Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 17 of 290
Found at i:5351970 original size:46 final size:46
Alignment explanation
Indices: 5351914--5352086 Score: 249
Period size: 46 Copynumber: 3.8 Consensus size: 46
5351904 GTAACCGCCT
* * **
5351914 ATAAGCGAACTCGGACTAAACTCAACAAGCTCGGGTGTTCGCATCC
1 ATAAGTGAACTCGGACTAAACTCAACGAGCTCGGACGTTCGCATCC
*
5351960 ATAAGTGAACTCGGAC-ATAACTCAACGAGTTCGGACGTTCGCATCC
1 ATAAGTGAACTCGGACTA-AACTCAACGAGCTCGGACGTTCGCATCC
* *
5352006 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCC
1 ATAAGTGAACTCGGACTAAACTCAACGAGCTCGGACGTTCGCATCC
* *
5352052 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
1 ATAAGTGAACTCGGACTAAACTCAACGAGCTCGGA
5352087 TGCCCAAATA
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.01
46 116 0.99
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTAAACTCAACGAGCTCGGACGTTCGCATCC
Found at i:5357333 original size:43 final size:43
Alignment explanation
Indices: 5357266--5357384 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
5357256 AACTCGTACA
*
5357266 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACATGTAAACAAATAT-G
* * * *
5357309 ATGCCACTGTCCCAGACAGT-GTCTTACACGAAAACATATATG
1 ATGCCAATGTCCCAGACAGTGGTCTTACATGTAAACAAATATG
*
5357351 ATGTCAATGTCCCAGACA-TGGTCTTACATGTAAA
1 ATGCCAATGTCCCAGACAGTGGTCTTACATGTAAA
5357385 TCTTAAATCG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 33 0.51
44 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGTGGTCTTACATGTAAACAAATATG
Found at i:5357368 original size:42 final size:44
Alignment explanation
Indices: 5357266--5357436 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 44
5357256 AACTCGTACA
* * *
5357266 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGAAAACAAATATCG
* *
5357309 ATGCCACTGTCCCAGACAGT-GTCTTACACGAAAACATATAT-G
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGAAAACAAATATCG
* * * *
5357351 ATGTCAATGTCCCAGACA-TGGTCTTACATGTAAATCTTAA-ATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACG-AAAAC-AAATATCG
* * * *
5357395 ATACCAACGTCCCA-A-ATGTGTTCTTACACGAAAACACATATC
1 ATGCCAATGTCCCAGACA-GTGGTCTTACACGAAAACAAATATC
5357437 AGAATCCTAT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 47 0.47
44 25 0.25
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGTGGTCTTACACGAAAACAAATATCG
Found at i:5358517 original size:13 final size:13
Alignment explanation
Indices: 5358499--5358523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5358489 CACAAACGAT
5358499 AAAATTTTCACAC
1 AAAATTTTCACAC
5358512 AAAATTTTCACA
1 AAAATTTTCACA
5358524 GATATCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:5358785 original size:20 final size:20
Alignment explanation
Indices: 5358760--5358798 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
5358750 TGATGGCACC
5358760 AAATCTTAAGCATGAATACT
1 AAATCTTAAGCATGAATACT
5358780 AAATCTTAAGCATGAATAC
1 AAATCTTAAGCATGAATAC
5358799 CATAGCAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
AAATCTTAAGCATGAATACT
Found at i:5365676 original size:16 final size:16
Alignment explanation
Indices: 5365655--5365685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5365645 GCAAATCTCG
*
5365655 AAATGCCGAAAAGCTT
1 AAATGCCAAAAAGCTT
5365671 AAATGCCAAAAAGCT
1 AAATGCCAAAAAGCT
5365686 AGAACTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
AAATGCCAAAAAGCTT
Found at i:5365943 original size:28 final size:28
Alignment explanation
Indices: 5365903--5366033 Score: 192
Period size: 28 Copynumber: 4.7 Consensus size: 28
5365893 ATTGCATGAT
*
5365903 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
5365931 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
5365959 TATGAATGTGATTGGG-CTTAGTGGGCCA
1 TATGAATGTGATTGGGCCTGA-TGGGCCA
**
5365987 TATGAATGTGATTGGGCCCAATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
5366015 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
5366034 AAAGGGGCCA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
27 3 0.03
28 88 0.95
29 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:5367329 original size:17 final size:18
Alignment explanation
Indices: 5367296--5367329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5367286 TTTAAAGAAG
5367296 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
5367314 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
5367330 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:5373755 original size:75 final size:76
Alignment explanation
Indices: 5373612--5373765 Score: 292
Period size: 75 Copynumber: 2.0 Consensus size: 76
5373602 AATAGTCTTT
5373612 CGAGTGCGTGATACGTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATCATTCTTGAAACT
1 CGAGTGCGTGATACGTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATCATTCTTGAAACT
5373677 AAATATTATCA
66 AAATATTATCA
*
5373688 CGAGTGCGTGATACGTGATATTCGCGACA-GTTTTTAAAATTTATAATTAATCATTCTTGAAACT
1 CGAGTGCGTGATACGTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATCATTCTTGAAACT
5373752 AAATATTATCA
66 AAATATTATCA
5373763 CGA
1 CGA
5373766 TGAAGGCATG
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 48 0.62
76 29 0.38
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (76 bp):
CGAGTGCGTGATACGTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATCATTCTTGAAACT
AAATATTATCA
Found at i:5374498 original size:16 final size:17
Alignment explanation
Indices: 5374477--5374509 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5374467 TCTCAAAAGA
*
5374477 ATAAAGATAA-CAAAAC
1 ATAAAGAAAACCAAAAC
5374493 ATAAAGAAAACCAAAAC
1 ATAAAGAAAACCAAAAC
5374510 TTCTAAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.09
Consensus pattern (17 bp):
ATAAAGAAAACCAAAAC
Found at i:5376813 original size:26 final size:25
Alignment explanation
Indices: 5376784--5376841 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
5376774 ATAAAACCTA
5376784 AAAATGAAAAAATA-TTAAAGGAAAAT
1 AAAAT-AAAAAATACTTAAA-GAAAAT
* *
5376810 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAATACTTAAAGAAAAT
5376835 -AAATAAA
1 AAAATAAA
5376842 GATAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (25 bp):
AAAATAAAAAATACTTAAAGAAAAT
Found at i:5376818 original size:25 final size:28
Alignment explanation
Indices: 5376784--5376848 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 28
5376774 ATAAAACCTA
5376784 AAAATGAAAAAATA-TTAAAG-GA-AAAT
1 AAAAT-AAAAAATACTTAAAGAGATAAAT
*
5376810 AAAATAAAAAGTACTTAAAGAAGATAAAT
1 AAAATAAAAAATACTTAAAG-AGATAAAT
5376839 AAAGATAAAA
1 AAA-ATAAAA
5376849 GTAAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.21
26 11 0.33
28 2 0.06
29 7 0.21
30 6 0.18
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (28 bp):
AAAATAAAAAATACTTAAAGAGATAAAT
Found at i:5390927 original size:12 final size:12
Alignment explanation
Indices: 5390910--5390934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5390900 ACGACATAGA
5390910 CCGTGTGGTAGG
1 CCGTGTGGTAGG
5390922 CCGTGTGGTAGG
1 CCGTGTGGTAGG
5390934 C
1 C
5390935 TGTTTACGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.20, G:0.48, T:0.24
Consensus pattern (12 bp):
CCGTGTGGTAGG
Found at i:5394511 original size:104 final size:104
Alignment explanation
Indices: 5394331--5394520 Score: 371
Period size: 104 Copynumber: 1.8 Consensus size: 104
5394321 CTCAATTAGA
*
5394331 AGGGGAAAATGAGGAATCTATGGCTAGGGCATCGATTGTGAAGGGAAAAGGTAAAGGAAAAGGGA
1 AGGGGAAAATAAGGAATCTATGGCTAGGGCATCGATTGTGAAGGGAAAAGGTAAAGGAAAAGGGA
5394396 AAGGGCTTGATGTTGGTAGTAAAGGTAGCCACAATCAGG
66 AAGGGCTTGATGTTGGTAGTAAAGGTAGCCACAATCAGG
5394435 AGGGGAAAATAAGGAATCTATGGCTAGGGCATCGATTGTGAAGGGAAAAGGTAAAGGAAAAGGGA
1 AGGGGAAAATAAGGAATCTATGGCTAGGGCATCGATTGTGAAGGGAAAAGGTAAAGGAAAAGGGA
5394500 AAGGGCTTGATGTTGGTAGTA
66 AAGGGCTTGATGTTGGTAGTA
5394521 GGCTCAAGGT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 85 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.19
Consensus pattern (104 bp):
AGGGGAAAATAAGGAATCTATGGCTAGGGCATCGATTGTGAAGGGAAAAGGTAAAGGAAAAGGGA
AAGGGCTTGATGTTGGTAGTAAAGGTAGCCACAATCAGG
Found at i:5399348 original size:10 final size:10
Alignment explanation
Indices: 5399333--5399367 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
5399323 TTTGTACATA
5399333 ATATGCCATG
1 ATATGCCATG
5399343 ATATGCACATG
1 ATATGC-CATG
5399354 ATATGCCATG
1 ATATGCCATG
5399364 ATAT
1 ATAT
5399368 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:5399352 original size:21 final size:21
Alignment explanation
Indices: 5399328--5399367 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5399318 ACTGATTTGT
5399328 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
5399349 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
5399368 ATACATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:5399373 original size:21 final size:20
Alignment explanation
Indices: 5399327--5399379 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
5399317 TACTGATTTG
*
5399327 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
5399348 CACATGATATGCCATGATATA
1 TACAT-ATATGCCATGATATA
5399369 TACATATATGC
1 TACATATATGC
5399380 ATGGGTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:5399441 original size:25 final size:25
Alignment explanation
Indices: 5399413--5399482 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
5399403 GAGGAAGTGC
*
5399413 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
5399438 AAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
5399463 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
5399483 ATTAAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:5411605 original size:13 final size:13
Alignment explanation
Indices: 5411587--5411612 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5411577 ATATTATAAT
5411587 TATTTTATGTTAA
1 TATTTTATGTTAA
