Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 29 of 199
Found at i:8380652 original size:2 final size:2
Alignment explanation
Indices: 8380647--8380677 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8380637 TTTCTAATGA
8380647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8380678 CACACATGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8382115 original size:23 final size:23
Alignment explanation
Indices: 8382085--8382381 Score: 333
Period size: 23 Copynumber: 12.7 Consensus size: 23
8382075 TTCGATTCAA
*
8382085 GTCCAATTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCT
8382108 GTCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * * *
8382131 GTCCAGTTTTAGTGTAAAAATGCT
1 GTCCA-ATTTGGTGTATATATGCT
* *
8382155 ATCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* ** *
8382178 GCCCAATTTGGTGTCCATATGTT
1 GTCCAATTTGGTGTATATATGCT
* **
8382201 GTCCAATTTGATAAATATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
8382224 GCCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
8382247 GTCCAATTTTGGTGTACAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
* *
8382271 GTCGAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
8382294 GTCCAATTTTGGTGTATAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
*
8382318 GTCCAATTTGGTGTTTATATGCT
1 GTCCAATTTGGTGTATATATGCT
** *
8382341 GTCCAAATGGGGTGTATAAATGCT
1 GTCC-AATTTGGTGTATATATGCT
*
8382365 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
8382382 AGAGCTGTTC
Statistics
Matches: 223, Mismatches: 47, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
23 145 0.65
24 78 0.35
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (23 bp):
GTCCAATTTGGTGTATATATGCT
Found at i:8382146 original size:47 final size:46
Alignment explanation
Indices: 8382085--8382381 Score: 333
Period size: 47 Copynumber: 6.4 Consensus size: 46
8382075 TTCGATTCAA
* *
8382085 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * * * * *
8382131 GTCCAGTTTTAGTGTAAAAATGCTATCCAATTTGGTATATATATGCT
1 GTCCA-ATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* ** * * ** *
8382178 GCCCAATTTGGTGTCCATATGTTGTCCAATTTGATAAATATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* *
8382224 GCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTACAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* *
8382271 GTCGAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* **
8382318 GTCCAATTTGGTGTTTATATGCTGTCCAAATGGGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCC-AATTTGGTGTATAAATGCT
*
8382365 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
8382382 AGAGCTGTTC
Statistics
Matches: 215, Mismatches: 33, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
46 63 0.29
47 150 0.70
48 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (46 bp):
GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
Found at i:8382389 original size:70 final size:70
Alignment explanation
Indices: 8382085--8382382 Score: 330
Period size: 70 Copynumber: 4.3 Consensus size: 70
8382075 TTCGATTCAA
* ** * *
8382085 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAGTTTTAGTGTAAAA
1 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATAA
8382150 ATGCT
66 ATGCT
* * * * * * * ** *
8382155 ATCCAATTTGGTATATATATGCTGCCCAATTTGGTGTCCATATGTTGTCC-AATTTGATAAATAT
1 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATAA
8382219 ATGCT
66 ATGCT
* * * * *
8382224 GCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTACAAATGCTGT-CGAATTTGGTGTCTA
1 GTCCAATTTGGTGTATAAATGCTGTCCAA-TTTGGTGTACATATGCTGTCCAAATTTGGTGTATA
*
8382288 TATGCT
65 AATGCT
** **
8382294 GTCCAATTTTGGTGTATAAATGCTGTCCAATTTGGTGTTTATATGCTGTCCAAATGGGGTGTATA
1 GTCCAA-TTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATA
8382359 AATGCT
65 AATGCT
*
8382365 GTCCAATTTGATGTATAA
1 GTCCAATTTGGTGTATAA
8382383 GAGCTGTTCA
Statistics
Matches: 187, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
69 37 0.20
70 106 0.57
71 44 0.24
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (70 bp):
GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATAA
ATGCT
Found at i:8384363 original size:30 final size:31
Alignment explanation
Indices: 8384324--8384383 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
8384314 GGAGGTGGGA
*
8384324 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
8384355 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
8384384 TTAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:8385545 original size:20 final size:20
Alignment explanation
Indices: 8385522--8385578 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
8385512 ATACTAGAAT
*
8385522 AAAAGTATCAATACTTTGAC
1 AAAAGTATCAATACTTTGAA
** *
8385542 AAAAGTATTGATTCTTTGAA
1 AAAAGTATCAATACTTTGAA
8385562 AAAAGTATCAATACTTT
1 AAAAGTATCAATACTTT
8385579 AAGCCAAGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
AAAAGTATCAATACTTTGAA
Found at i:8388757 original size:96 final size:96
Alignment explanation
Indices: 8388647--8388840 Score: 370
Period size: 96 Copynumber: 2.0 Consensus size: 96
8388637 CTCTATTTAT
* *
8388647 AGGCATAAGAAGTATAAAAGAAGTAGATATCTAATTCTAATAACTATTAAAGTACATCAAAATTT
1 AGGCATAAGAAGTATAAAAGAACTAGAGATCTAATTCTAATAACTATTAAAGTACATCAAAATTT
8388712 TATCTTGATCATGATGGACATCAACTTAATA
66 TATCTTGATCATGATGGACATCAACTTAATA
8388743 AGGCATAAGAAGTATAAAAGAACTAGAGATCTAATTCTAATAACTATTAAAGTACATCAAAATTT
1 AGGCATAAGAAGTATAAAAGAACTAGAGATCTAATTCTAATAACTATTAAAGTACATCAAAATTT
8388808 TATCTTGATCATGATGGACATCAACTTAATA
66 TATCTTGATCATGATGGACATCAACTTAATA
8388839 AG
1 AG
8388841 ATATTCATAA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (96 bp):
AGGCATAAGAAGTATAAAAGAACTAGAGATCTAATTCTAATAACTATTAAAGTACATCAAAATTT
TATCTTGATCATGATGGACATCAACTTAATA
Found at i:8395051 original size:27 final size:27
Alignment explanation
Indices: 8395010--8395288 Score: 319
Period size: 27 Copynumber: 10.3 Consensus size: 27
8395000 TTAATGGGCC
* *
8395010 TAAAATGACCAAAATACCCACGAAAGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* * *
8395037 TAAAATGATCGAAATACTCCT-GAAAGG
1 TAAAATGACCAAAATAC-CCTCGAAGGG
* * *
8395064 TAAAATGACCGAAATACCTTTGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* **
8395091 TAAAATAACTGAAATACCC-CTGAAGGG
1 TAAAATGACCAAAATACCCTC-GAAGGG
***
8395118 TAAAATGACTGCAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
8395145 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* *
8395172 TAAAATGACTAAAATACCCTTGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* * *
8395199 TAAAATAACCGAAATACCCTCAAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* *
8395226 TTAAATGACTAAAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* *
8395253 TAAAATAACCAAAATACCCCCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
8395280 TAAAATGAC
1 TAAAATGAC
8395289 TGTTATACCC
Statistics
Matches: 216, Mismatches: 32, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 211 0.98
28 3 0.01
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCTCGAAGGG
Found at i:8395147 original size:81 final size:81
Alignment explanation
Indices: 8395010--8395290 Score: 352
Period size: 81 Copynumber: 3.5 Consensus size: 81
8395000 TTAATGGGCC
* * * *
8395010 TAAAATGACCAAAATACCCAC-GAAAGGTAAAATGA-TCGAAATACTCCT-GAAAGGTAAAATGA
1 TAAAATAACTAAAATACCC-CTGAAGGGTAAAATGACT-GAAATAC-CCTCGAAGGGTAAAATGA
* * *
8395072 CCGAAATACCTTTGAAGGG
63 CCAAAATACCCTCGAAGGG
* *
8395091 TAAAATAACTGAAATACCCCTGAAGGGTAAAATGACTGCAATACCCTCGAAGGGTAAAATGACCA
1 TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCA
8395156 AAATACCCTCGAAGGG
66 AAATACCCTCGAAGGG
* * * * * * *
8395172 TAAAATGACTAAAATACCCTTGAAGGGTAAAATAACCGAAATACCCTCAAAGGGTTAAATGACTA
1 TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCA
8395237 AAATACCCTCGAAGGG
66 AAATACCCTCGAAGGG
* *
8395253 TAAAATAACCAAAATACCCCCGAAGGGTAAAATGACTG
