAGATCTGTTT
62 CACCAATATAGGAAGACAAGATCTACTT
* * * ** * * *
5367994 TCTTCAACCTACTTCACGCTAATACATGAAGACAAGATCTATTTTCCTCGACCTAC-TT-CACGC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGC-CAC
* *
5368057 CAATACATGAAGACAAGATCTACTT
65 CAATATAGGAAGACAAGATCTACTT
* * * * * * * * * *
5368082 TCTCCGATTTGCTTCACACCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCGCCACT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACC
* * * * *
5368147 AGTATGGGAAGATAAGATTTTCTT
66 AATATAGGAAGACAAGATCTACTT
* * *** * * *
5368171 TCTTCGATCTACTTTGC-CACCAGTATGGGAAGATAAGATCTGCTATCTTC-ATTCTA-ATT--C
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA-TCTACTTTGCC
*
5368231 ACGTCAATACT-TGAAGACAAGATCTACTT
63 AC--CAATA-TAGGAAGACAAGATCTACTT
* * * * *
5368260 TCTTCGATCTACTTCTCGCCAAAACATGAAGACAAGATTTGTTTTCTTCGATCTAC-TT-CACGC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGC-CAC
* * * *
5368323 CAAAACATGAAGACAAGATCTGCTT
65 CAATATAGGAAGACAAGATCTACTT
* * * * * * *
5368348 TCTTCAATCTATTTCACGCCAATACATGACGACAAGATCTACTTTCTTTGATCTAATTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACC
*
5368413 AATATAGGAAGACAAGATCTACTA
66 AATATAGGAAGACAAGATCTACTT
* * * *
5368437 TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTACTTTCTTCGATCTACTCTGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACC
* * *
5368502 AGTATGGGAAGACAAGATCTACTA
66 AATATAGGAAGACAAGATCTACTT
** * *
5368526 TCTTCGATCTACTTCACGCCAATACATGGGGACAACATATGCTTTCTTC-ATTCTACTTTGCCAC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA-TCTACTTTGCCAC
* * * *
5368590 CAGTTTGGGAAGACAAGATCTGCTT
65 CAATATAGGAAGACAAGATCTACTT
* *
5368615 TCTTTGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
5368659 CGTTTTAACC
Statistics
Matches: 667, Mismatches: 147, Indels: 54
0.77 0.17 0.06
Matches are distributed among these distances:
86 51 0.08
87 20 0.03
88 211 0.32
89 344 0.52
90 40 0.06
91 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACC
AATATAGGAAGACAAGATCTACTT
Found at i:5369963 original size:7 final size:7
Alignment explanation
Indices: 5369945--5369987 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
5369935 CCCATTTTAC
5369945 TTTTCTAT
1 TTTTC-AT
*
5369953 TTTTCAG
1 TTTTCAT
5369960 TTTTCA-
1 TTTTCAT
5369966 TTTTCACT
1 TTTTCA-T
5369974 TTTTCAT
1 TTTTCAT
5369981 TTTTCAT
1 TTTTCAT
5369988 CTCATCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.19
7 15 0.47
8 11 0.34
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTTCAT
Found at i:5369968 original size:14 final size:15
Alignment explanation
Indices: 5369945--5369986 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5369935 CCCATTTTAC
5369945 TTTTCTATTTTTCA-G
1 TTTTC-ATTTTTCACG
*
5369960 TTTTCA-TTTTCACT
1 TTTTCATTTTTCACG
5369974 TTTTCATTTTTCA
1 TTTTCATTTTTCA
5369987 TCTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 7 0.29
15 11 0.46
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTCATTTTTCACG
Found at i:5372868 original size:19 final size:19
Alignment explanation
Indices: 5372828--5372872 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5372818 ACCACTTTTT
* *
5372828 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
5372847 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
5372866 ATGCAAA
1 ATGCAAA
5372873 AAGAGACGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:5374886 original size:4 final size:4