5411600 TATTTTATGTTAA
1 TATTTTATGTTAA
5411613 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:5412660 original size:40 final size:40
Alignment explanation
Indices: 5412601--5412738 Score: 242
Period size: 40 Copynumber: 3.5 Consensus size: 40
5412591 CGGATGATAA
*
5412601 CCGGGCTAAGTCCCAAAGGCAATTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
5412641 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
*
5412681 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
*
5412721 CC-GGCTAATTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
5412739 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
Found at i:5417333 original size:40 final size:40
Alignment explanation
Indices: 5417256--5417473 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
5417246 AAACCAAGTA
* *
5417256 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
5417295 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5417335 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
5417375 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
5417415 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
5417455 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
5417474 TTATCATCCG
Statistics
Matches: 166, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:5420208 original size:55 final size:54
Alignment explanation
Indices: 5420113--5420262 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
5420103 CTACTTTGTT
* ** * *
5420113 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
5420167 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
5420222 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
5420263 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:5420225 original size:27 final size:27
Alignment explanation
Indices: 5420085--5420262 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
5420075 TAAATTGTAC
5420085 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
5420112 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
5420138 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
5420166 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
5420194 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
5420221 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
5420248 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5420263 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:5420226 original size:82 final size:81
Alignment explanation
Indices: 5420086--5420241 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
5420076 AAATTGTACA
* * * *
5420086 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
5420151 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
5420167 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
5420230 TGTGCGAGTTGA
63 TGTGCGAATTGA
5420242 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:5423237 original size:43 final size:43
Alignment explanation
Indices: 5423189--5423356 Score: 146
Period size: 43 Copynumber: 3.9 Consensus size: 43
5423179 ATCAAGATGT
* *
5423189 GATTACATGTAAGAACATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
5423232 GATTACACGTAAGACCATGTCTGTGG-CATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTG-GGACATTGGCATCG-TATTGA
* * * * * *
5423275 GATTTCATGTAAGACCTTGTCTCGGACAGTGTCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * * *
5423318 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
5423357 GAGCTTATGT
Statistics
Matches: 98, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 83 0.85
44 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:5437747 original size:48 final size:48
Alignment explanation
Indices: 5437695--5437961 Score: 238
Period size: 48 Copynumber: 5.5 Consensus size: 48
5437685 TGGCCACATA
* * *
5437695 ATGAGAACAAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTT
1 ATGAGACCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAT
* * * *
5437743 ATGAGACCCAGAGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGAG
1 ATGAGACCAAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTGAT
* * * * * *
5437791 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAC
1 ATGAGACCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAT
* *
5437839 ATGTGAGCCAA-TGTAAGACCATGTTTGGAACATGGCATCGGTATTGTTAT
1 ATGAGA-CCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG--AT
* * * * * *
5437889 ATGTG-TCAA-TGTAAGACCATGTCTGGGACATGGCATCGACATCGATGT
1 ATGAGACCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA--T
*
5437937 ATGAGAGCCAA-TGTAAAACCATGTT
1 ATGAGA-CCAAGTGTAAGACCATGTT
5437962 CGAGACATGA
Statistics
Matches: 178, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 148 0.83
49 5 0.03
50 21 0.12
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
ATGAGACCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAT
Found at i:5437826 original size:96 final size:96
Alignment explanation
Indices: 5437695--5437961 Score: 265
Period size: 96 Copynumber: 2.8 Consensus size: 96
5437685 TGGCCACATA
* * * **
5437695 ATGAGAACAAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT-GTTATGAGACCCAGA-GTA
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATCGACATGAGACCCA-ATGTA
5437758 AGACCATGTCTAGG-ACATGGCATCGGCATTGAG
64 AGACCATGT-TAGGAACATGGCATCGGCATTGAG
* * *
5437791 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGAGACCCAATGTAAG
* * **
5437856 ACCATGTTTGGAACATGGCATCGGTATTGTT
66 ACCATGTTAGGAACATGGCATCGGCATTGAG
* * * * * *
5437887 AT-ATGTG-TCAATGTAAGACCATGTCTGGGACATGGCATCGACATCGATGTATGAGAGCCAATG
1 ATGA-GAGCT-AGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGA--CATGAGACCCAATG
*
5437950 TAAAACCATGTT
62 TAAGACCATGTT
5437962 CGAGACATGA
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
95 7 0.05
96 114 0.79
98 23 0.16
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (96 bp):
ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGAGACCCAATGTAAG
ACCATGTTAGGAACATGGCATCGGCATTGAG
Found at i:5437922 original size:144 final size:146
Alignment explanation
Indices: 5437706--5437975 Score: 368
Period size: 144 Copynumber: 1.9 Consensus size: 146
5437696 TGAGAACAAG
5437706 TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGACCCAGAGTAAGACCATGTCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGACCCAGAGTAAGACCATGTCTAG
* * * * * * * *
5437771 GACATGGCATCGGCATTGA-G-ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC
66 GACATGGCATCGACATCGATGTATGAGAGCCAATGTAAAACCATGTTCGAGACATGACATCGGCC
5437834 TCGACATGTGAGCCAA
131 TCGACATGTGAGCCAA
* * ***
5437850 TGTAAGACCATGTTTGGAACATGGCATCGGTATTGTTAT-ATGTGTCA-ATGTAAGACCATGTCT
1 TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGA-GACCCAGA-GTAAGACCATGTCT
*
5437913 GGGACATGGCATCGACATCGATGTATGAGAGCCAATGTAAAACCATGTTCGAGACATGACATC
64 AGGACATGGCATCGACATCGATGTATGAGAGCCAATGTAAAACCATGTTCGAGACATGACATC
5437976 TACATTTTAC
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
143 2 0.02
144 72 0.67
145 1 0.01
146 33 0.31
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (146 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGACCCAGAGTAAGACCATGTCTAG
GACATGGCATCGACATCGATGTATGAGAGCCAATGTAAAACCATGTTCGAGACATGACATCGGCC
TCGACATGTGAGCCAA
Found at i:5442839 original size:24 final size:24
Alignment explanation
Indices: 5442807--5442853 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
5442797 CCCAAAGACG
5442807 ATGAGCTTATTCGAAAAATTTGGC
1 ATGAGCTTATTCGAAAAATTTGGC
5442831 ATGAGCTTATTCGAAAAATTTGG
1 ATGAGCTTATTCGAAAAATTTGG
5442854 TGGTCAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (24 bp):
ATGAGCTTATTCGAAAAATTTGGC
Found at i:5445093 original size:24 final size:24
Alignment explanation
Indices: 5445031--5445094 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 24
5445021 TGGGAGGTTG
*** **
5445031 GAGTGATTTATGGAGTGTATCATG
1 GAGTGATTTATGGAGAAAATCAAA
*
5445055 GAGAGATATTA-GGAGAAAATCAAA
1 GAGTGAT-TTATGGAGAAAATCAAA
5445079 GAGTGATTTATGGAGA
1 GAGTGATTTATGGAGA
5445095 GATTTAAGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (24 bp):
GAGTGATTTATGGAGAAAATCAAA
Found at i:5450048 original size:48 final size:47
Alignment explanation
Indices: 5449975--5450149 Score: 156
Period size: 48 Copynumber: 3.6 Consensus size: 47
5449965 TATGTATGCT
* * *
5449975 AGTGTAAGACTATTTTTGGGACATGGTATCGGCCACATAATGAGAACC
1 AGTGTAAGACCATGTTT-GGACATGGCATCGGCCACATAATGAGAACC
* ** * *
5450023 AGTGTAAGACCATGTTTGGATCATGGCATCGGCAATGTTATAAG-ACAC
1 AGTGTAAGACCATGTTTGGA-CATGGCATCGGCCACATAATGAGAAC-C
* * * * * *
5450071 AGAGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCC
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCCAC-ATAATGAGAACC
5450119 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTTTGG-ACATGGCATCG
5450150 ACATTGTTAT
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
47 8 0.08
48 88 0.87
49 5 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGACATGGCATCGGCCACATAATGAGAACC
Found at i:5450144 original size:96 final size:96
Alignment explanation
Indices: 5450021--5450196 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
5450011 ATAATGAGAA
* *
5450021 CCAGTGTAAGACCATGTTTGGATCATGGCATCGGCAATGTTATAAGACACAGAGTAAGACCATGT
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGACACAGAGTAAGACCATGT
5450086 CTGGGACATGGCATCGGCCTCGACATGTGAG
66 CTGGGACATGGCATCGGCCTCGACATGTGAG
* * *** *
5450117 CCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATATGTGTCAGTGTAAGACCATGT
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGACACAGAGTAAGACCATGT
5450182 CTGGGACATGGCATC
66 CTGGGACATGGCATC
5450197 AACACTAATG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (96 bp):
CCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGACACAGAGTAAGACCATGT
CTGGGACATGGCATCGGCCTCGACATGTGAG