1 TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTG
8395291 TTATACCCCT
Statistics
Matches: 173, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.02
81 168 0.97
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (81 bp):
TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCA
AAATACCCTCGAAGGG
Found at i:8395522 original size:26 final size:26
Alignment explanation
Indices: 8395469--8395540 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
8395459 ACATATACTG
* * *
8395469 TTACTGGCAGCTTTGCTACGTTACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
* *
8395495 TTATTGGCAGCTTTGCTGCATCATTA
1 TTACTGGCAGCTTTGCTGCATCACTA
*
8395521 TTACTGACAGCTTTGCTGCA
1 TTACTGGCAGCTTTGCTGCA
8395541 ATATTGGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCACTA
Found at i:8395705 original size:33 final size:33
Alignment explanation
Indices: 8395640--8395705 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
8395630 TGCATTACTG
* *
8395640 CATTGTACTGTTACTGTACTAGGCTAATGCCCA
1 CATTGTACTGTTACTGTAATAGGCTAAGGCCCA
*
8395673 CATTGTACTGTTACTG-AATAGGGCTCAGGCCCA
1 CATTGTACTGTTACTGTAATA-GGCTAAGGCCCA
8395706 GACTGTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (33 bp):
CATTGTACTGTTACTGTAATAGGCTAAGGCCCA
Found at i:8396088 original size:14 final size:15
Alignment explanation
Indices: 8396065--8396105 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8396055 ATAAAATTTC
8396065 AAAAATATTTAATAA-
1 AAAAA-ATTTAATAAT
*
8396080 CAAAAATTTAATAAT
1 AAAAAATTTAATAAT
8396095 AAAAAATTTAA
1 AAAAAATTTAA
8396106 ACATCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATTTAATAAT
Found at i:8396099 original size:15 final size:14
Alignment explanation
Indices: 8396065--8396105 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
8396055 ATAAAATTTC
*
8396065 AAAAATATTTAATA
1 AAAAAAATTTAATA
*
8396079 ACAAAAATTTAATA
1 AAAAAAATTTAATA
8396093 ATAAAAAATTTAA
1 A-AAAAAATTTAA
8396106 ACATCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAAAATTTAATA
Found at i:8398618 original size:42 final size:42
Alignment explanation
Indices: 8398571--8398918 Score: 427
Period size: 42 Copynumber: 8.2 Consensus size: 42
8398561 CTAACTTTTT
*
8398571 GCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * * *
8398613 GCGGCGCTAAGAAAATAATCGACGCTAAATATCATGTTCTTTA
1 GCGGCGCTTAGAAAA-AAACGCCGCTAAAGATCATGTTCTTTA
* *
8398656 GCGGCGCTTATG-AAAAAATGCCGCTAAAGATCACGTTCTTTA
1 GCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTTCTTTA
8398698 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
8398740 GCAGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
8398782 GCGGCACTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* ** * *
8398824 GCGGCGCTTTGGATGAAAACGCCGCTAAA-AGTAATGTTCTATA
1 GCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTA
** *
8398867 GCGGCGCTT-GTTCAAAAACGCCGCTAATAG-T-AGTGTTATTTA
1 GCGGCGCTTAG-AAAAAAACGCCGCTAA-AGATCA-TGTTCTTTA
8398909 GCGGCGCTTA
1 GCGGCGCTTA
8398919 TTTCACAAAC
Statistics
Matches: 267, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.01
42 192 0.72
43 71 0.27
44 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:8398747 original size:84 final size:84
Alignment explanation
Indices: 8398571--8398919 Score: 438
Period size: 85 Copynumber: 4.1 Consensus size: 84
8398561 CTAACTTTTT
** * * *
8398571 GCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAATAATCGAC
1 GCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA-AAACGCC
*
8398636 GCTAAATATCATGTTCTTTA
65 GCTAAAGATCATGTTCTTTA
* *
8398656 GCGGCGCTTATGAAAAAATGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
1 GCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
8398721 CTAAAGATCATGTTCTTTA
66 CTAAAGATCATGTTCTTTA
* * * *
8398740 GCAGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGGAAAAAACGCCG
1 GCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
8398805 CTAAAGATCATGTTCTTTA
66 CTAAAGATCATGTTCTTTA
* * * **
8398824 GCGGCGCTT-TGGATGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTTCAAAAAC
1 GCGGCGCTTAT-GA-AAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-AAAAAAAC
*
8398886 GCCGCTAATAG-T-AGTGTTATTTA
62 GCCGCTAA-AGATCA-TGTTCTTTA
8398909 GCGGCGCTTAT
1 GCGGCGCTTAT
8398920 TTCACAAACG
Statistics
Matches: 234, Mismatches: 23, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
84 115 0.49
85 116 0.50
86 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (84 bp):
GCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
CTAAAGATCATGTTCTTTA
Found at i:8399369 original size:12 final size:12
Alignment explanation
Indices: 8399348--8399383 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8399338 TGAACCTCTA
*
8399348 CTTCTATCGCTG
1 CTTCTCTCGCTG
8399360 CTTCTCTCGCTG
1 CTTCTCTCGCTG
*
8399372 CTTCTCTTGCTG
1 CTTCTCTCGCTG
8399384 TGGCCTCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.36, G:0.17, T:0.44
Consensus pattern (12 bp):
CTTCTCTCGCTG
Found at i:8399393 original size:21 final size:21
Alignment explanation
Indices: 8399369--8399437 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
8399359 GCTTCTCTCG
* * *
8399369 CTGCTTCTCTTGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCAT
8399390 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCTCTCGCTGTAGCAT
**
8399411 CTGCTT-TCCTCGCTGCCGCAT
1 CTGCTTCT-CTCGCTGTAGCAT
8399432 CTGCTT
1 CTGCTT
8399438 TAAGTTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.04, C:0.36, G:0.20, T:0.39
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCAT
Found at i:8401720 original size:21 final size:21
Alignment explanation
Indices: 8401696--8401748 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
8401686 CTCATTAGGA
8401696 TCGTCCTCTTCGTCGGAGCTT
1 TCGTCCTCTTCGTCGGAGCTT
8401717 TCGTCCTCTTCGTCGGAGCTT
1 TCGTCCTCTTCGTCGGAGCTT
* *
8401738 TCATCCCCTTC
1 TCGTCCTCTTC
8401749 ATCATTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.06, C:0.38, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGTCCTCTTCGTCGGAGCTT
Found at i:8405731 original size:9 final size:9
Alignment explanation
Indices: 8405717--8405947 Score: 238
Period size: 9 Copynumber: 26.0 Consensus size: 9
8405707 TTTTTATGTA
8405717 TTATGTAAG
1 TTATGTAAG
8405726 TTATGTAAG
1 TTATGTAAG
8405735 TTATGT-A-
1 TTATGTAAG
*
8405742 TTAT-TTA-
1 TTATGTAAG
8405749 TTATGTAAG
1 TTATGTAAG
8405758 -TACTGTAAG
1 TTA-TGTAAG
*
8405767 TAATGTAAG
1 TTATGTAAG
8405776 TTATGTAAG
1 TTATGTAAG
* *
8405785 TTATTTAAT
1 TTATGTAAG
*
8405794 TTATGTAGG
1 TTATGTAAG
8405803 TTATGTAAG
1 TTATGTAAG
* * * *
8405812 TCCACGGAAT
1 T-TATGTAAG
8405822 TTATGTAAG
1 TTATGTAAG
8405831 TTATGTAAG
1 TTATGTAAG
* *
8405840 TTATTTAAT
1 TTATGTAAG
8405849 TTATGTAAG
1 TTATGTAAG
*
8405858 CTATGTAAG
1 TTATGTAAG
* *
8405867 TTATTTAAT
1 TTATGTAAG
*
8405876 TTATGTAGG
1 TTATGTAAG
8405885 TTATGTAAG
1 TTATGTAAG
8405894 TTATGTAAG
1 TTATGTAAG
* *
8405903 TTATTTAAT
1 TTATGTAAG
*
8405912 TTATGTAGG
1 TTATGTAAG
8405921 TTATGTAAG
1 TTATGTAAG
*
8405930 TTATTTAAG
1 TTATGTAAG
8405939 TTATGTAAG
1 TTATGTAAG
8405948 ACCGGTCCAT
Statistics
Matches: 179, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
6 1 0.01
7 9 0.05
8 5 0.03
9 158 0.88
10 6 0.03
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8406042 original size:25 final size:25
Alignment explanation
Indices: 8405974--8406112 Score: 138
Period size: 25 Copynumber: 5.5 Consensus size: 25
8405964 ATTCTTTAAG
* **
8405974 AATTATGTAACTGCTGTATTATGAA
1 AATTATGTAAGTTATGTATTATGAA
*
8405999 GAATTATGTTAGTTATGTATTATGAA
1 -AATTATGTAAGTTATGTATTATGAA
* *
8406025 AATTATGTAAGCTGTGTACTGTAT--A
1 AATTATGTAAGTTATGTA-T-TATGAA
* * *
8406050 AGTTATGTAAGTTTTATATTATGAA
1 AATTATGTAAGTTATGTATTATGAA
**
8406075 AATTAAATAAGTTATGTATTATGAA
1 AATTATGTAAGTTATGTATTATGAA
8406100 AATTATGTAAGTT
1 AATTATGTAAGTT
8406113 CCAATATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 62 0.68