Alignment explanation
Indices: 5374877--5374948 Score: 130
Period size: 4 Copynumber: 18.5 Consensus size: 4
5374867 TGACTTAAAA
5374877 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5374925 TATG TATG TATG TA-- TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
5374949 AAAATTATGG
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
4 64 0.97
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5375410 original size:3 final size:3
Alignment explanation
Indices: 5375402--5375453 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
5375392 ATTACAAGAT
* *
5375402 TAA TAA TAA TAA TAAA TAAA TAA TAA TAG TAC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5375449 TAA TA
1 TAA TA
5375454 GTAAACTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
3 38 0.84
4 7 0.16
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5376115 original size:19 final size:18
Alignment explanation
Indices: 5376078--5376117 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
5376068 GTGATTCACC
* *
5376078 TTCAATTTTTCTTTGTAT
1 TTCAATTTTTCTCTCTAT
5376096 TTCAATATTTTCTCTCTAT
1 TTCAAT-TTTTCTCTCTAT
5376115 TTC
1 TTC
5376118 TCTTTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCAATTTTTCTCTCTAT
Found at i:5377023 original size:44 final size:43
Alignment explanation
Indices: 5376968--5377103 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 43
5376958 GCCCTCTACC
* *
5376968 ACTTCAAAGAGATAAGATCTGTGGT-TTTAATTTGCTCCACTGCA
1 ACTTC-AAGAGATAAGAT-TATGGTCTTTAATCTGCTCCACTGCA
* **
5377012 ACTTCAGAGAGATAGGATTATTTTCTTTAATCTGCTCCACTGCA
1 ACTTCA-AGAGATAAGATTATGGTCTTTAATCTGCTCCACTGCA
* ** * *
5377056 ACTTCAAGGAGATAGGATTATTTTATTCT-GTCTGCTCCACTGCA
1 ACTTCAA-GAGATAAGATTATGGTCTT-TAATCTGCTCCACTGCA
5377100 ACTT
1 ACTT
5377104 TAGGGAGATC
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
43 5 0.06
44 75 0.93
45 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (43 bp):
ACTTCAAGAGATAAGATTATGGTCTTTAATCTGCTCCACTGCA
Found at i:5377111 original size:44 final size:44
Alignment explanation
Indices: 5376993--5377112 Score: 170
Period size: 44 Copynumber: 2.7 Consensus size: 44
5376983 GATCTGTGGT
* * *
5376993 TTTAATTTGCTCCACTGCAACTTCAGAGAGATAGGATTATTTTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTA
*
5377037 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAGGATTATTTTA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTA
* *
5377081 TTCT-GTCTGCTCCACTGCAACTTTAGGGAGAT
1 TT-TAATCTGCTCCACTGCAACTTCAGGGAGAT
5377113 CAGACTTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 67 0.99
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTA
Found at i:5377204 original size:44 final size:44
Alignment explanation
Indices: 5377123--5378050 Score: 847
Period size: 44 Copynumber: 21.0 Consensus size: 44
5377113 CAGACTTGTA
* * *** * *
5377123 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTCCTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* *
5377168 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATC--CTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
5377210 TCTTTGATTTACTTCATC-CCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
*
5377254 TCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *** *
5377298 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
* * *
5377343 TCTTCGATCTATTTCACGCCAGTACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * **
5377387 TCTTCAATCTACTTCATGCCAATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
5377431 TCCTT-GATCTACTTTATGCCAATACATGAAGACAAGATCTAG-TT
1 T-CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-GCTT
* * * * * *
5377475 TC-TC-ATGTCTGCTTCACACCAATACATAAAGACAAGACCAGCTA
1 TCTTCGA--TCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
5377519 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * ** * * *
5377563 TCTTCGATCAACTTGA--CCACTGGTATGGGAAGATAAGATCAGCTA
1 TCTTCGATCTACTTCACGCCAAT-ACAT--GAAGACAAGATCTGCTT
* * *
5377608 TCTTCGATCTACTTCACGTCAATACGTGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
5377652 TCTTCGATTTACTTCTCGCCAAAACATGAAGACAAGATCTG-TT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
5377695 TACTTTGATCTACTTCACGCCAAAACATGAAGACAAGATCTTCTT
1 T-CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
5377740 TCTTCGATCTATTTCATGCCAATACATGAAGACAATATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * *
5377784 TCTTTGATCTACTTCGCCACCAATATA-GAAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACGCCAATACATG-AAGACAAGATCTGCTT
* * *
5377829 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *** * *
5377873 TCTTCGAACTAC-TCTGCGACCAGTATGGGAAGCCAAGATCTGCTA
1 TCTTCGATCTACTTC-ACG-CCAATACATGAAGACAAGATCTGCTT
* * ** * * *
5377918 TCTTTGATCTACTTCACGCTAATACATGGGGATAATATATGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * **** **
5377962 TCTTCGATCTACTTTGC-CACCAGTTTGGGAAGACAAGATCTATTT
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTT
5378007 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
5378051 CTTTTTAACC
Statistics
Matches: 705, Mismatches: 149, Indels: 59
0.77 0.16 0.06
Matches are distributed among these distances:
42 44 0.06
43 11 0.02
44 462 0.66
45 180 0.26
46 5 0.01
47 3 0.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:5377532 original size:221 final size:220
Alignment explanation
Indices: 5377123--5378053 Score: 891
Period size: 221 Copynumber: 4.2 Consensus size: 220
5377113 CAGACTTGTA
* * *** * * *
5377123 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTCCTATCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCC
* * *
5377188 AATACATGAAGACAAGATC--CTTTCTTTGATTTACTTCATC-CCAATACATGAAGACAAGATCT
65 AATACATGAAGACAAGATCTACTTTCTTCGATCTACTTTA-CGCCAATACATGAAGACAAGATCT
* * *
5377250 GCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTTTCTTCGATCTACTTCAC
129 GCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTTTCTTCGATCTACTTCA-
* ** *
5377315 CACCAGTATGGGAAGACAAGATCTGCTA
193 CACCAATACAGGAAGACAAGATCTGCTT
* * * * * *
5377343 TCTTCGATCTATTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCATGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA
* *
5377408 ATACATGAAGACAAGATCTATTTTCCTT-GATCTACTTTATGCCAATACATGAAGACAAGATCTA
66 ATACATGAAGACAAGATCTACTTT-CTTCGATCTACTTTACGCCAATACATGAAGACAAGATCT-
* * * * * *
5377472 G-TTTCTCATG-TCTGCTTCACACCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCA
129 GCTTTCT-TTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTTTCTTCGATCTACTTCA
* * *
5377535 CGCCAATACATGAAGACAAGATTTGCTT
193 CACCAATACAGGAAGACAAGATCTGCTT
* * * ** * *
5377563 TCTTCGATCAACTTGA--CCACTGGTATGGGAAGATAAGATCAGCTATCTTCGATCTACTTCACG
1 TCTTCGATCTACTTCACGCCAAT-ACAT--GAAGACAAGATCTGCTATCTTCGATCTACTTCACG
* * * *