Found at i:5450170 original size:48 final size:48
Alignment explanation
Indices: 5450022--5450252 Score: 201
Period size: 48 Copynumber: 4.8 Consensus size: 48
5450012 TAATGAGAAC
* * * * *
5450022 CAGTGTAAGACCATGTTTGGATCATGGCATCGGCAATGTTATAAGACA
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* * * * ** * *
5450070 CAGAGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGC
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* * * *
5450118 CAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATATGTGT
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* ** * ** *
5450166 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACTAATGTATGAGA
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* * *
5450214 GCTAGTGTAAGACCATGTCCGGGACATGGCATCAGCATT
1 -C-AGTGTAAGACCATGTCTGGAACATGGCATCGGCATT
5450253 TTACCCTTTG
Statistics
Matches: 145, Mismatches: 36, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
48 111 0.77
49 1 0.01
50 33 0.23
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
Found at i:5450964 original size:21 final size:21
Alignment explanation
Indices: 5450922--5450964 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5450912 GTCTGTTTTG
*
5450922 TATGTTTATGCTTGGGTTGGT
1 TATGTTTATGCTTGGGTAGGT
*
5450943 TATGTTTGATG-TTGTGTAGGT
1 TATGTTT-ATGCTTGGGTAGGT
5450964 T
1 T
5450965 GGTGCAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.12, C:0.02, G:0.33, T:0.53
Consensus pattern (21 bp):
TATGTTTATGCTTGGGTAGGT
Found at i:5451503 original size:20 final size:21
Alignment explanation
Indices: 5451464--5451503 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5451454 GTTAAGAAGA
*
5451464 CACACGGGCATGTCGCCCTTC
1 CACACGAGCATGTCGCCCTTC
5451485 CACACGAGCATGT-GCCCTT
1 CACACGAGCATGTCGCCCTT
5451504 GTCTGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CACACGAGCATGTCGCCCTTC
Found at i:5452489 original size:48 final size:48
Alignment explanation
Indices: 5452412--5452511 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
5452402 ACATGGTAGG
* * *
5452412 ATGCCAATGCCATATCCCAGATATAGTCTTACGTGGGATCACATATCA
1 ATGCAAATGCCATATCCCAGACATAGTCTTACATGGGATCACATATCA
* * *
5452460 ATGCAAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCAAATGCCATATCCCAGACATAGTCTTACATGGGATCACATATCA
5452508 ATGC
1 ATGC
5452512 CGATAGCCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCAAATGCCATATCCCAGACATAGTCTTACATGGGATCACATATCA
Found at i:5455837 original size:20 final size:21
Alignment explanation
Indices: 5455798--5455837 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5455788 GTATGAATAT
* *
5455798 GTTGAAAATTAGAAATTTATG
1 GTTGAAAATGAGAAAGTTATG
5455819 GTTGAAAATGA-AAAGTTAT
1 GTTGAAAATGAGAAAGTTAT
5455838 TCATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (21 bp):
GTTGAAAATGAGAAAGTTATG
Found at i:5469161 original size:37 final size:37
Alignment explanation
Indices: 5469111--5469185 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
5469101 TTCAAGATAG
*
5469111 ACTAAAAGTGGCTTCGGATAGGCAAATTTCTTTTGTA
1 ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
5469148 ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
1 ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
5469185 A
1 A
5469186 AACTTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (37 bp):
ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
Found at i:5472719 original size:20 final size:20
Alignment explanation
Indices: 5472686--5472729 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5472676 TAAAAAAAGT
* *
5472686 AAATGCAATCGAAAGTAATA
1 AAATGCAATCGAAAATAAGA
5472706 AAATGCAAAT-GAAAATAAGA
1 AAATGC-AATCGAAAATAAGA
5472726 AAAT
1 AAAT
5472730 TTGAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (20 bp):
AAATGCAATCGAAAATAAGA
Found at i:5474814 original size:38 final size:38
Alignment explanation
Indices: 5474772--5474855 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
5474762 ATCAACATGC
* * *
5474772 CTACTGTTACTATTAAATTGAACACATGTTAAGCACGT
1 CTACTGTTACTATTAAACTAAACACATGTCAAGCACGT
* * * *
5474810 CTACTGCTACTATTGAACTAAATACATGTCAAGCATGT
1 CTACTGTTACTATTAAACTAAACACATGTCAAGCACGT
*
5474848 TTACTGTT
1 CTACTGTT
5474856 TTACATAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (38 bp):
CTACTGTTACTATTAAACTAAACACATGTCAAGCACGT
Found at i:5475096 original size:85 final size:85
Alignment explanation
Indices: 5474953--5475110 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 85
5474943 ACATTAGTGA
* * ** *
5474953 TTCATCCACAAATTACAGACAAATTGTATCAGCAAATATGTTTTGCATTTACAACAAGTGGCAAT
1 TTCATCCACAAATTACAGACAAATTGTACCAGCAAATATGTTGTGCATCCACAACAAGTAGCAAT
5475018 TTATTTGTATATACTGGTGG
66 TTATTTGTATATACTGGTGG
* * * * * *
5475038 TTCATCCACAAATTACTGACAACTTTTACCTGCAAATATGTTGTGCATCCATAACAAGTAGCATT
1 TTCATCCACAAATTACAGACAAATTGTACCAGCAAATATGTTGTGCATCCACAACAAGTAGCAAT
5475103 TTATTTGT
66 TTATTTGT
5475111 GAATGTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (85 bp):
TTCATCCACAAATTACAGACAAATTGTACCAGCAAATATGTTGTGCATCCACAACAAGTAGCAAT
TTATTTGTATATACTGGTGG
Found at i:5483996 original size:37 final size:37
Alignment explanation
Indices: 5483946--5484016 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
5483936 AAAAGAATTC
*
5483946 ATTAGGATAAATGGGTCAAAAATGAGGTATCGAGTTT
1 ATTAGGATAAATGGGTCAAAAATAAGGTATCGAGTTT
5483983 ATTAGGATAAATGGGTCAAAAATAAGGTATCGAG
1 ATTAGGATAAATGGGTCAAAAATAAGGTATCGAG
5484017 ACCTCGAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (37 bp):
ATTAGGATAAATGGGTCAAAAATAAGGTATCGAGTTT
Found at i:5487522 original size:23 final size:24
Alignment explanation
Indices: 5487471--5487537 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
5487461 GTAATTTACT
*
5487471 GTCAATTCATACTTTAAATTTTTC
1 GTCAATTCATACTTTACATTTTTC
*
5487495 GTCAATTCATCCTTTACATTTTT-
1 GTCAATTCATACTTTACATTTTTC
*
5487518 TTCAATTCATACTTTACATT
1 GTCAATTCATACTTTACATT
5487538 CGTAGTGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (24 bp):
GTCAATTCATACTTTACATTTTTC
Found at i:5491811 original size:24 final size:24
Alignment explanation
Indices: 5491784--5491834 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5491774 TTACTTGGTA
*
5491784 ATTTACCATCAATTTATCCTTCAC
1 ATTTACCATCAATTCATCCTTCAC
** *
5491808 ATTTTTCATCAATTCATCCTTTAC
1 ATTTACCATCAATTCATCCTTCAC
5491832 ATT
1 ATT
5491835 CATAATGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTACCATCAATTCATCCTTCAC
Found at i:5491894 original size:32 final size:32
Alignment explanation
Indices: 5491838--5491903 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
5491828 TTACATTCAT
**
5491838 AATGCCATAACCCAATTATGGTCTTATCAT-TA
1 AATGCCATAACCCAATTACAGTCTTA-CATATA
* *
5491870 AATGCCATAGCCCAGTTACAGTCTTACATATA
1 AATGCCATAACCCAATTACAGTCTTACATATA
5491902 AA
1 AA
5491904 CACTGTCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 26 0.90
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (32 bp):
AATGCCATAACCCAATTACAGTCTTACATATA
Found at i:5492019 original size:101 final size:100
Alignment explanation
Indices: 5491833--5492065 Score: 286
Period size: 101 Copynumber: 2.3 Consensus size: 100
5491823 ATCCTTTACA
* * * ** *
5491833 TTCATAATGCCATAACCCAATTATGGTCTTATCATTAAATGCCATAGCCCAGTTACAGTCTTACA
1 TTCATAGTGCCACAACCCAGTTATGGTCTTATCATTAAATGCCATAGCCCAACTACAGTATTACA
* * *
5491898 TATAAACACTGTCATGGTCCAACCATAATCTTAAG
66 TACAAACACTGCCACGGTCCAACCATAATCTTAAG
* * * ** *
5491933 TTCATAGTGGCACAACCTAGTTATGGTCTTATCATTAGAATGTCATAGCCCAACTATGGTATTAT
1 TTCATAGTGCCACAACCCAGTTATGGTCTTATCATTA-AATGCCATAGCCCAACTACAGTATTAC
** *
5491998 ATACAAACACTGCCACGGTCCAACCATGCTCTTATG
65 ATACAAACACTGCCACGGTCCAACCATAATCTTAAG
*
5492034 TTCATAGTGCCATAACCCAGTTATGGTCTTAT
1 TTCATAGTGCCACAACCCAGTTATGGTCTTAT
5492066 TCGTCAATTC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
100 32 0.29
101 79 0.71
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (100 bp):
TTCATAGTGCCACAACCCAGTTATGGTCTTATCATTAAATGCCATAGCCCAACTACAGTATTACA
TACAAACACTGCCACGGTCCAACCATAATCTTAAG
Found at i:5493834 original size:16 final size:16
Alignment explanation
Indices: 5493815--5493845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5493805 TATGATCTTT
5493815 TAAAATTCCAATTTAG
1 TAAAATTCCAATTTAG
*
5493831 TAAAATTGCAATTTA
1 TAAAATTCCAATTTA
5493846 ATCCCTCATA
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:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAAATTCCAATTTAG
Found at i:5495593 original size:20 final size:20
Alignment explanation
Indices: 5495555--5495591 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
5495545 AATTACAAAC
5495555 TTAATTATATATTTTAAATT
1 TTAATTATATATTTTAAATT
*
5495575 TTAATTTTA-ATTTTAAA
1 TTAATTATATATTTTAAA
5495592 ATAAAATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTATATATTTTAAATT
Found at i:5495646 original size:26 final size:26
Alignment explanation
Indices: 5495607--5495656 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
5495597 ATCACAACAG
5495607 AATTGTAAAATTTAACAA-TAAATATA
1 AATTGTAAAATTT-ACAATTAAATATA
* *
5495633 AATTTTAAATTTTACAATTAAATA
1 AATTGTAAAATTTACAATTAAATA
5495657 AAAACATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
AATTGTAAAATTTACAATTAAATATA
Found at i:5503290 original size:154 final size:152
Alignment explanation
Indices: 5503102--5503400 Score: 490
Period size: 154 Copynumber: 2.0 Consensus size: 152
5503092 AAAGACAAAA
*
5503102 AAATTAATATTTTTTTGAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
1 AAATTAATATTTTTTGGAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
* * * * *
5503167 TTATATATTTTACCTAATTTATTAATATAAACGGTTATATTAATTAATTTTAATCAAAATATAAA
66 TTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAATCAAAAAATAAA
* *
5503232 ATACGTGGAAATTAAGACATGG
131 AGACATGGAAATTAAGACATGG
5503254 AAATTAATATTCTTTTGGAAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAA
1 AAATTAATATT-TTTTGG-AAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAA
*
5503319 TTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCAAAAAATA
64 TTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAATCAAAAAATA
*
5503384 GAAGACATGGAAATTAA
129 AAAGACATGGAAATTAA
5503401 TATTCTTTTG
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
152 11 0.08
153 5 0.04
154 119 0.88
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (152 bp):
AAATTAATATTTTTTGGAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
TTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAATCAAAAAATAAA
AGACATGGAAATTAAGACATGG
Found at i:5503409 original size:140 final size:138
Alignment explanation
Indices: 5503245--5503561 Score: 485
Period size: 138 Copynumber: 2.3 Consensus size: 138
5503235 CGTGGAAATT
5503245 AAGACATGGAAATTAATATTCTTTTGGAAAAAGAATATAATTAATATATGAATTTGATTCATACA
1 AAGACATGGAAATTAATATTCTTTTGG-AAAAGAATATAATTAATATATGAATTTGATTCATACA
* * *
5503310 AAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGT
65 AAATATTAATTGTATACATTTTACCGAATTTATTAATATAAACAATTATACTAATTAATTTCAGT
*
5503375 CAAAAAATAG
130 C-AAAAATAA
**
5503385 AAGACATGGAAATTAATATTCTTTTGG-AAAGAATATAATTAATATATGAATTTGATTCATGGAA
1 AAGACATGGAAATTAATATTCTTTTGGAAAAGAATATAATTAATATATGAATTTGATTCATACAA
** *
5503449 AATATTAATTGTATACATTTTATTGAATTTATTAATATAAACAATTATATTAATTAATTTCAGTC
66 AATATTAATTGTATACATTTTACCGAATTTATTAATATAAACAATTATACTAATTAATTTCAGTC
*
5503514 AAATATAA
131 AAAAATAA
* * *
5503522 AAGATATGAAAATTAATATTCTTCT-GAAAAGAATATAATT
1 AAGACATGGAAATTAATATTCTTTTGGAAAAGAATATAATT
5503562 CATTTTTCTA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
136 1 0.01
137 41 0.25
138 94 0.58
140 27 0.17
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (138 bp):
AAGACATGGAAATTAATATTCTTTTGGAAAAGAATATAATTAATATATGAATTTGATTCATACAA
AATATTAATTGTATACATTTTACCGAATTTATTAATATAAACAATTATACTAATTAATTTCAGTC
AAAAATAA
Found at i:5503660 original size:75 final size:75
Alignment explanation
Indices: 5503537--5503683 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 75
5503527 ATGAAAATTA
5503537 ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
5503602 GAATAATTCT
66 GAATAATTCT
* * ** *
5503612 ATATTCTTTTGGAAAGAATATAATTTTTTTTTCTAACTTTCCATTTGTCTTCTCTATTACTAAGG
1 ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
5503677 GAATAAT
66 GAATAAT
5503684 CCTGATTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (75 bp):
ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
GAATAATTCT
Found at i:5516261 original size:37 final size:37
Alignment explanation
Indices: 5516201--5516278 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
5516191 TATTACGAAT
* *
5516201 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
* *
5516238 TCTTACCCGGACAAAAT-TCCCACACGTAGTCATTGGG
1 TCTTACCCGGACAAAATCT-CCACACGAAGTCATCGGG
5516275 TCTT
1 TCTT
5516279 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:5516476 original size:47 final size:47
Alignment explanation
Indices: 5516397--5516563 Score: 226
Period size: 47 Copynumber: 3.6 Consensus size: 47
5516387 CCCTTCGGGA
* * * * * * *
5516397 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
5516444 CCTGTCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
5516491 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
5516538 CTTATCACACATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
5516564 ATTAGGCCTT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 105 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:5516558 original size:94 final size:94
Alignment explanation
Indices: 5516397--5516965 Score: 887
Period size: 94 Copynumber: 6.2 Consensus size: 94
5516387 CCCTTCGGGA
* * * * * * * * * *
5516397 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* *
5516462 TTTCACATTTATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
5516491 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT--A-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
5516553 ---CAC-TT--TCACA-----TATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
5516571 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
5516636 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
** *
5516665 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCTTATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
5516730 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
5516759 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
5516824 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
5516853 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
5516918 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
5516947 CTTATCACATATATACACT
1 CTTATCACATATATACACT
5516966 GTCTTGGCTG
Statistics
Matches: 440, Mismatches: 21, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
80 67 0.15
82 1 0.00
85 5 0.01
86 3 0.01
87 4 0.01
88 3 0.01
89 5 0.01
92 1 0.00
94 351 0.80
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:5516567 original size:33 final size:33
Alignment explanation
Indices: 5516530--5516596 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
5516520 TCACATCGGC
5516530 TATTAGGCCTTATCACACATATACACTTTCACA
1 TATTAGGCCTTATCACACATATACACTTTCACA
*
5516563 TATTAGGCCTTATCACATATATACACTTTCACA
1 TATTAGGCCTTATCACACATATACACTTTCACA
5516596 T
1 T
5516597 TCATCACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (33 bp):
TATTAGGCCTTATCACACATATACACTTTCACA
Found at i:5516576 original size:80 final size:80
Alignment explanation
Indices: 5516484--5516643 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
5516474 CACATCGGCC
5516484 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACA
5516549 TATACACTTTCACAT
66 TATACACTTTCACAT
*
5516564 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACA
5516629 TATACACTTTCACAT
66 TATACACTTTCACAT
5516644 TCATCACATC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (80 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACA
TATACACTTTCACAT
Found at i:5516580 original size:17 final size:17
Alignment explanation
Indices: 5516530--5516582 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
5516520 TCACATCGGC
5516530 TATTAGGCCTTATCACA
1 TATTAGGCCTTATCACA
*
5516547 CATATA--CACTT-TCACA
1 TAT-TAGGC-CTTATCACA
5516563 TATTAGGCCTTATCACA
1 TATTAGGCCTTATCACA
5516580 TAT
1 TAT
5516583 ATACACTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.07
16 11 0.38
17 14 0.48
18 2 0.07
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.36
Consensus pattern (17 bp):
TATTAGGCCTTATCACA
Found at i:5516596 original size:16 final size:16
Alignment explanation
Indices: 5516542--5516596 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
5516532 TTAGGCCTTA
*
5516542 TCACACATATACACTT
1 TCACATATATACACTT
5516558 TCACATAT-TAGGC-CTT
1 TCACATATATA--CACTT
5516574 ATCACATATATACACTT
1 -TCACATATATACACTT
5516591 TCACAT
1 TCACAT
5516597 TCATCACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
15 2 0.06
16 17 0.52
17 12 0.36
18 2 0.06
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:5516596 original size:47 final size:47
Alignment explanation
Indices: 5516563--5516965 Score: 770
Period size: 47 Copynumber: 8.6 Consensus size: 47
5516553 CACTTTCACA
5516563 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
5516610 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
5516657 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
** *
5516704 TATTAGGCCTTATCTTATATACACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
5516751 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
5516798 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
5516845 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
5516892 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
5516939 TATTAGGCCTTATCACATATATACACT
1 TATTAGGCCTTATCACATATATACACT
5516966 GTCTTGGCTG
Statistics
Matches: 348, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 348 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
Found at i:5534751 original size:57 final size:57
Alignment explanation
Indices: 5534663--5534775 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
5534653 TGGTGAAAAA
5534663 CTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAATTGAATTTTCAATTCCTTC
1 CTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAATTGAATTTTCAATTCCTTC
*
5534720 CTCGGTCGAGCGAAACCTCTATCTGTCAATTCTTGCAATTGAATTTTCAATTCCTT
1 CTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAATTGAATTTTCAATTCCTT
5534776 TAATTCCGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (57 bp):
CTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAATTGAATTTTCAATTCCTTC
Found at i:5536635 original size:69 final size:69
Alignment explanation
Indices: 5536524--5536660 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
5536514 GGCATTACGG
5536524 GCTCTTGGGGTGGATTATTTATATTCGGGAATGGTTGGACAGCCGGATAGGTTCGGGCATATTGC
1 GCTCTTGGGGTGGATTATTTATATTCGGGAATGGTTGGACAGCCGGATAGGTTCGGGCATATTGC
5536589 GCGA
66 GCGA
*
5536593 GCTCTTGGGGTGGATTATTTATATTCGGGAATGGTTGGACAGCTGGATAGGTTCGGGCATATTGC
1 GCTCTTGGGGTGGATTATTTATATTCGGGAATGGTTGGACAGCCGGATAGGTTCGGGCATATTGC
5536658 GCG
66 GCG
5536661 GCCCACTCAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.31
Consensus pattern (69 bp):
GCTCTTGGGGTGGATTATTTATATTCGGGAATGGTTGGACAGCCGGATAGGTTCGGGCATATTGC
GCGA
Found at i:5546986 original size:20 final size:20
Alignment explanation
Indices: 5546963--5547139 Score: 74
Period size: 20 Copynumber: 8.8 Consensus size: 20
5546953 GTGCCATTAG
5546963 GGGTACCGATGTACAAACAA
1 GGGTACCGATGTACAAACAA
* *
5546983 GGGT-CCGTATGTGCAATCAA
1 GGGTACCG-ATGTACAAACAA
* *
5547003 GGGTACCAAAGTACAAA-AA
1 GGGTACCGATGTACAAACAA