26 22 0.24
27 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (25 bp):
AATTATGTAAGTTATGTATTATGAA
Found at i:8406133 original size:126 final size:125
Alignment explanation
Indices: 8406012--8406316 Score: 357
Period size: 126 Copynumber: 2.5 Consensus size: 125
8406002 TTATGTTAGT
* * * *
8406012 TATGTATTATGAAAATTATGTAAGCTGTGTACTGTATAAGTTATGTAAGTT-T-TATATTATGAA
1 TATGTATTATGAAAATTATGTAAGTTGTGTATTGTATAAGTTATGTAAGTTATGAAAATTATGAA
* *
8406075 AATT-AA-A-TAAGTTATGTATTATGAAAATTATGTAAGTTCCAATATTATGTAA---G-C
66 AATTCAATATTAAGTTATGTACTATGAAAATTATGTAAGTT-CAATATTATGTAAGTTGTG
* * * *
8406129 TATGTATTATGAAATTTAAGTAAGTTGTGTATTGTATAAGTTATGTAGGTTATGAAAATTATGTA
1 TATGTATTATGAAAATTATGTAAGTTGTGTATTGTATAAGTTATGTAAGTTATGAAAATTATGAA
*
8406194 AGTTCAATATCGTTTAAGTTATGTACTATGAAAATTATGTAAGTTCAATATTATGTAAGTTGTG
66 AATTCAATA----TTAAGTTATGTACTATGAAAATTATGTAAGTTCAATATTATGTAAGTTGTG
*
8406258 TAT-TA-TA--AACAATTATGTAAGTTGTGTATTGAATAAGTTATGTAAGTTATGAAAATTAT
1 TATGTATTATGAA-AATTATGTAAGTTGTGTATTGTATAAGTTATGTAAGTTATGAAAATTAT
8406317 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
117 46 0.29
118 1 0.01
119 11 0.07
120 2 0.01
121 1 0.01
125 15 0.09
126 75 0.47
127 2 0.01
128 3 0.02
129 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (125 bp):
TATGTATTATGAAAATTATGTAAGTTGTGTATTGTATAAGTTATGTAAGTTATGAAAATTATGAA
AATTCAATATTAAGTTATGTACTATGAAAATTATGTAAGTTCAATATTATGTAAGTTGTG
Found at i:8409094 original size:12 final size:12
Alignment explanation
Indices: 8409077--8409103 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8409067 AAATTATGAC
8409077 ATTATTAATATT
1 ATTATTAATATT
8409089 ATTATTAATATT
1 ATTATTAATATT
8409101 ATT
1 ATT
8409104 TAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:8409724 original size:7 final size:7
Alignment explanation
Indices: 8409635--8409704 Score: 61
Period size: 7 Copynumber: 10.0 Consensus size: 7
8409625 ACTAAAGCGA
8409635 CCTAAAC
1 CCTAAAC
8409642 CCTAAAC
1 CCTAAAC
8409649 CC-AAAC
1 CCTAAAC
*
8409655 CCCAAAC
1 CCTAAAC
*
8409662 CTTAAAC
1 CCTAAAC
*
8409669 CCCAAAC
1 CCTAAAC
* *
8409676 TCTCAACC
1 CCT-AAAC
8409684 CCTAAAC
1 CCTAAAC
*
8409691 CCAAAAC
1 CCTAAAC
*
8409698 ACTAAAC
1 CCTAAAC
8409705 ATACATCATA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
6 6 0.12
7 38 0.78
8 5 0.10
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (7 bp):
CCTAAAC
Found at i:8410196 original size:114 final size:113
Alignment explanation
Indices: 8409983--8410751 Score: 696
Period size: 114 Copynumber: 6.9 Consensus size: 113
8409973 AAACCTACAT
* * * * *
8409983 GCGTTTTTACATGAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAG
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
* * *
8410048 ATATTTTGCGGCGATTCTTACAAA-GCATCTCTAATACTCTGCTTTAGCG
66 ATATTTTGCGGCGTTTCATACAAACGC--CGCTAATACTCTGCTTTAGCG
* ** * *
8410097 GCCTTTTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGATGCGTTTTGGTTAAG
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
*
8410162 ATATTTTGCGGCGTTTTGCATA-AAACGCCGCTAATACTGTG-TTATAGC-
66 ATATTTTGCGGCG-TTT-CATACAAACGCCGCTAATACTCTGCTT-TAGCG
* * * * *
8410210 GCGTTTTCCCACAATCGCCACTAATTCTAATATACATTAAGACCAAAC-ACTGCGTTTTGGTTAA
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGA-TGCGTTTTGGTTAA
* * * * *
8410274 GATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCCTTAGCG
65 GATATTTTGCGGCGTTTCATACAAA-CGCCGCTAATACTCTGCTTTAGCG
* ** * * *
8410324 GTGTTTTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAATGATGCGTTTTGGTTAAG
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
* *
8410389 ATATTTTGCGGCGTTT--T----A------TAATACTGTGCTATAGCG
66 ATATTTTGCGGCGTTTCATACAAACGCCGCTAATACTCTGCTTTAGCG
* * ** * * *
8410425 GCGTTTTCCCACAATTGCCACTAATTCTAATATACATTAAGACCAAAC-ACTGCATTTTGGTTAA
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGA-TGCGTTTTGGTTAA
* * * * *
8410489 GATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGTG
65 GATATTTTGCGGCGTTTCATACAAA-CGCCGCTAATACTCTGCTTTAGCG
* *
8410539 GCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
* * * * * * *
8410604 ATATTTTACGGCGTTT-ACTAAAAAAAGCCGCTAATAATATACTATAGCG
66 ATATTTTGCGGCGTTTCA-T-ACAAACGCCGCTAATACTCTGCTTTAGCG
* * * * * * * * *
8410653 GCGTTTAT-CATAAACGTCACCAAGTCTAATATACCTCGAGAACAAACGATGCGTTTTGGCTAAC
1 GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
* * * *
8410717 ATTTTTTGCGGCGCTTACAAATAAACGCCGCTAAT
66 ATATTTTGCGGCG-TTTCATACAAACGCCGCTAAT
8410752 TATGCTATAT
Statistics
Matches: 525, Mismatches: 101, Indels: 59
0.77 0.15 0.09
Matches are distributed among these distances:
100 1 0.00
101 79 0.15
103 1 0.00
107 1 0.00
108 1 0.00
111 3 0.01
112 8 0.02
113 154 0.29
114 260 0.50
115 12 0.02
116 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (113 bp):
GCGTTTTTCCATAACCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAG
ATATTTTGCGGCGTTTCATACAAACGCCGCTAATACTCTGCTTTAGCG
Found at i:8410581 original size:215 final size:217
Alignment explanation
Indices: 8409998--8410620 Score: 964
Period size: 215 Copynumber: 2.8 Consensus size: 217
8409988 TTTACATGAG
* * * *
8409998 CGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGAT
1 CGCCACTAATTCTAATATACATTAAGACCAAACACTGCGTTTTGGTTAAGATAATTTGCGGCGTT
** * *
8410063 TCTTACAAAGCATCTCTAATACTCTGCTTTAGCGGCCTTTTTCTGTAACCGCCACTAATTCTTAT
66 TCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTTTTTCTGTAACCGCCACTAATTCTTAT
8410128 ATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTTGCATAAAACGCCGC
131 ATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCG-TTT--AT--AA-----C
*
8410193 TAATACTGTGTTATAGCGCGTTTTCCCACAAT
186 TAATACTGTGCTATAGCGCGTTTTCCCACAAT
8410225 CGCCACTAATTCTAATATACATTAAGACCAAACACTGCGTTTTGGTTAAGATAATTTGCGGCGTT
1 CGCCACTAATTCTAATATACATTAAGACCAAACACTGCGTTTTGGTTAAGATAATTTGCGGCGTT
* *
8410290 TCTTACAAAGCGCCTCTAATACTCTCCCTTAGCGGTGTTTTTCTGTAACCGCCACTAATTCTTAT
66 TCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTTTTTCTGTAACCGCCACTAATTCTTAT
*
8410355 ATACCTCAAGACAAAATGATGCGTTTTGGTTAAGATATTTTGCGGCGTTT-T-A-TAATACTGTG
131 ATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTATAACTAATACTGTG
8410417 CTATAGCGGCGTTTTCCCACAAT
196 CTATAGC-GCGTTTTCCCACAAT
* *
8410440 TGCCACTAATTCTAATATACATTAAGACCAAACACTGCATTTTGGTTAAGATAATTTGCGGCGTT
1 CGCCACTAATTCTAATATACATTAAGACCAAACACTGCGTTTTGGTTAAGATAATTTGCGGCGTT
* *
8410505 TCTTACAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTTTTTCCGTAACCGCCACTAATTCTTAT
66 TCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTTTTTCTGTAACCGCCACTAATTCTTAT
* *
8410570 ATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTACGGCGTTTA
131 ATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTA
8410621 CTAAAAAAAG
Statistics
Matches: 373, Mismatches: 21, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
214 16 0.04
215 186 0.50
220 1 0.00
223 1 0.00
226 3 0.01
227 166 0.45
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (217 bp):
CGCCACTAATTCTAATATACATTAAGACCAAACACTGCGTTTTGGTTAAGATAATTTGCGGCGTT
TCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTTTTTCTGTAACCGCCACTAATTCTTAT
ATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTATAACTAATACTGTG
CTATAGCGCGTTTTCCCACAAT
Found at i:8413804 original size:113 final size:113
Alignment explanation
Indices: 8413598--8413804 Score: 247
Period size: 113 Copynumber: 1.8 Consensus size: 113
8413588 TTGTCTTGAT
** * * * * *
8413598 GTATACTAGAATTAGTGGCGATTATGAGAAAACGCCGCTAAAGCAAGTATTAGCGGCGCATTGTG
1 GTATACTAGAATTAGTGGCGATTACAAAAAAACGCCACTAAAACAAGTATTAGCGGCACATTGCG
** * *
8413663 GGAAGCGCCGCAAATATCTTAACGAAAACATACCGTTTTGGTATCGAA
66 AAAAGCGCCGCAAATATCATAACCAAAACATACCGTTTTGGTATCGAA
* *
8413711 GTATATTAGAATTAGTGGCGCTTACAAAAAAACGCCACTAAAACAAGTCA-TAGCGGCAC-TTGC
1 GTATACTAGAATTAGTGGCGATTACAAAAAAACGCCACTAAAACAAGT-ATTAGCGGCACATTGC
* *
8413774 GAAAAGCGCCGCCATATATGATAACCAAAAC
65 GAAAAGCGCCG-CAAATATCATAACCAAAAC