5377626 TCAATACGTGAAGACAAGATCTACTTTCTTCGATTTACTTCT-CGCCAAAACATGAAGACAAGAT
63 CCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTT-TACGCCAATACATGAAGACAAGAT
* ** *
5377690 CTG-TTTACTTTGATCTACTTCACGCCAAAACATGAAGACAAGATCTTCTTTCTTCGATCTATTT
127 CTGCTTT-CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTTTCTTCGATCTACTT
** * *
5377754 CATGCCAATACATGAAGACAATATCTGCTT
191 CACACCAATACAGGAAGACAAGATCTGCTT
* * * * *
5377784 TCTTTGATCTACTTCGCCACCAATATA-GAAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
1 TCTTCGATCTACTTC-ACGCCAATACATG-AAGACAAGATCTGCTATCTTCGATCTACTTCACGC
* * * * * *** *
5377848 CAATACATGAAGACAAGATTTACTTTCTTCGAACTACTCTGCGACCAGTATGGGAAGCCAAGATC
64 CAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTTACG-CCAATACATGAAGACAAGATC
* * ** * *
5377913 TGCTATCTTTGATCTACTTCACGCTAATACATGGGGATAATAT-ATGCTTTCTTCGATCTACTTT
128 TGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCA-GCTTTCTTCGATCTAC-TT
* *** **
5377977 GC-CACCAGTTTGGGAAGACAAGATCTATTT
191 -CACACCAATACAGGAAGACAAGATCTGCTT
5378007 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
5378054 TTTAACCTGC
Statistics
Matches: 579, Mismatches: 108, Indels: 47
0.79 0.15 0.06
Matches are distributed among these distances:
218 4 0.01
219 59 0.10
220 59 0.10
221 322 0.56
222 91 0.16
223 39 0.07
224 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (220 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTACTTTCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGC
TTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTTTCTTCGATCTACTTCACAC
CAATACAGGAAGACAAGATCTGCTT
Found at i:5377640 original size:265 final size:264
Alignment explanation
Indices: 5377151--5377845 Score: 835
Period size: 265 Copynumber: 2.6 Consensus size: 264
5377141 ACCAATATGG
** * *
5377151 GAAGACAAGATCTCCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATC-CTTTCTTT
1 GAAGACAAGATCTATTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTCTTTCTAT
* * * * *
5377215 GATTTACTTCATCCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
66 GATCTACTTCATCCCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCACGCCAATACA
* *
5377280 TGAAGACAAAATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATC
131 TGAAGACAAAATCTGCTTTCTTCGATCAACTTCACCACCAGTATGGGAAGACAAGATCAGCTATC
* * **
5377345 TTCGATCTATTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCAT-GCCAA
196 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCAATCTACTTC-TCGCCAA
*
5377409 TACAT
260 AACAT
* * *
5377414 GAAGACAAGATCTATTTTCCTTGATCTACTTTATGCCAATACATGAAGACAAGATCTAGTTTCTC
1 GAAGACAAGATCTATTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCT-CTTTCT-
*
5377479 ATG-TCTGCTTCA-CACCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCACGCCAAT
64 ATGATCTACTTCATC-CCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCACGCCAAT
* * * ** *
5377542 ACATGAAGACAAGATTTGCTTTCTTCGATCAACTTGACCACTGGTATGGGAAGATAAGATCAGCT
128 ACATGAAGACAAAATCTGCTTTCTTCGATCAACTTCACCACCAGTATGGGAAGACAAGATCAGCT
* * * *
5377607 ATCTTCGATCTACTTCACGTCAATACGTGAAGACAAGATCTACTTTCTTCGATTTACTTCTCGCC
193 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCAATCTACTTCTCGCC
5377672 AAAACAT
258 AAAACAT
* * * *
5377679 GAAGACAAGATCTGTTTACTTTGATCTACTTCACGCCAAAACATGAAGACAAGATCTTCTTTCT-
1 GAAGACAAGATCTATTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATC-TCTTTCTA
* * * * * * * * * *
5377743 TCGATCTATTTCATGCCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCGCCACCAAT
65 T-GATCTACTTCATCCCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTC-ACGCCAAT
* * * * *
5377808 ATA-GAAAGACAAGATCTGCTATCTTTGATCTACTTCAC
128 ACATG-AAGACAAAATCTGCTTTCTTCGATCAACTTCAC
5377846 GCCAATACAT
Statistics
Matches: 367, Mismatches: 54, Indels: 19
0.83 0.12 0.04
Matches are distributed among these distances:
263 52 0.14
264 3 0.01
265 273 0.74
266 39 0.11
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (264 bp):
GAAGACAAGATCTATTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTCTTTCTAT
GATCTACTTCATCCCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCACGCCAATACA
TGAAGACAAAATCTGCTTTCTTCGATCAACTTCACCACCAGTATGGGAAGACAAGATCAGCTATC
TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCAATCTACTTCTCGCCAAA
ACAT
Found at i:5377858 original size:89 final size:88
Alignment explanation
Indices: 5377123--5378050 Score: 847
Period size: 89 Copynumber: 10.5 Consensus size: 88
5377113 CAGACTTGTA
* * *** * * * *
5377123 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTCCTATCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
5377188 AATACATGAAGACAAGATC--CTT
65 AATACATGAAGACAAGATCTGCTT
* *
5377210 TCTTTGATTTACTTCATC-CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
*
5377274 AATACATGAAGACAAAATCTGCTT
65 AATACATGAAGACAAGATCTGCTT
* * *** * *
5377298 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTATTTCACGCC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
* *
5377363 AGTACATGAAGACAAGATCTGTTT
65 AATACATGAAGACAAGATCTGCTT
* * ** * *
5377387 TCTTCAATCTACTTCATGCCAATACATGAAGACAAGATCTATTTTCCTT-GATCTACTTTATGCC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT-CTTCGATCTACTTCACGCC
5377451 AATACATGAAGACAAGATCTAG-TT
65 AATACATGAAGACAAGATCT-GCTT
* * * * * *
5377475 TC-TC-ATGTCTGCTTCACACCAATACATAAAGACAAGACCAGCTATCTTCGATCTACTTCACGC
1 TCTTCGA--TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
*
5377538 CAATACATGAAGACAAGATTTGCTT
64 CAATACATGAAGACAAGATCTGCTT
* * * ** * * *
5377563 TCTTCGATCAACTTGA--CCACTGGTATGGGAAGATAAGATCAGCTATCTTCGATCTACTTCACG
1 TCTTCGATCTACTTCACGCCAAT-ACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCACG
* * *
5377626 TCAATACGTGAAGACAAGATCTACTT
63 CCAATACATGAAGACAAGATCTGCTT
* * * *
5377652 TCTTCGATTTACTTCTCGCCAAAACATGAAGACAAGATCTG-TTTACTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT-CTTCGATCTACTTCACGCC
* *
5377716 AAAACATGAAGACAAGATCTTCTT
65 AATACATGAAGACAAGATCTGCTT
* * * * * *
5377740 TCTTCGATCTATTTCATGCCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCC
* *
5377805 AATATA-GAAAGACAAGATCTGCTA
65 AATACATG-AAGACAAGATCTGCTT
* * * * *
5377829 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTACTTTCTTCGAACTAC-TCTGCGAC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACG-C
* *** * *
5377893 CAGTATGGGAAGCCAAGATCTGCTA
64 CAATACATGAAGACAAGATCTGCTT
* * ** * * * *
5377918 TCTTTGATCTACTTCACGCTAATACATGGGGATAATATATGCTTTCTTCGATCTACTTTGC-CAC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC-TT-CACGC
* **** **
5377982 CAGTTTGGGAAGACAAGATCTATTT
64 CAATACATGAAGACAAGATCTGCTT
5378007 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
5378051 CTTTTTAACC
Statistics
Matches: 690, Mismatches: 125, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
86 62 0.09
87 24 0.03
88 247 0.36
89 347 0.50