* ** * * *
5547022 AGGTCACATATGTGCAATCAG
1 GGGT-ACCGATGTACAAACAA
** *
5547043 GGGTACTAAAGTACAAACAA
1 GGGTACCGATGTACAAACAA
* ** * * *
5547063 GGGCACATATATGCAATCAA
1 GGGTACCGATGTACAAACAA
* *
5547083 GGGTATCGAAGTACAAA-AA
1 GGGTACCGATGTACAAACAA
* *
5547102 GGG-ACACGTATGTTCAATCAA
1 GGGTAC-CG-ATGTACAAACAA
*
5547123 GGGTACCGAAGTACAAA
1 GGGTACCGATGTACAAA
5547140 TAGGGGCACG
Statistics
Matches: 107, Mismatches: 42, Indels: 16
0.65 0.25 0.10
Matches are distributed among these distances:
18 1 0.01
19 15 0.14
20 76 0.71
21 13 0.12
22 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
GGGTACCGATGTACAAACAA
Found at i:5546993 original size:40 final size:41
Alignment explanation
Indices: 5546949--5547164 Score: 217
Period size: 40 Copynumber: 5.4 Consensus size: 41
5546939 ACAGGGGCAT
* * * *
5546949 GTATGTGCCATTAGGGGTACCGATGTACAAACAAGGGTC-C
1 GTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGTCAC
* *
5546989 GTATGTGCAATCAAGGGTACCAAAGTACAAA-AAAGGTCAC
1 GTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGTCAC
* *
5547029 ATATGTGCAATCAGGGGTACTAAAGTACAAACAAGGG-CAC
1 GTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGTCAC
* * * * * *
5547069 ATATATGCAATCAAGGGTATCGAAGTACAAA-AAGGGACAC
1 GTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGTCAC
* * * * *
5547109 GTATGTTCAATCAAGGGTACCGAAGTACAAA-TAGGGGCAC
1 GTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGTCAC
5547149 GTATGTGCAATTCAGG
1 GTATGTGCAA-TCAGG
5547165 TATAATTAAC
Statistics
Matches: 149, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 11 0.07
40 130 0.87
41 8 0.05
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (41 bp):
GTATGTGCAATCAGGGGTACCAAAGTACAAACAAGGGTCAC
Found at i:5547061 original size:80 final size:80
Alignment explanation
Indices: 5546950--5547159 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 80
5546940 CAGGGGCATG
* * *
5546950 TATGTGCCATTAGGGGTACCGATGTACAAACAAGGGTC-CGTATGTGCAATCAAGGGTACCAAAG
1 TATGTGCAATCAGGGGTACCGAAGTACAAACAAGGG-CACGTATGTGCAATCAAGGGTACCAAAG
*
5547014 TACAAAAAAGGTCACA
65 TACAAAAAAGGACACA
** * * * *
5547030 TATGTGCAATCAGGGGTACTAAAGTACAAACAAGGGCACATATATGCAATCAAGGGTATCGAAGT
1 TATGTGCAATCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGT
* *
5547095 ACAAAAAGGGACACG
66 ACAAAAAAGGACACA
* * * *
5547110 TATGTTCAATCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAT
1 TATGTGCAATCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAAT
5547160 TCAGGTATAA
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 1 0.01
80 108 0.99
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (80 bp):
TATGTGCAATCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCAAAGT
ACAAAAAAGGACACA
Found at i:5554991 original size:43 final size:43
Alignment explanation
Indices: 5554925--5555122 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
5554915 CTGGCATTAC
5554925 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
5554968 GCCTGCTAGGCACGAAGGGCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
5555011 GCCTGCTAAGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
5555054 GCCTACTAGGCACGAAGGCCTGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
5555097 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
5555123 TAATACCAGC
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:5555163 original size:38 final size:38
Alignment explanation
Indices: 5555115--5555222 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
5555105 GGCACGAAGG
* * * *
5555115 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
5555153 CCCTGATATAATACTAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
5555191 CTCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
5555223 TCTTTAAGCC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:5558452 original size:40 final size:39
Alignment explanation
Indices: 5558396--5558543 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 39
5558386 ACTGAAGTGA
* * **
5558396 AAACAGGGGCATGTATGTGCAATCAGGGGTATCGGAGTAC
1 AAACA-GGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
* *
5558436 AAACAGGGGAGCGTATGTGCAATTAGGGGTACCAAAGTAC
1 AAACAGGGCA-CGTATGTGCAATCAGGGGTACCAAAGTAC
* * *
5558476 AAATAAGGGTACGTATGTGCAATCAAGGGTACCAAAGTAC
1 AAA-CAGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
5558516 AAACAAGGGCACGTATGTGCAATTCAGG
1 AAAC-AGGGCACGTATGTGCAA-TCAGG
5558544 TATAATTAAC
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 78 0.86
41 9 0.10
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (39 bp):
AAACAGGGCACGTATGTGCAATCAGGGGTACCAAAGTAC
Found at i:5558487 original size:20 final size:20
Alignment explanation
Indices: 5558462--5558524 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
5558452 GTGCAATTAG
5558462 GGGTACCAAAGTACAAATAA
1 GGGTACCAAAGTACAAATAA
** * *
5558482 GGGTACGTATGTGC-AATCAA
1 GGGTACCAAAGTACAAAT-AA
*
5558502 GGGTACCAAAGTACAAACAA
1 GGGTACCAAAGTACAAATAA
5558522 GGG
1 GGG
5558525 CACGTATGTG
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.84
21 2 0.06
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (20 bp):
GGGTACCAAAGTACAAATAA
Found at i:5560640 original size:42 final size:42
Alignment explanation
Indices: 5560585--5560690 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
5560575 ATGCCTTTGC
* * *
5560585 CCCAAACAGGGTCTTACACGAAAT-T-AGATACGATGCCGATGT
1 CCCAGACATGGTCTTACACGAAATCTCA-AT-CGAGGCCGATGT
* *
5560627 CCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTATGT
1 CCCAGACATGGTCTTACACG-AAATCTCAATCGAGGCCGATGT
5560670 CCCAGAC-TCGGTCTTACACGA
1 CCCAGACAT-GGTCTTACACGA
5560691 TGTCACAGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
42 19 0.35
43 31 0.57
44 3 0.06
45 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (42 bp):
CCCAGACATGGTCTTACACGAAATCTCAATCGAGGCCGATGT
Found at i:5576097 original size:13 final size:13
Alignment explanation
Indices: 5576081--5576106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5576071 AAAATGATTT
5576081 TTTGAAAATTTTG
1 TTTGAAAATTTTG
5576094 TTTGAAAATTTTG
1 TTTGAAAATTTTG
5576107 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:5576376 original size:50 final size:50
Alignment explanation
Indices: 5576301--5576409 Score: 209
Period size: 50 Copynumber: 2.2 Consensus size: 50
5576291 AGTTAGGGGC
*
5576301 ATTTTGGTCATTTAGTAATTAAAATGAATTAAAAACAAAATTAAAAGCCA
1 ATTTTTGTCATTTAGTAATTAAAATGAATTAAAAACAAAATTAAAAGCCA
5576351 ATTTTTGTCATTTAGTAATTAAAATGAATTAAAAACAAAATTAAAAGCCA
1 ATTTTTGTCATTTAGTAATTAAAATGAATTAAAAACAAAATTAAAAGCCA
5576401 ATTTTTGTC
1 ATTTTTGTC
5576410 CATATTCAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (50 bp):
ATTTTTGTCATTTAGTAATTAAAATGAATTAAAAACAAAATTAAAAGCCA
Found at i:5577113 original size:6 final size:6
Alignment explanation
Indices: 5577102--5577935 Score: 1668
Period size: 6 Copynumber: 139.0 Consensus size: 6
5577092 ATTGCATGAA
5577102 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577150 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577198 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577246 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577294 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577342 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577390 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577438 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577486 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577534 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577582 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577630 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577678 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577726 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577774 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577822 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577870 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5577918 ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT
5577936 TTGTCTTTAT
Statistics
Matches: 828, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 828 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:5578115 original size:48 final size:48
Alignment explanation
Indices: 5578055--5578240 Score: 228
Period size: 48 Copynumber: 3.9 Consensus size: 48
5578045 ATCTGAGTAT
* *
5578055 TGAGATCCCGTATAAGACCATATCTAGGATATGACATCGGCATCAAAA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCAATA
* * * *
5578103 TGAGATCTCGTATAAGCCCATATCTGGGATATGGCATCGGCATCAGTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCAATA
* * * * * * *
5578151 TGAGATCCCATGTAAGACCATTTATGGGATATGGCATTGGCATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCAATA
* * *
5578199 TGAGGTCCCGTATAAGACCATGTCTGGGACATGACATCGGCA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCA
5578241 CCGTTATGAG
Statistics
Matches: 115, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCAATA
Found at i:5578249 original size:48 final size:48
Alignment explanation
Indices: 5578055--5578268 Score: 207
Period size: 48 Copynumber: 4.5 Consensus size: 48
5578045 ATCTGAGTAT
* * * *
5578055 TGAGATCCCGTATAAGACCATATCTAGGATATGACATCGGCATCAAAA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCACCGATA
* * * *
5578103 TGAGATCTCGTATAAGCCCATATCTGGGATATGGCATCGGCATC-AGTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCACCGA-TA
* * * * * * *
5578151 TGAGATCCCATGTAAGACCATTTATGGGATATGGCATTGGCATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCACCGATA
* * * *
5578199 TGAGGTCCCGTATAAGACCATGTCTGGGACATGACATCGGCACCGTTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCACCGATA
* *
5578247 TGAGA-CTTCGTGTAAGACCATA
1 TGAGATC-CCGTATAAGACCATA
5578269 GTTGGGTTGT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.01