8413805 GCAGAGTTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
112 12 0.16
113 64 0.83
114 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (113 bp):
GTATACTAGAATTAGTGGCGATTACAAAAAAACGCCACTAAAACAAGTATTAGCGGCACATTGCG
AAAAGCGCCGCAAATATCATAACCAAAACATACCGTTTTGGTATCGAA
Found at i:8414101 original size:74 final size:73
Alignment explanation
Indices: 8413964--8414103 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
8413954 GTGCTTGTTT
* * *
8413964 AGAAGCGCTGCAAAATATCTTAACCAGAACGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTG
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCCTGTAGTATACTAGAATTAGTG
8414029 GCGTTTGG
66 GCGTTTGG
* * * * * *
8414037 AGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCCTG-ATGTATACTATAGTTAG
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCCTGTA-GTATACTAGAATTAG
8414101 TGG
64 TGG
8414104 GGCTTACTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
73 31 0.55
74 25 0.45
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (73 bp):
AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCCTGTAGTATACTAGAATTAGTG
GCGTTTGG
Found at i:8414185 original size:188 final size:185
Alignment explanation
Indices: 8413664--8414241 Score: 449
Period size: 188 Copynumber: 3.1 Consensus size: 185
8413654 CGCATTGTGG
* * * ** * * * *
8413664 GAAGCGCCGC-AAATATCTTAACGAAAACATACCGTTTTGGTATCGAAGTATATTAGAATTAGTG
1 GAAGCGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
* * * * * * * * * *
8413728 GCGCTTACAAAAAAACGCCACTAAA-ACA-AGTCA-TAGCGGCACTTG-CGAAAAGCGCCGCCAT
66 GCG-TTAGAGAAAAACGCCGCTAAAGA-ATA-ACATTAGCGGCGCTTGTTGAGAAGCGCAGCAAA
* * * **
8413789 ATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGATTTAGTGGCGTTTATTA
128 ATAT-CTAACCAAAACGCAGAG-TTTGGTCTTGA-GTATATTAGAATTAGTGGCGTTT-GGA
*
8413851 GAAGTGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
1 GAAGCGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
** * * *
8413916 GCGTTAGAGAAAAACGCCGCTAAAGCGTAACATTAGCGGTGCTTGTTTAGAAGCGCTGCAAAATA
66 GCGTTAGAGAAAAACGCCGCTAAAGAATAACATTAGCGGCGCTTGTTGAGAAGCGCAGCAAAATA
* *
8413981 TCTTAACCAGAACGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTGGCGTTTGGA
131 TC-TAACCAAAACGCAGAGTTTGGTCTTG-AGTATATTAGAATTAGTGGCGTTTGGA
* ** * * * *
8414038 GAAGCGCCGCTAAATTTCTTAACCAAAAC-TCAGCGTTTTGGTC-CTGATGTATACTATAGTTAG
1 GAAGCGCCGCAAAAAATCTTAACCAAAACGT-AGAGTTTTGGTCTC-GATGTATAATACAATTAG
* * * ** *
8414101 TGGGGCTTACTAG-AAAACGCCGCTAAATAATAGTATTAGCGGCGC-T-TTGAGATAAGCGCAGT
64 TGGCG-TTA-GAGAAAAACGCCGCTAAAGAATAACATTAGCGGCGCTTGTTGAG--AAGCGCAGC
* * *
8414163 AAGATATGC-ACACCAAAACGCAGAGTTTGGTCTTGGGGTTTATTAGAATTAGTGGCGCTTATGG
125 AAAATAT-CTA-ACCAAAACGCAGAGTTTGGTCTT-GAGTATATTAGAATTAGTGGCG-TT-TGG
8414227 A
185 A
* *
8414228 TAAACGCCGCAAAA
1 GAAGCGCCGCAAAA
8414242 GCATACTATT
Statistics
Matches: 315, Mismatches: 58, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
186 6 0.02
187 87 0.28
188 171 0.54
189 36 0.11
190 15 0.05
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (185 bp):
GAAGCGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
GCGTTAGAGAAAAACGCCGCTAAAGAATAACATTAGCGGCGCTTGTTGAGAAGCGCAGCAAAATA
TCTAACCAAAACGCAGAGTTTGGTCTTGAGTATATTAGAATTAGTGGCGTTTGGA
Found at i:8414751 original size:7 final size:7
Alignment explanation
Indices: 8414736--8414792 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
8414726 TCATTATGGT
*
8414736 GTTTTGG
1 GTTTAGG
8414743 GTTTAGG
1 GTTTAGG
8414750 GTTTAGG
1 GTTTAGG
*
8414757 ATTTTAGG
1 -GTTTAGG
*
8414765 GTTTAAG
1 GTTTAGG
*
8414772 ATTTAGG
1 GTTTAGG
*
8414779 GTTTGGG
1 GTTTAGG
8414786 GTTTAGG
1 GTTTAGG
8414793 CTACTGTAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:8414778 original size:14 final size:15
Alignment explanation
Indices: 8414744--8414782 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8414734 GTGTTTTGGG
*
8414744 TTTAGGGTTTAGGAT
1 TTTAGGGTTTAAGAT
8414759 TTTAGGGTTTAAGA-
1 TTTAGGGTTTAAGAT
8414773 TTTAGGGTTT
1 TTTAGGGTTT
8414783 GGGGTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTAAGAT
Found at i:8418289 original size:21 final size:21
Alignment explanation
Indices: 8418263--8418334 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
8418253 CTACAACTTA
*
8418263 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
8418284 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
8418305 AAGTAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
8418326 AAGCAGAGG
1 AAGCAGAGG
8418335 AGAGCAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:8418699 original size:42 final size:42
Alignment explanation
Indices: 8418653--8418750 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
8418643 TTGTATAAAA
*
8418653 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
1 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCAT
* *
8418695 GTTCTTTAGCAGCGCTTAGAAAGAAACGCCACTAAAGACCAT
1 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCAT
*
8418737 GTTCTTTAGTGGCG
1 GTTCTTTAGCGGCG
8418751 TTTTTGTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
GTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCAT
Found at i:8419234 original size:18 final size:18
Alignment explanation
Indices: 8419211--8419250 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8419201 TATAATTTTA
*
8419211 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
8419229 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
8419247 AAAA
1 AAAA
8419251 TAAACATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:8420037 original size:43 final size:42
Alignment explanation
Indices: 8419956--8420152 Score: 175
Period size: 43 Copynumber: 4.6 Consensus size: 42
8419946 TTTTAGAACC
* * * * *
8419956 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAGGTCATGACT
1 TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGA-T
*
8419998 TTTAGCGACACTTTTCCCACAAACGCCTCTATAGATCATGATT
1 TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGA-T
* *
8420041 TTTAGCGGCGCTTTTCCCACAAACGCCTCTATAGAACA-GAT
1 TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGAT
** * * * *
8420082 CTTTAGCGACGCTTTTTCGTACATACGCCGCTATAGAATAAT-TT
1 -TTTAGCGACGC-TTTTCCCACAAACGCCTCTATAG-ATCATGAT
* * *
8420126 TTTAACGGCGCTTTTCGCACAAACGCC
1 TTTAGCGACGCTTTTCCCACAAACGCC
8420153 ACTAAAAGCA
Statistics
Matches: 128, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 39 0.30
43 85 0.66
44 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (42 bp):
TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGAT
Found at i:8420128 original size:85 final size:85
Alignment explanation
Indices: 8419956--8420158 Score: 216
Period size: 85 Copynumber: 2.4 Consensus size: 85
8419946 TTTTAGAACC
**
8419956 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAGGTCATGACTTTTAGCGACACTTTTCCCACAA
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACATGACTTTTAGCGACACTTTTCCCACAA
* *
8420020 ACGCCTCTATAGATCATGATT
66 ACGCCGCTATAGATAAT-ATT
* * * * **
8420041 TTTAGCGGCGCTTTTCCCACAAACGCCTCTATAGAACA-GA-TCTTTAGCGACGCTTTTTCGTAC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACATGACT-TTTAGCGACAC-TTTTCCCAC
*
8420104 ATACGCCGCTATAGAATAAT-TT
64 AAACGCCGCTATAG-ATAATATT
* * *
8420126 TTTAACGGCGCTTTTCGCACAAACGCCACTAAA
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAA
8420159 AGCATATCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
84 1 0.01
85 58 0.59
86 36 0.36
87 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACATGACTTTTAGCGACACTTTTCCCACAA
ACGCCGCTATAGATAATATT
Found at i:8420477 original size:43 final size:43
Alignment explanation
Indices: 8420411--8420501 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
8420401 ACGTATGCAA
* * *
8420411 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* * *
8420454 GGTAATAAAAGATATAATACATTTACTTAATCCAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