90 5 0.01
91 4 0.01
92 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (88 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTGCTT
Found at i:5377973 original size:178 final size:178
Alignment explanation
Indices: 5377195--5378044 Score: 470
Period size: 177 Copynumber: 4.8 Consensus size: 178
5377185 GCCAATACAT
* * * * *
5377195 GAAGACAAGATC--CTTTCTTTGATTTACTTCATC-CCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAATATATGCTTTCT
* * * * * * *
5377257 TCGATCTACTTC-ACGCCAATACATG-AAGACAAAATCTGCTTTCTTCGATCTACTTCACCACCA
65 TCGATCTACTTCGCCACCAATATA-GAAAGACAAGATCTACTATCTTCGATCTACTTCA-CGCCA
* *** * * * * * * ***
5377320 GTATGGGAAGACAAGATCTGCTATCTTCGATCTA-TTTCACG-CCAGTACAT
128 ATACATGAAGACAAGATTTACTTTCTTCGAACTACTCT-GCGACCAGTATGG
* * * * * * **
5377370 GAAGACAAGATCTGTTTTCTTCAATCTACTTCATGCCAATACATGAAGACAAGATCTATTTTCCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGCTTT-CT
**** * * * * *
5377435 T-GATCTACTT-TATGCCAATACATG-AAGACAAGATCTAGTTTC-TC-ATGTCTGCTTCACACC
65 TCGATCTACTTCGCCACCAATATA-GAAAGACAAGATCTACTATCTTCGA--TCTACTTCACGCC
* ** * * * * ***
5377495 AATACATAAAGACAAGA-CCAGCTATCTTCGATCTACT-TCACG-CCAATACAT
127 AATACATGAAGACAAGATTTA-CTTTCTTCGAACTACTCT-GCGACCAGTATGG
* * * * * ** * * *
5377546 GAAGACAAGATTTGCTTTCTTCGATCAACTTGA--CCACTGGTATGGGAAGATAAGATCA-GCTA
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAAT-ACAT--GAAGACAATAT-ATGCTT
* ** * * *
5377608 TCTTCGATCTACTTC-ACGTCAATACGT-G-AAGACAAGATCTACTTTCTTCGATTTACTTCTCG
62 TCTTCGATCTACTTCGCCACCAATA--TAGAAAGACAAGATCTACTATCTTCGATCTACTTCACG
* * * * * * ** ***
5377670 CCAAAACATGAAGACAAGATCT-GTTTACTTTGATCTACT-TCACG-CCAAAACAT
125 CCAATACATGAAGACAAGATTTACTTT-CTTCGAACTACTCT-GCGACCAGTATGG
* * * * *
5377723 GAAGACAAGATCTTCTTTCTTCGATCTATTTCATGCCAATACATGAAGACAATATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGCTTTCTT
* * *
5377788 TGATCTACTTCGCCACCAATATAGAAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA
66 CGATCTACTTCGCCACCAATATAGAAAGACAAGATCTACTATCTTCGATCTACTTCACGCCAATA
5377853 CATGAAGACAAGATTTACTTTCTTCGAACTACTCTGCGACCAGTATGG
131 CATGAAGACAAGATTTACTTTCTTCGAACTACTCTGCGACCAGTATGG
* * * ** *
5377901 GAAGCCAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGGGGATAATATATGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGCTTTCTT
* * * * * * *
5377966 CGATCTACTTTGCCACCAGTTTGGGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATA
66 CGATCTACTTCGCCACCAATATAGAAAGACAAGATCTACTATCTTCGATCTACTTCACGCCAATA
5378031 CATGAAGACAAGAT
131 CATGAAGACAAGAT
5378045 CTGCTTCTTT
Statistics
Matches: 544, Mismatches: 101, Indels: 57
0.77 0.14 0.08
Matches are distributed among these distances:
174 4 0.01
175 17 0.03
176 105 0.19
177 274 0.50
178 139 0.26
179 5 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (178 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGCTTTCTT
CGATCTACTTCGCCACCAATATAGAAAGACAAGATCTACTATCTTCGATCTACTTCACGCCAATA
CATGAAGACAAGATTTACTTTCTTCGAACTACTCTGCGACCAGTATGG
Found at i:5382187 original size:19 final size:19
Alignment explanation
Indices: 5382147--5382191 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5382137 ACCGCTTTTT
* *
5382147 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
5382166 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
5382185 ATGCAAA
1 ATGCAAA
5382192 AAGAGACGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Done.