48 134 0.98
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCACCGATA
Found at i:5578249 original size:96 final size:95
Alignment explanation
Indices: 5578055--5578336 Score: 263
Period size: 96 Copynumber: 3.0 Consensus size: 95
5578045 ATCTGAGTAT
* * * * * * * *
5578055 TGAGATCCCGTATAAGACCATATCTAGGATATGACATCGGCATCAAAATGAGATCTCGTATAAGC
1 TGAGATCCCGTGTAAGACCATAT-TGGGATATGGCATTGGCATCGATATGAGATCCCGTATAAGA
* * * *
5578120 CCATATCTGGGATATGGCATCGGCATCAG-TA
65 CCATGTCTGGGACATGACATCGGCA-CCGTTA
* * *
5578151 TGAGATCCCATGTAAGACCATTTATGGGATATGGCATTGGCATCGATATGAGGTCCCGTATAAGA
1 TGAGATCCCGTGTAAGACCATAT-TGGGATATGGCATTGGCATCGATATGAGATCCCGTATAAGA
5578216 CCATGTCTGGGACATGACATCGGCACCGTTA
65 CCATGTCTGGGACATGACATCGGCACCGTTA
* * * *
5578247 TGAGA-CTTCGTGTAAGACCATAGTTGGG-T-T-G--TTGGCATCGATGTGAGATCCCATGTAAG
1 TGAGATC-CCGTGTAAGACCATA-TTGGGATATGGCATTGGCATCGATATGAGATCCCGTATAAG
* * * *
5578306 ACCACGTCTGGGACATGTCATTGGCATCGTT
64 ACCATGTCTGGGACATGACATCGGCACCGTT
5578337 TCATGTGTAT
Statistics
Matches: 156, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
91 51 0.33
93 1 0.01
94 1 0.01
95 4 0.03
96 98 0.63
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (95 bp):
TGAGATCCCGTGTAAGACCATATTGGGATATGGCATTGGCATCGATATGAGATCCCGTATAAGAC
CATGTCTGGGACATGACATCGGCACCGTTA
Found at i:5580103 original size:46 final size:46
Alignment explanation
Indices: 5579998--5580115 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
5579988 TGTCTTCGAC
** *
5579998 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAATGCCATATATATATT
* * *
5580044 ATGGGCTTACATGGCTCATTCCTTTCTCCAAAT-CCATATATTTGA-T
1 ATGGACTTACATGGCTCATTCCTGTCTCC-AATGCCATATATAT-ATT
*
5580090 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
5580116 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 57 0.93
47 4 0.07
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAATGCCATATATATATT
Found at i:5585081 original size:51 final size:51
Alignment explanation
Indices: 5585005--5585147 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 51
5584995 GGGTTGTTAC
* * *
5585005 AGATAGC-TTCGATCACATGTGTGGTACTAAGTGTAGGCCACTATGTGTAA-A
1 AGATAGCTTTCG-TCACAAGTGTGGTACTATGTGAAGGCCACTATGTG-AAGA
*
5585056 AGATAGCTTTCGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGA
1 AGATAGCTTTCGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGAAGA
* * * * *
5585107 AGGTAGCTTT-GACTACAAGGGTGGTATTATGTGCAGGCCAC
1 AGATAGCTTTCGTC-ACAAGTGTGGTACTATGTGAAGGCCAC
5585148 CGGGCATCCA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
50 4 0.05
51 72 0.90
52 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (51 bp):
AGATAGCTTTCGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGAAGA
Found at i:5601272 original size:57 final size:57
Alignment explanation
Indices: 5601183--5601297 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
5601173 CACATCACTG
*
5601183 CTGCTGCCAGCATCAGCCTTTAGGGTAAACTTTACCTATTACATAGTTTCCATGATT
1 CTGCTGCCAGCATCAGCCTTTAAGGTAAACTTTACCTATTACATAGTTTCCATGATT
* * * *
5601240 CTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATT
1 CTGCTGCCAGCATCAGCCTTTAAGGTAAACTTTACCTATTACATAGTTTCCATGATT
5601297 C
1 C
5601298 AACTAGCCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (57 bp):
CTGCTGCCAGCATCAGCCTTTAAGGTAAACTTTACCTATTACATAGTTTCCATGATT
Found at i:5602072 original size:79 final size:80
Alignment explanation
Indices: 5601974--5602156 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
5601964 TCCTCATTCA
* *
5601974 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
5602037 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
5602054 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
5602118 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
5602133 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
5602157 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:5602156 original size:40 final size:40
Alignment explanation
Indices: 5601972--5602156 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
5601962 GCTCCTCATT
* *
5601972 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
5602012 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
5602052 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
5602091 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
5602132 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5602157 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:5606843 original size:29 final size:29
Alignment explanation
Indices: 5606808--5606881 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
5606798 GTTGTGAGAT
* * *
5606808 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
5606837 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
5606866 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
5606882 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:5614179 original size:33 final size:33
Alignment explanation
Indices: 5614114--5614182 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
5614104 ATCACTTTCA
* *
5614114 CCATCAGATTCTACCCCTTCATCATCACCCTCC
1 CCATCAGATTCTACCCCATCAACATCACCCTCC
5614147 CCATCA-ACTTCTACCCCATCAACATCACCCTCC
1 CCATCAGA-TTCTACCCCATCAACATCACCCTCC
5614180 CCA
1 CCA
5614183 GTAGTCAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.25, C:0.51, G:0.01, T:0.23
Consensus pattern (33 bp):
CCATCAGATTCTACCCCATCAACATCACCCTCC
Found at i:5614985 original size:117 final size:116
Alignment explanation
Indices: 5614683--5615005 Score: 477
Period size: 116 Copynumber: 2.8 Consensus size: 116
5614673 GGTAACAGAA
* * * *
5614683 ATCAACAACATCGGGACCACTGTCGCATCACAAATCGAAAAAATAAACCCTACATTGTGGCATTG
1 ATCAACAACATC-GGACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTGGCACTA
* * *
5614748 AAATTGTAAAAATAAATCACAAATAACCATCTACAATTTTAATAACAGATTT
65 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGATTT
* * * *
5614800 ATCAATAACATCGGACCATTGTCGTATCACAAATTGACAAAACAAACCCTACATTGTGGCACTAA
1 ATCAACAACATCGGACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTGGCACTAA
*
5614865 AATTGCAATAATAAATCACAAATAACTATCTACAATTTTAACAACA-ATTTT
66 AATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGA-TTT
* *
5614916 ATCAACAACATCGAGACCACTGTTGCATCACAAATCGACAAAACAAACCCTGCATTGTGGCACTA
1 ATCAACAACATCG-GACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTGGCACTA
*
5614981 AAATTGCAATAATAAATCAAAAATA
65 AAATTGCAATAATAAATCACAAATA
5615006 TCAACAAAAC
Statistics
Matches: 185, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
115 1 0.01
116 103 0.56
117 81 0.44
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (116 bp):
ATCAACAACATCGGACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTGGCACTAA
AATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGATTT
Found at i:5615215 original size:16 final size:16
Alignment explanation
Indices: 5615194--5615238 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
5615184 GAATGTTAAT
5615194 GATTTAAGGATTTCAA
1 GATTTAAGGATTTCAA
* *
5615210 GATTTAGGGATTTTAA
1 GATTTAAGGATTTCAA
5615226 GATTTCAAGGATT
1 GATTT-AAGGATT
5615239 CAACAAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (16 bp):
GATTTAAGGATTTCAA
Found at i:5615282 original size:16 final size:16
Alignment explanation
Indices: 5615263--5615307 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
5615253 AAGGTTTTAG
*
5615263 ATTTGGGGATTTCACT
1 ATTTGGGGATTTCACA
*
5615279 ATTTGGGGAATTTGACA
1 ATTTGGGG-ATTTCACA
*
5615296 AGTTGGGGATTT
1 ATTTGGGGATTT
5615308 TAGAATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (16 bp):
ATTTGGGGATTTCACA
Found at i:5625923 original size:19 final size:18
Alignment explanation
Indices: 5625883--5625925 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
5625873 TAGGGGTTTA
* *
5625883 TTTAATTAAATAAATTAC
1 TTTAAATAAATAAAGTAC
*
5625901 TTTAAATAAAGTAAAGTAG
1 TTTAAATAAA-TAAAGTAC
5625920 TTTAAA
1 TTTAAA
5625926 GGGTTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (18 bp):
TTTAAATAAATAAAGTAC
Found at i:5627234 original size:43 final size:44
Alignment explanation
Indices: 5627173--5627265 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
5627163 TCCTAATTGG
5627173 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
5627216 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
5627260 -AAAATA
1 GAAAATA
5627266 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:5628810 original size:44 final size:43
Alignment explanation
Indices: 5628747--5628833 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 43
5628737 TTGGTTGTGA
5628747 ACACCCATTTACAGCCCACTATTTTTTTCCCTACAGGTAATTC
1 ACACCCATTTACAGCCCACTATTTTTTTCCCTACAGGTAATTC
*
5628790 NACACCCATTTACAGCCCACTGTTTTTTTCCCTACAGGTAATTC
1 -ACACCCATTTACAGCCCACTATTTTTTTCCCTACAGGTAATTC
5628834 TATTGTTTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.34
Consensus pattern (43 bp):
ACACCCATTTACAGCCCACTATTTTTTTCCCTACAGGTAATTC
Found at i:5630837 original size:15 final size:15
Alignment explanation
Indices: 5630817--5630846 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5630807 GTAGATGCTC
5630817 TAATTGTTCCTTAGT
1 TAATTGTTCCTTAGT
5630832 TAATTGTTCCTTAGT
1 TAATTGTTCCTTAGT
5630847 GAATGGAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
TAATTGTTCCTTAGT
Found at i:5632032 original size:43 final size:44
Alignment explanation
Indices: 5631971--5632063 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
5631961 TCCTAATTGG
5631971 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
5632014 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
5632058 -AAAATA
1 GAAAATA
5632064 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:5632142 original size:18 final size:19
Alignment explanation
Indices: 5632121--5632157 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5632111 CCTAATTAAA