8420497 -GTAAT
1 GGTAAT
8420502 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:8424600 original size:15 final size:15
Alignment explanation
Indices: 8424577--8424620 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
8424567 ATCATAAATC
8424577 CTAACCCCTAAACC-
1 CTAACCCCTAAACCT
*
8424591 CATGACCCCT-AACCT
1 C-TAACCCCTAAACCT
8424606 CTAACCCCTAAACCT
1 CTAACCCCTAAACCT
8424621 TAAACTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.18
Consensus pattern (15 bp):
CTAACCCCTAAACCT
Found at i:8424672 original size:22 final size:22
Alignment explanation
Indices: 8424647--8424689 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8424637 AACCATAAAT
8424647 CATAATCCATAATCCCTAAAAC
1 CATAATCCATAATCCCTAAAAC
*
8424669 CATAATCCCTAATCCCTAAAA
1 CATAATCCATAATCCCTAAAA
8424690 TAGTAACTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (22 bp):
CATAATCCATAATCCCTAAAAC
Found at i:8425037 original size:15 final size:14
Alignment explanation
Indices: 8425015--8425049 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
8425005 TCCCAACCCT
8425015 TAAACCATAATCCC
1 TAAACCATAATCCC
*
8425029 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
8425044 TAAACC
1 TAAACC
8425050 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:8425496 original size:41 final size:41
Alignment explanation
Indices: 8425396--8425760 Score: 356
Period size: 41 Copynumber: 8.9 Consensus size: 41
8425386 AAAATGTTTC
* *
8425396 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
* * *
8425437 TAGTGGCGCTTTTT-AAAAAAGCCACTAAAACCCCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
* * *
8425477 TAGTGGCGCTTTTTAAAAAACGCCGCTAAAACACCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
** * * *
8425518 TAGCAACGCTTTTTCAAAAACACTGCTAAAGTCCCC-AGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCCGAGCAT
* * **
8425559 TAGCGGCGCCTTTTCAAACACGCCGCTAAAACCTAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
** * ** * *
8425600 TAGCGGCATTTTTTTAAAAATCGCCGCTAAAACATCAAACAT
1 TAGCGGCGCTTTTTCAAAAA-CGCCGCTAAAACCCCGAGCAT
* * * * *
8425642 TAGTGGCGCTTTTCCAAAAACGCTGCTAGAACACCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
* * * *
8425683 TAGCGGTGCATTTTCAAAAATGCCGCTAAAGCCCCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
*** * *
8425724 TAGCGGCGCTTTTTTGGAAACACCGCTAAAGCCCCGA
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGA
8425761 AAGGTAAGAA
Statistics
Matches: 260, Mismatches: 60, Indels: 8
0.79 0.18 0.02
Matches are distributed among these distances:
40 38 0.15
41 187 0.72
42 35 0.13
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
Found at i:8425738 original size:124 final size:122
Alignment explanation
Indices: 8425396--8425738 Score: 402
Period size: 124 Copynumber: 2.8 Consensus size: 122
8425386 AAAATGTTTC
* * * *
8425396 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAGTGGCGCTTTTTAAAAAAGCCA
1 TAGCGGCGCTTTTTCAAAAACGCTGCTAAAG-CCCCAGCATTAGCGGCGCTTTTCAAAAAAGCCG
* * *
8425461 CTAAAACCCCGAGCATTAGTGGCGC-TTTTTAAAAAACGCCGCTAAAACACCGAGCAT
65 CTAAAACCCCGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAACACCAAACAT
** * * *
8425518 TAGCAACGCTTTTTCAAAAACACTGCTAAAGTCCCCAGCATTAGCGGCGCCTTTTCAAACACGCC
1 TAGCGGCGCTTTTTCAAAAACGCTGCTAAAG-CCCCAGCATTAGCGGCG-CTTTTCAAAAAAGCC
** ** * *
8425583 GCTAAAACCTAGAGCATTAGCGGCATTTTTTTAAAAATCGCCGCTAAAACATCAAACAT
64 GCTAAAACCCCGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAACACCAAACAT
* * * * *
8425642 TAGTGGCGCTTTTCCAAAAACGCTGCTAGAA-CACCGAGCATTAGCGGTGCATTTTCAAAAATGC
1 TAGCGGCGCTTTTTCAAAAACGCTGCTA-AAGC-CCCAGCATTAGCGGCGC-TTTTCAAAAAAGC
*
8425706 CGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTT
63 CGCTAAAACCCCGAGCATTAGCGGCGCTTTTTT
8425739 GGAAACACCG
Statistics
Matches: 183, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
122 43 0.23
123 34 0.19
124 104 0.57
125 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (122 bp):
TAGCGGCGCTTTTTCAAAAACGCTGCTAAAGCCCCAGCATTAGCGGCGCTTTTCAAAAAAGCCGC
TAAAACCCCGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAACACCAAACAT
Found at i:8428630 original size:3 final size:3
Alignment explanation
Indices: 8428622--8428659 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8428612 AATCCACAAT
8428622 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
8428660 TTAATTGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:8430894 original size:10 final size:10
Alignment explanation
Indices: 8430879--8430925 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
8430869 ACCTAAATCC
8430879 TTTCTCTCAA
1 TTTCTCTCAA
8430889 TTTCTCTCCAA
1 TTTCTCT-CAA
8430900 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
8430912 TTCCTCTCAA
1 TTTCTCTCAA
8430922 TTTC
1 TTTC
8430926 CTCCGAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 12 0.38
11 11 0.34
12 9 0.28
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:8430918 original size:11 final size:11
Alignment explanation
Indices: 8430882--8430940 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
8430872 TAAATCCTTT
*
8430882 CTCTC-AATTT
1 CTCTCAAATTC
8430892 CTCTCCAATATT-
1 CTCT-CAA-ATTC
8430904 CTCTCAAATTC
1 CTCTCAAATTC
*
8430915 CTCTCAATTTC
1 CTCTCAAATTC
8430926 CTC-CGAAATTC
1 CTCTC-AAATTC
8430937 CTCT
1 CTCT
8430941 TAAAAAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 8 0.20
11 25 0.61
12 5 0.12
13 3 0.07
ACGTcount: A:0.22, C:0.36, G:0.02, T:0.41
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:8430922 original size:22 final size:22
Alignment explanation
Indices: 8430879--8430940 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
8430869 ACCTAAATCC
*
8430879 TTTCTCTC-AATTTCTCTCCAA
1 TTTCTCTCAAATTCCTCTCCAA
8430900 TATTCTCTCAAATTCCTCT-CAA
1 T-TTCTCTCAAATTCCTCTCCAA
8430922 TTTC-CTCCGAAATTCCTCT
1 TTTCTCT-C-AAATTCCTCT
8430941 TAAAAAAAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 21 0.58
23 8 0.22
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTCTCTCAAATTCCTCTCCAA
Found at i:8430990 original size:30 final size:30
Alignment explanation
Indices: 8430940--8431018 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
8430930 GAAATTCCTC
8430940 TTAAAAAAAGCTTTAA-TTTTTTAATTATT
1 TTAAAAAAAGCTTTAATTTTTTTAATTATT
8430969 TTAAAAAAAGCTTTAATTTTTTTAATTATT
1 TTAAAAAAAGCTTTAATTTTTTTAATTATT
8430999 TTAAAAAAAGCTTTAATTTT
1 TTAAAAAAAGCTTTAATTTT
8431019 ATTTTTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TTAAAAAAAGCTTTAATTTTTTTAATTATT
Found at i:8435167 original size:126 final size:125
Alignment explanation
Indices: 8434886--8435176 Score: 483
Period size: 125 Copynumber: 2.3 Consensus size: 125
8434876 TCAGGCCAAA
* *
8434886 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
8434951 ATCCTGCTTAAAGCATTTTTACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCATTTTTACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
* * *
8435011 CAGGAGCTACTGTAGCAAAAGTGCGTCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGATAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * **
8435076 ATCCTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTTTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCATTTTT-ACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
*
8435137 CAGGAGCTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
8435177 TTTTTAAATA
Statistics
Matches: 154, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 81 0.53
126 73 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (125 bp):
CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
ATCCTGCTTAAAGCATTTTTACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
Found at i:8435400 original size:9 final size:8
Alignment explanation
Indices: 8435374--8435441 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 8
8435364 ATTTTTTCTT
8435374 TAAAACCC
1 TAAAACCC
8435382 T-AAA-CC
1 TAAAACCC
8435388 TAAATACCC