5632121 TTTAA-AAT-ATATACATAT
1 TTTAACAATAATA-ACATAT
5632139 TTTAACAATAATAACATAT
1 TTTAACAATAATAACATAT
5632158 GAGAATTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 9 0.53
20 3 0.18
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAACAATAATAACATAT
Found at i:5633866 original size:7 final size:7
Alignment explanation
Indices: 5633854--5633969 Score: 223
Period size: 7 Copynumber: 16.6 Consensus size: 7
5633844 GTGATTGCAC
5633854 CTCTCTT
1 CTCTCTT
5633861 CTCTCTT
1 CTCTCTT
5633868 CTCTCTT
1 CTCTCTT
5633875 CTCTCTT
1 CTCTCTT
5633882 CTCTCTT
1 CTCTCTT
5633889 CTCTCTT
1 CTCTCTT
5633896 CTCTCTT
1 CTCTCTT
5633903 CTCTCTT
1 CTCTCTT
5633910 CTCTCTT
1 CTCTCTT
5633917 CTCTCTT
1 CTCTCTT
5633924 CTCTCTT
1 CTCTCTT
5633931 CTCTCTT
1 CTCTCTT
5633938 CTCTCTT
1 CTCTCTT
5633945 CTCTCTT
1 CTCTCTT
5633952 CTCTCTT
1 CTCTCTT
*
5633959 CTCTCTC
1 CTCTCTT
5633966 CTCT
1 CTCT
5633970 TTTTTCTATT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
7 108 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
CTCTCTT
Found at i:5635936 original size:53 final size:53
Alignment explanation
Indices: 5635856--5636062 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
5635846 TTCCTTTTTA
* * *
5635856 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * * *
5635909 AACTCACCATTGCTATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTACCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * * *
5635963 TAGTTTATCAATGTCATGTCTAGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
5636018 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
5636063 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 35, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
53 44 0.38
54 36 0.31
55 36 0.31
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:5642922 original size:27 final size:27
Alignment explanation
Indices: 5642892--5643069 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5642882 ATATTGAGTC
* * * *
5642892 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
5642919 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
5642946 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
5642974 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
5643001 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
5643028 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
5643055 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5643070 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:5643031 original size:82 final size:81
Alignment explanation
Indices: 5642913--5643068 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5642903 TGCTATATAA
* *
5642913 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
5642978 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
5642995 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
5643059 CACTTAGTGC
65 CACTTAGTGC
5643069 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:5645048 original size:7 final size:7
Alignment explanation
Indices: 5645036--5645074 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
5645026 GTGATTGCAC
5645036 CTCTCTT
1 CTCTCTT
5645043 CTCTCTT
1 CTCTCTT
5645050 CTCTCTT
1 CTCTCTT
5645057 CTCTCTT
1 CTCTCTT
*
5645064 CTCTCTC
1 CTCTCTT
5645071 CTCT
1 CTCT
5645075 TTTTTCTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (7 bp):
CTCTCTT
Found at i:5647041 original size:53 final size:53
Alignment explanation
Indices: 5646961--5647167 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
5646951 TTCCTTTTTA
* * *
5646961 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * * *
5647014 AACTCACCATTGCTATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTACCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * * *
5647068 TAGTTTATCAATGTCATGTCTAGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
5647123 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
5647168 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 35, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
53 44 0.38
54 36 0.31
55 36 0.31
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:5650471 original size:83 final size:83
Alignment explanation
Indices: 5650345--5650509 Score: 294
Period size: 83 Copynumber: 2.0 Consensus size: 83
5650335 GCTCGTATGA
*
5650345 ACATTTTAGAGGCCAATTTCCAAGCCAATTGCCACCCTCAAACACTCATTTAATCAAACATGTTT
1 ACATTTTAGAGGACAATTTCCAAGCCAATTGCCACCCTCAAACACTCATTTAATCAAACATGTTT
5650410 CATAGCATGCAACATAAG
66 CATAGCATGCAACATAAG
* * *
5650428 ACATTTTAGAGGATAGTTTCCAAGCCAATTGCCACCCTCAAACACTCATTTACTCAAACATGTTT
1 ACATTTTAGAGGACAATTTCCAAGCCAATTGCCACCCTCAAACACTCATTTAATCAAACATGTTT
5650493 CATAGCATGCAACATAA
66 CATAGCATGCAACATAA
5650510 CCTATTTAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (83 bp):
ACATTTTAGAGGACAATTTCCAAGCCAATTGCCACCCTCAAACACTCATTTAATCAAACATGTTT
CATAGCATGCAACATAAG
Found at i:5652814 original size:11 final size:11
Alignment explanation
Indices: 5652798--5652827 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
5652788 CATAGACCTC
5652798 AAAATAATCAT
1 AAAATAATCAT
5652809 AAAATAATCAT
1 AAAATAATCAT
5652820 AAAATAAT
1 AAAATAAT
5652828 TATTTCTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATCAT
Found at i:5654275 original size:40 final size:39
Alignment explanation
Indices: 5654231--5654411 Score: 220
Period size: 40 Copynumber: 4.6 Consensus size: 39
5654221 GCCACTAGCT
*
5654231 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
5654271 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
5654310 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
5654350 CGAATGCCTTTGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
5654390 CAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCT-TCGGGACTTAGCC
5654412 TGGTTATCAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 40 0.33
40 82 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:5654329 original size:79 final size:80
Alignment explanation
Indices: 5654224--5654418 Score: 241
Period size: 79 Copynumber: 2.5 Consensus size: 80
5654214 GGATATAGCC
* *
5654224 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
5654289 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * * * *
5654303 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGTACGAATGCCTTTGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
5654368 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
* *
5654383 ACTAGCTCAAATG-CTCTCGGGACTTAGCCTGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
5654419 CATCCGAACA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
79 67 0.68
80 31 0.32
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:5658653 original size:76 final size:76
Alignment explanation
Indices: 5658527--5658831 Score: 601
Period size: 76 Copynumber: 4.0 Consensus size: 76
5658517 TAGGAAAATT
*
5658527 AGTGATAAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
1 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
5658592 GTCTCTGGTAG
66 GTCTCTGGTAG
5658603 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
1 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
5658668 GTCTCTGGTAG
66 GTCTCTGGTAG
5658679 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
1 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
5658744 GTCTCTGGTAG
66 GTCTCTGGTAG
5658755 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
1 AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
5658820 GTCTCTGGTAG
66 GTCTCTGGTAG
5658831 A
1 A
5658832 TTGGGATTCC
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 228 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (76 bp):
AGTGATGAGATTGAAATTTTGGTCAAACAGTTTATCTGGGGGTCATCCGAGAGGAAAAAGAAAAT
GTCTCTGGTAG
Found at i:5662297 original size:20 final size:21
Alignment explanation
Indices: 5662258--5662300 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
5662248 TGATGCTTAC
* *
5662258 TATTATTCGTACTTCAGTTCT
1 TATTATTCGCACTCCAGTTCT
5662279 TATTATT-GCACTCCAGTTCT
1 TATTATTCGCACTCCAGTTCT
5662299 TA
1 TA
5662301 ATGCTACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (21 bp):
TATTATTCGCACTCCAGTTCT
Found at i:5667181 original size:108 final size:108
Alignment explanation
Indices: 5666909--5667181 Score: 384
Period size: 108 Copynumber: 2.5 Consensus size: 108
5666899 GGAACTTATT
* * * * * *
5666909 AACAACATTGATGCAAAACTTAACTCAATGTAATTAAGGAGGATGGTTCAAACTAACACGAATGA
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAATAAGAACGA
* * * *
5666974 AAGATTCAAAAGTTATTTGCCCAGCTAGCTCTAGTATTTGGCA
66 AAGATTCAAAAGTTATTGGCCCAGCTAGCCCTAGCATTTGGAA
* *
5667017 AGCAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGACGGTTCAAACTAATAAGAACGA
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAATAAGAACGA
* * * *
5667082 AAGTTTCAAGAGTTATTGGCTCAGCTTGCCCTAGCATTTGGAA
66 AAGATTCAAAAGTTATTGGCCCAGCTAGCCCTAGCATTTGGAA
* *
5667125 AACAAAATTGATGCAAAACTTAATTCAATATAATTATGGATGATGGTTCAAACTAAT
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAAT
5667182 TCAATATAAT
Statistics
Matches: 145, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 145 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (108 bp):
AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAATAAGAACGA
AAGATTCAAAAGTTATTGGCCCAGCTAGCCCTAGCATTTGGAA
Found at i:5667182 original size:33 final size:33
Alignment explanation
Indices: 5667140--5667213 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
5667130 AATTGATGCA
5667140 AAACTTAATTCAATATAATTATGGATGATGGTTC
1 AAAC-TAATTCAATATAATTATGGATGATGGTTC
5667174 AAACTAATTCAATATAATTATGGATGATGGTTC
1 AAACTAATTCAATATAATTATGGATGATGGTTC
5667207 AAACTAA
1 AAACTAA
5667214 CATGAAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 36 0.90
34 4 0.10
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (33 bp):
AAACTAATTCAATATAATTATGGATGATGGTTC
Found at i:5668189 original size:11 final size:11
Alignment explanation
Indices: 5668168--5668204 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
5668158 ATGTGGGACT
5668168 GAGTT-GAGTC
1 GAGTTCGAGTC
5668178 GAGTTCGAGTC
1 GAGTTCGAGTC
*
5668189 GAGTTCGAGTT
1 GAGTTCGAGTC
5668200 GAGTT
1 GAGTT
5668205 GAGGAAGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.19, C:0.11, G:0.38, T:0.32
Consensus pattern (11 bp):
GAGTTCGAGTC
Found at i:5671321 original size:48 final size:48
Alignment explanation
Indices: 5671088--5671322 Score: 219
Period size: 48 Copynumber: 4.9 Consensus size: 48
5671078 AGTAAATTGT
* * * * * *
5671088 CGATGCCACGTTCTAGACATGGTCTTACACTGGCTTACATGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGTGGC
* * ** * *
5671136 CAATGCTATGTCCCAGACATGGTCTTACACTACCACACATATCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-GTGGC
*
5671184 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACAATAT--T-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCAC-ATATCGTGGC
* * * * *
5671232 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGTGGC
*
5671280 CGACGCCATGTCCCAGACATGGTCTTACACTGG-TGCACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATC
5671323 ACCAAAATGT
Statistics
Matches: 150, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
45 4 0.03
46 4 0.03
47 2 0.01
48 132 0.88
50 4 0.03
51 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGTGGC
Found at i:5673356 original size:13 final size:13
Alignment explanation
Indices: 5673338--5673362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5673328 AATTTATATC
5673338 TGTGAAAATTTTG
1 TGTGAAAATTTTG
5673351 TGTGAAAATTTT
1 TGTGAAAATTTT
5673363 ATCATTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:5676276 original size:48 final size:48
Alignment explanation
Indices: 5676124--5676405 Score: 173
Period size: 48 Copynumber: 5.9 Consensus size: 48
5676114 AGTAAATTAT
* * * * *
5676124 CGATGCCACGTCCTAGACATGGTCTTAC-ACTGGCTTACATGTTGAGGC
1 CGATGCCATGTCC-AAACATGGTCTTACAACTGGCTCACATATTGTGGC
* * * * * * * ** *
5676172 CGATCCCATGTCCCAGACATGGCCTTAC-ACTAGCTCTCGTCTCAAT-AC
1 CGATGCCATGT-CCAAACATGGTCTTACAACTGGCTCACATAT-TGTGGC
*
5676220 CGATGCCATGATCCAAACATGGTCTTACAAC-GGCTCTCATATTGTGGC
1 CGATGCCATG-TCCAAACATGGTCTTACAACTGGCTCACATATTGTGGC
* * * * *****
5676268 CGACGCCATGTCCCAGACATGGTCTTAC-ACTAGCGCACATATCAACAC
1 CGATGCCATGT-CCAAACATGGTCTTACAACTGGCTCACATATTGTGGC
* * *
5676316 CGATACCATGTCCTAAACATGGTCTTA-TACTGGCTCACATAATGTGGC
1 CGATGCCATGTCC-AAACATGGTCTTACAACTGGCTCACATATTGTGGC
* * *
5676364 CAATGCCATGTTCCAAACATGGTCTTAC-ACTAGCACACATAT
1 CGATGCCATG-TCCAAACATGGTCTTACAACTGGCTCACATAT
5676406 CACTCAAATG
Statistics
Matches: 176, Mismatches: 47, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
47 6 0.03
48 162 0.92
49 8 0.05
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCAAACATGGTCTTACAACTGGCTCACATATTGTGGC
Found at i:5676288 original size:96 final size:96
Alignment explanation
Indices: 5676124--5676407 Score: 324
Period size: 96 Copynumber: 3.0 Consensus size: 96
5676114 AGTAAATTAT
* * * * *
5676124 CGATGCCACGTCCTAGACATGGTCTTACACTGGCT-TACATGTTGAGGCCGATC-CCATGTCCCA
1 CGATACCATGTCCTAAACATGGTCTTACACTGGCTCT-CATATTGTGGCCGA-CGCCATGTCCCA
* * * * * *
5676187 GACATGGCCTTACACTAGCTCTCGTCTCAATAC
64 GACATGGTCTTACACTAGCGCACATATCAACAC
*
5676220 CGATGCCATGATCC-AAACATGGTCTTACAAC-GGCTCTCATATTGTGGCCGACGCCATGTCCCA
1 CGATACCATG-TCCTAAACATGGTCTTAC-ACTGGCTCTCATATTGTGGCCGACGCCATGTCCCA
5676283 GACATGGTCTTACACTAGCGCACATATCAACAC
64 GACATGGTCTTACACTAGCGCACATATCAACAC
* * * * * * *
5676316 CGATACCATGTCCTAAACATGGTCTTATACTGGCTCACATAATGTGGCCAATGCCATGTTCCAAA
1 CGATACCATGTCCTAAACATGGTCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTCCCAGA
*
5676381 CATGGTCTTACACTAGCACACATATCA
66 CATGGTCTTACACTAGCGCACATATCA
5676408 CTCAAATGTC
Statistics
Matches: 163, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
95 6 0.04
96 151 0.93
97 6 0.04
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (96 bp):
CGATACCATGTCCTAAACATGGTCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTCCCAGA
CATGGTCTTACACTAGCGCACATATCAACAC
Found at i:5679977 original size:44 final size:42
Alignment explanation
Indices: 5679908--5680051 Score: 137
Period size: 43 Copynumber: 3.4 Consensus size: 42
5679898 TGTGTTATCG
** *
5679908 TGTAAGACCACATCTGGGACGTTGGCATCA-ACTTATGATTTACC
1 TGTAAGACCATGTCTGGGACATTGGCATCATA-TT-TGATTT-CC
* **
5679952 TGTAAGACCATGTCTGAGACATTGGCATCATATTTGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTCC
* * * * *
5679994 TGTAAGACCCTGTCTGGGACAGTGTCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGATTTCC
*
5680037 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
5680052 AAGATGTTGG
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 25 0.30
43 29 0.35
44 28 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTCC
Found at i:5680008 original size:42 final size:43
Alignment explanation
Indices: 5679952--5680051 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
5679942 ATGATTTACC
*
5679952 TGTAAGACCATGTCTGAGACATTGGCATC-ATATTTGATTTTG
1 TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTTTG
* * * ***
5679994 TGTAAGACCCTGTCTGGGACAGTGTCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTTTG
*
5680037 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
5680052 AAGATGTTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 25 0.52
43 23 0.48
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTTTG
Found at i:5680795 original size:23 final size:22
Alignment explanation
Indices: 5680769--5680811 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
5680759 TATAAACCAT
* *
5680769 ATGTTTTGGTTTGTTTATGGCTC
1 ATGTTATGGTATGTTT-TGGCTC
5680792 ATGTTATGGTATGTTTTGGC
1 ATGTTATGGTATGTTTTGGC
5680812 ATGGATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.12, C:0.07, G:0.28, T:0.53
Consensus pattern (22 bp):
ATGTTATGGTATGTTTTGGCTC
Found at i:5688100 original size:29 final size:29
Alignment explanation
Indices: 5688058--5688116 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
5688048 ACGACTGAGA
5688058 ATGTGATGTGAATTAATGCACTATGTAAT
1 ATGTGATGTGAATTAATGCACTATGTAAT
5688087 ATGTGATGTGAATTAATGCACTATGTAAT
1 ATGTGATGTGAATTAATGCACTATGTAAT
5688116 A
1 A
5688117 CTCACCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (29 bp):
ATGTGATGTGAATTAATGCACTATGTAAT
Found at i:5691470 original size:14 final size:16
Alignment explanation
Indices: 5691438--5691476 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
5691428 ATTTACATAA
*
5691438 CATATATCACCTATTT
1 CATATATCACCTATGT
5691454 CATATATCA-CT-TGT
1 CATATATCACCTATGT
5691468 CATATATCA
1 CATATATCA
5691477 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:5694947 original size:33 final size:33
Alignment explanation
Indices: 5694909--5694976 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
5694899 CTTATGCATG
*
5694909 CATTCTATGGATTTTGAATAACTTTACTTATCC
1 CATTCTATGGATTTTGAACAACTTTACTTATCC
5694942 CATTCTATGGATTTTGAACAACTTTACTTATCC
1 CATTCTATGGATTTTGAACAACTTTACTTATCC
5694975 CA
1 CA
5694977 ATTGTTCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (33 bp):
CATTCTATGGATTTTGAACAACTTTACTTATCC
Found at i:5697444 original size:103 final size:103
Alignment explanation
Indices: 5697211--5697682 Score: 818
Period size: 103 Copynumber: 4.6 Consensus size: 103
5697201 GTTGTACATA
** * *
5697211 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
5697276 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
5697315 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
5697380 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
5697418 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
5697483 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
5697521 AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
5697586 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
5697624 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACC
5697683 AATAACGGTT
Statistics
Matches: 355, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
103 289 0.81
104 66 0.19
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:5709103 original size:57 final size:57
Alignment explanation
Indices: 5709015--5709185 Score: 342
Period size: 57 Copynumber: 3.0 Consensus size: 57
5709005 AGTTTCAAGA
5709015 ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
1 ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
5709072 ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
1 ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
5709129 ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
1 ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
5709186 CGCCGTTGCC
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (57 bp):
ATGATTGTTTATAAATATTTAAAACCTGTCACACAAAAATCGCGATCAAGTTTTTGG
Found at i:5714998 original size:40 final size:40
Alignment explanation
Indices: 5714919--5715141 Score: 315
Period size: 40 Copynumber: 5.6 Consensus size: 40
5714909 TATTCGGATG
5714919 ATAACCGGGCTAAGTCCCGAAGGCCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGG-CATTTGTGCGAGTTACT
*
5714960 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
5715000 ATATCAGGGCTAAGTCCCTAAGGCATTTTTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
5715040 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
5715080 ATAACCGGGCTAAATCCCAAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
5715120 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
5715142 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.10
40 126 0.76
41 23 0.14
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Done.