1 TAAA-ACCC
8435397 TAAAACCC
1 TAAAACCC
8435405 T--AA-CC
1 TAAAACCC
*
8435410 TTAAA-CC
1 TAAAACCC
*
8435417 TTAAACCC
1 TAAAACCC
8435425 T-AAA-CC
1 TAAAACCC
8435431 TAAAACCC
1 TAAAACCC
8435439 TAA
1 TAA
8435442 CCAACAGGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
5 3 0.06
6 8 0.15
7 20 0.38
8 15 0.29
9 6 0.12
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (8 bp):
TAAAACCC
Found at i:8435423 original size:14 final size:14
Alignment explanation
Indices: 8435374--8435441 Score: 77
Period size: 14 Copynumber: 4.8 Consensus size: 14
8435364 ATTTTTTCTT
8435374 TAAAACCCTAAACC
1 TAAAACCCTAAACC
8435388 TAAATACCCTAAAACCC
1 TAAA-ACCCT-AAA-CC
*
8435405 T--AACCTTAAACC
1 TAAAACCCTAAACC
*
8435417 TTAAACCCTAAACC
1 TAAAACCCTAAACC
8435431 TAAAACCCTAA
1 TAAAACCCTAA
8435442 CCAACAGGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 3 0.07
13 3 0.07
14 28 0.61
15 6 0.13
16 3 0.07
17 3 0.07
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAACCCTAAACC
Found at i:8448996 original size:24 final size:24
Alignment explanation
Indices: 8448969--8449018 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
8448959 TTTGCCATAG
8448969 TATTCATCATCGTTAGAAAGTGGA
1 TATTCATCATCGTTAGAAAGTGGA
8448993 TATTCATCATCGTTAGAAAGTGGA
1 TATTCATCATCGTTAGAAAGTGGA
8449017 TA
1 TA
8449019 ATACTTACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (24 bp):
TATTCATCATCGTTAGAAAGTGGA
Found at i:8450347 original size:20 final size:21
Alignment explanation
Indices: 8450312--8450350 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8450302 ATGTTTTTGC
*
8450312 TGTTTATTATTATTATATATT
1 TGTTTATCATTATTATATATT
8450333 TGTTTATCA-TATTATATA
1 TGTTTATCATTATTATATA
8450351 AATGTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTATCATTATTATATATT
Found at i:8450921 original size:28 final size:26
Alignment explanation
Indices: 8450872--8450929 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 26
8450862 CAAATTCCTA
8450872 TTTAAAAAAGCTTTAATTTTTTAATTATT
1 TTTAAAAAAGCTTTAA-TTTTT-ATT-TT
*
8450901 TTTAAAAAAGTTTTCAA-TTTTATTTT
1 TTTAAAAAAGCTTT-AATTTTTATTTT
8450927 TTT
1 TTT
8450930 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 3 0.11
28 4 0.15
29 13 0.48
30 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTAAAAAAGCTTTAATTTTTATTTT
Found at i:8452215 original size:21 final size:21
Alignment explanation
Indices: 8452191--8452240 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8452181 AAATTTTATT
8452191 TTTAAAAATTAAAATTAAAAA
1 TTTAAAAATTAAAATTAAAAA
* **
8452212 TTTAAAAATTTATTTTAAAAA
1 TTTAAAAATTAAAATTAAAAA
*
8452233 TTAAAAAA
1 TTTAAAAA
8452241 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAAATTAAAATTAAAAA
Found at i:8452265 original size:15 final size:14
Alignment explanation
Indices: 8452242--8452279 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
8452232 ATTAAAAAAA
8452242 TTTAAAAAAAGTAT
1 TTTAAAAAAAGTAT
8452256 TTTAAAAAAAGTAT
1 TTTAAAAAAAGTAT
8452270 TTTAAAAAAA
1 TTTAAAAAAA
8452280 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (14 bp):
TTTAAAAAAAGTAT
Found at i:8452292 original size:45 final size:46
Alignment explanation
Indices: 8452259--8452356 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
8452249 AAAGTATTTT
8452259 AAAAAAAGTA-TTTTAAAAAAATTTTAAAATTAAAAAAAAATTAAA
1 AAAAAAAGTATTTTTAAAAAAATTTTAAAATTAAAAAAAAATTAAA
** * *
8452304 AAAAAAAGTATTTTTAAAAGTATTTTAAAGTTAAAAATAAAAATAAA
1 AAAAAAAGTATTTTTAAAAAAATTTTAAAATTAAAAA-AAAATTAAA
*
8452351 ATAAAA
1 AAAAAA
8452357 TATTTATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 10 0.22
46 23 0.50
47 13 0.28
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (46 bp):
AAAAAAAGTATTTTTAAAAAAATTTTAAAATTAAAAAAAAATTAAA
Found at i:8452302 original size:17 final size:17
Alignment explanation
Indices: 8452271--8452304 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8452261 AAAAAGTATT
**
8452271 TTAAAAAAATTTTAAAA
1 TTAAAAAAAAATTAAAA
8452288 TTAAAAAAAAATTAAAA
1 TTAAAAAAAAATTAAAA
8452305 AAAAAAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAAAAATTAAAA
Found at i:8452310 original size:12 final size:11
Alignment explanation
Indices: 8452284--8452309 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8452274 AAAAAATTTT
8452284 AAAATTAAAAA
1 AAAATTAAAAA
8452295 AAAATTAAAAA
1 AAAATTAAAAA
8452306 AAAA
1 AAAA
8452310 AGTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATTAAAAA
Found at i:8453352 original size:97 final size:96
Alignment explanation
Indices: 8453202--8453485 Score: 333
Period size: 97 Copynumber: 2.9 Consensus size: 96
8453192 AGTAACCCTA
* * *
8453202 AACCCCAAACCCTAATTTATTTAAGTTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTTT-CTTAAAAA-ACTAAACACTAAACCCTAATCTAA
8453267 TTTTTTTAAAAATTTATAATTAATTTACTCAAGT
63 TTTTTTTAAAAATTTATAATTAATTTACTCAAGT
* * * * * *
8453301 AACCTTGAACCCTAATTTATTTGATTTTTTCTTAAAAATTCTTAACTCTAAACCCTAATCTATTT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAA-ACTAAACACTAAACCCTAATCTAATT
** *
8453366 TTTTTAAAAA-AAATTAATTAAATTACTCAAGT
65 TTTTTAAAAATTTA-TAATTAATTTACTCAAGT
* * *
8453398 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAA-
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAAAC--TAAACACTAAACCCTAATCTAAT
*
8453461 -TTTTGAAAAATTTATAATTAATTTA
64 TTTTTTAAAAATTTATAATTAATTTA
8453486 ATTGACAAAC
Statistics
Matches: 156, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
95 19 0.12
96 3 0.02
97 100 0.64
98 14 0.09
99 20 0.13
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAAACTAAACACTAAACCCTAATCTAATTT
TTTTAAAAATTTATAATTAATTTACTCAAGT
Found at i:8453692 original size:69 final size:69
Alignment explanation
Indices: 8453605--8453743 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
8453595 CCTAACCGTA
8453605 GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
1 GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
8453670 AAGG
66 AAGG
* * * *
8453674 GGACACACGGGCAAAACGCATCCTTGAGGAATCGTTTTGCCTACTTGGACATAAAGCGCGCCCTT
1 GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
8453739 AAGG
66 AAGG
8453743 G
1 G
8453744 AGTGATTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (69 bp):
GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
AAGG
Found at i:8454762 original size:23 final size:23
Alignment explanation
Indices: 8454736--8454811 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
8454726 GCACTACCTT
8454736 ATTAATATTAAAAATTTTAAAAC
1 ATTAATATTAAAAATTTTAAAAC
* * ** * *
8454759 ATTATTA-TAGACTTTTTCACTACC
1 ATTAATATTAAAAATTTT-A-AAAC
8454783 TTATTAATATTAAAAATTTTAAAAC
1 --ATTAATATTAAAAATTTTAAAAC
8454808 ATTA
1 ATTA
8454812 TTATAGACTT
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 7 0.19
23 11 0.31
24 2 0.06
25 2 0.06
26 7 0.19
27 7 0.19
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (23 bp):
ATTAATATTAAAAATTTTAAAAC
Found at i:8454782 original size:49 final size:49
Alignment explanation
Indices: 8454727--8454824 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
8454717 ATTTATTCAG
8454727 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
1 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
8454776 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
1 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
8454825 TTTTAAGACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (49 bp):
CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
Found at i:8454812 original size:26 final size:26
Alignment explanation
Indices: 8454734--8454814 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
8454724 CAGCACTACC
8454734 TTATTAATATTAAAAATTTTAAAACA
1 TTATTAATATTAAAAATTTTAAAACA
* ** ** *
8454760 TTA-T--TA-TAGACTTTTTCACTACC
1 TTATTAATATTAAAAATTTT-AAAACA
8454783 TTATTAATATTAAAAATTTTAAAACA
1 TTATTAATATTAAAAATTTTAAAACA
8454809 TTATTA
1 TTATTA
8454815 TAGACTTTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 7 0.18
23 8 0.21
24 1 0.03
25 1 0.03
26 14 0.37
27 7 0.18
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (26 bp):
TTATTAATATTAAAAATTTTAAAACA
Found at i:8459215 original size:17 final size:17
Alignment explanation
Indices: 8459195--8459227 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8459185 AACTTTTTGC
8459195 TTTTT-GATTTAGTATT
1 TTTTTCGATTTAGTATT
*
8459211 TTTTTCGATTTCGTATT
1 TTTTTCGATTTAGTATT
8459228 AGTATCCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTTTCGATTTAGTATT
Found at i:8459483 original size:15 final size:15
Alignment explanation
Indices: 8459463--8459494 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8459453 GGCCGTATGA
8459463 TAGTTGGGCTAGGTG
1 TAGTTGGGCTAGGTG
8459478 TAGTTGGGCTAGGTG
1 TAGTTGGGCTAGGTG
8459493 TA
1 TA
8459495 ATTTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.44, T:0.34
Consensus pattern (15 bp):
TAGTTGGGCTAGGTG
Found at i:8460151 original size:41 final size:41
Alignment explanation
Indices: 8460075--8460266 Score: 276
Period size: 41 Copynumber: 4.7 Consensus size: 41
8460065 TAGGCTTGAG
* * * * *
8460075 GCCTAATACAATTACACCGGCACAAAGCCTGCTAGGCACAAA
1 GCCTAATATAAAT-CACCGGCACGAAGCCTACTAGGCACAGA
* * * *
8460117 GCCTGATATAAATCACCAGCATGAAGCCTACTAGGCATAGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
8460158 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
*
8460199 GCCTAATATAAATCACCGGCACGAAGTCTACTAGGCACAGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
*
8460240 GCCTAATATAAATCACCGGTACGAAGC
1 GCCTAATATAAATCACCGGCACGAAGC
8460267 TTGCTAAACT
Statistics
Matches: 134, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 124 0.93
42 10 0.07
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (41 bp):
GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
Found at i:8460290 original size:82 final size:82
Alignment explanation
Indices: 8460075--8460290 Score: 245
Period size: 82 Copynumber: 2.6 Consensus size: 82
8460065 TAGGCTTGAG
* * * * ** *
8460075 GCCTAATACAATTACACCGGCACAAAGCCTGCTAGGCACAAAGCCTGATATAAATCACCAGCATG
1 GCCTAATATAAAT-CACCGGCACGAAGCCTACTAAACACAAAGCCTGATATAAATCACCAGCACG
*
8460140 AAGCCTACTAGGCATAGA
65 AAGCCTACTAGGCACAGA
** * * *
8460158 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGAGCCTAATATAAATCACCGGCACGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAAACACAAAGCCTGATATAAATCACCAGCACGA
*
8460223 AGTCTACTAGGCACAGA
66 AGCCTACTAGGCACAGA
* * * *
8460240 GCCTAATATAAATCACCGGTACGAAGCTTGCTAAACTCAAAGTCC-GATATA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAAACACAAAG-CCTGATATA
8460291 TTATCTCTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
82 101 0.89
83 13 0.11
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (82 bp):
GCCTAATATAAATCACCGGCACGAAGCCTACTAAACACAAAGCCTGATATAAATCACCAGCACGA
AGCCTACTAGGCACAGA
Found at i:8465505 original size:3 final size:3
Alignment explanation
Indices: 8465499--8465543 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
8465489 AAAAAAAAAG
* * * *
8465499 TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA CAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8465544 AAAAATCTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8467582 original size:132 final size:132
Alignment explanation
Indices: 8467429--8467803 Score: 529
Period size: 132 Copynumber: 2.8 Consensus size: 132
8467419 TGCTGCTCAG
* * *
8467429 GGAGACATGATTTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTA
1 GGAGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTA
* * * * *
8467494 AATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCACCGTCTTCGATCTGCTCCACT-ACTGTT
66 AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCAGCTCCACTGACAGTA
8467558 TA
131 TA
* * * *
8467560 CGGAGACAGGATCTACAATCTTCAACCTACTCCACTGTTGCTTAGGGAGATAAGACTGGTGGCTT
1 -GGAGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTT
* * * *
8467625 AAATCTGCTTCCCTACTTCTTTGGGAAGATAAGATTCGCCG-CATTCGATCAGCTCCGCTGTCAG
65 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTC-TTCGATCAGCTCCACTGACAG
8467689 TATA
129 TATA
* * *
8467693 GGAAGGCAAGATTTGCTATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTT
1 GG-AGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTT
*
8467758 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTTC
65 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTC
8467804 TCCAATCCAC
Statistics
Matches: 214, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
131 1 0.00
132 111 0.52
133 101 0.47
134 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
GGAGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTA
AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCAGCTCCACTGACAGTA
TA
Found at i:8468470 original size:54 final size:54
Alignment explanation
Indices: 8468407--8468514 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
8468397 TCTGAAGGGA
8468407 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
1 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
8468461 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
1 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
8468515 ATTCTAAACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (54 bp):
TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
Found at i:8474929 original size:145 final size:145
Alignment explanation
Indices: 8474666--8474960 Score: 536
Period size: 145 Copynumber: 2.0 Consensus size: 145
8474656 CTTGTTTTTT
8474666 CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
1 CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
* *
8474731 AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCGTAATTCCCACATGATAATCGCACTG
66 AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCATAATTCCCACATGATAATCACACTG
8474796 TGCGTTTGCATCATA
131 TGCGTTTGCATCATA
*
8474811 CCATTAACAGCATGATTGGGTAGCGGATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
1 CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
* * *
8474876 AGTTTCTTAAAAGTAGTGCAATTTTCTATAGAATGCCCCATAATTCCCGCATGATAATCACACTG
66 AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCATAATTCCCACATGATAATCACACTG
8474941 TGCGTTTGCATCATA
131 TGCGTTTGCATCATA
8474956 CCATT
1 CCATT
8474961 TAGGGTACGG
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (145 bp):
CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCATAATTCCCACATGATAATCACACTG
TGCGTTTGCATCATA
Found at i:8476257 original size:132 final size:132
Alignment explanation
Indices: 8475974--8476756 Score: 1313
Period size: 132 Copynumber: 5.9 Consensus size: 132
8475964 CTGCATCGAC
*
8475974 AGTGGATCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
8476039 GTAATTCTACTTCCC-GGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
8476103 GT
131 GT
*
8476105 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
8476170 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
8476235 AT
131 GT
* *
8476237 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
8476302 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCTAA-CA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
8476366 GT
131 GT
* * * *
8476368 AGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACACTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
8476433 GTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
8476498 AT
131 GT
*
8476500 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
8476565 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
8476630 GT
131 GT
* * * *
8476632 AGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAAGTCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * * *
8476697 GTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 GTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
8476757 GAAGTTGCAG
Statistics
Matches: 616, Mismatches: 32, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
131 203 0.33
132 410 0.67
133 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:8476421 original size:263 final size:264
Alignment explanation
Indices: 8475974--8476755 Score: 1356
Period size: 263 Copynumber: 3.0 Consensus size: 264
8475964 CTGCATCGAC
* *
8475974 AGTGGATCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
8476039 GTAATTCTACTTCCC-GGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
8476103 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAAGC
8476168 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAG
196 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAG
8476233 CAAT
261 CAAT
*
8476237 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
8476302 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCTAA-CA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* *
8476366 GTAGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACACTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAAGC
* *
8476431 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAG
196 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAG
8476496 CAAT
261 CAAT
8476500 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
8476565 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* ** *
8476630 GTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAAGT
131 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAAGC
* * * * *
8476695 CAGTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCC
196 CAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCC
8476756 TGAAGTTGCA
Statistics
Matches: 492, Mismatches: 23, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
263 334 0.68
264 155 0.32
265 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (264 bp):
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAG
CAAT
Found at i:8476667 original size:44 final size:44
Alignment explanation
Indices: 8476056--8476668 Score: 141
Period size: 44 Copynumber: 14.0 Consensus size: 44
8476046 TACTTCCCGG
* * * * * *
8476056 GCAACAGTGGAATAGATTGAAGAT-TTCAGATCTTATCTCCCTAA
1 GCAATAGTGGAGTAGATCGAAGATGGT-AGATTTTACCTCCCTAA
* * ** **
8476100 GCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCT-AA
** * * * *** * * **
8476145 GTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTGG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTAA
* * * * * * *
8476188 GCAACAGTGGAATAGATTGAAGAT-TTCAGATCTTATCTCCCCAA
1 GCAATAGTGGAGTAGATCGAAGATGGT-AGATTTTACCTCCCTAA
* ** **
8476232 GCAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCT-AA
** * * *** * * **
8476277 GTTATAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTGG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTAA
* * * * * **
8476320 GCAACAGTGGAATAGATTGAAGAT-TTCAGATCTTATTTCCCTAA
1 GCAATAGTGGAGTAGATCGAAGATGGT-AGATTTTACCTCCCTAA
* * * ** **
8476364 -CAGTAGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCTGTG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCT-AA
** * * * *** * * **
8476408 GTTACATTGGAGTACA-CTGAAGCCAGTA-ATTCTACTTCCCTGG
1 GCAATAGTGGAGTAGATC-GAAGATGGTAGATTTTACCTCCCTAA
* * * * * * *
8476451 GCAACAGTGGAATAAATTGAAGAT-TTCAGATCTTATCTCCCTAA
1 GCAATAGTGGAGTAGATCGAAGATGGT-AGATTTTACCTCCCTAA
* * **
8476495 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCT-AA
** * * *** * * **
8476540 GTTATAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTGG
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTAA
* * * * * *
8476583 GCAACAGTGGAATAGATTGAAGAT-TTCAGATCTTATCTCCCTAA
1 GCAATAGTGGAGTAGATCGAAGATGGT-AGATTTTACCTCCCTAA
*
8476627 GCAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCT
1 GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCT
8476669 GTGGTTACAT
Statistics
Matches: 384, Mismatches: 165, Indels: 40
0.65 0.28 0.07
Matches are distributed among these distances:
42 4 0.01
43 104 0.27
44 208 0.54
45 68 0.18
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
GCAATAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTAA
Found at i:8476714 original size:395 final size:394
Alignment explanation
Indices: 8475974--8476756 Score: 1318
Period size: 395 Copynumber: 2.0 Consensus size: 394
8475964 CTGCATCGAC
* * *
8475974 AGTGGATCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATAGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACACTGAAGCCA
* *
8476039 GTAATTCTACTTCCCGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
66 GTAATTCTACTTCCCGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAGCAA
*
8476104 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
131 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
8476169 AGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAGC
196 AGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAGC
* *
8476234 AATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAG
261 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
* * *
8476299 CCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATTTCCCTA
326 CCAGTAATCCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTGTAAG-TCTTATCTCCCTA
8476363 ACAGT
390 ACAGT
* *
8476368 AGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACATTGGAGTACACTGAAGCCA
1 AGTGGAGCAGATCGAAGATAGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACACTGAAGCCA
8476433 GTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCC-GGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
8476498 ATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
130 ATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*
8476563 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
195 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAG
* * * *
8476628 CAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACATTGGAGTACATTGAA
260 CAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
* * * *
8476693 GTCAGTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCTTATCTCCCT
325 GCCAGTAATCCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATTGTAAGTCTTATCTCCCT
8476757 GAAGTTGCAG
Statistics
Matches: 363, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
394 76 0.21
395 284 0.78
396 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (394 bp):
AGTGGAGCAGATCGAAGATAGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACACTGAAGCCA
GTAATTCTACTTCCCGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAGCAA
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCCAAGC
AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
CCAGTAATCCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTGTAAGTCTTATCTCCCTAA
CAGT
Found at i:8478249 original size:17 final size:16
Alignment explanation
Indices: 8478229--8478268 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8478219 TCTATTATTT
*
8478229 TATATACATATTGTACA
1 TATATACATATT-TAAA
*
8478246 TATATACGTATTTAAA
1 TATATACATATTTAAA
8478262 TATATAC
1 TATATAC
8478269 GAATGCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (16 bp):
TATATACATATTTAAA
Found at i:8484473 original size:3 final size:3
Alignment explanation
Indices: 8484467--8484511 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
8484457 TAAAAAAAAG
* * * *
8484467 TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA CAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8484512 AAAAATCTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8491244 original size:15 final size:15
Alignment explanation
Indices: 8491224--8491270 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8491214 ACAAAATCTC
*
8491224 ATAAAAACATAGTTT
1 ATAAAAACATACTTT
*
8491239 ATAAAACCATACTTT
1 ATAAAAACATACTTT
8491254 A-AAAATACATATCTTT
1 ATAAAA-ACATA-CTTT
8491270 A
1 A
8491271 AATTATAGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAACATACTTT
Found at i:8491317 original size:13 final size:13
Alignment explanation
Indices: 8491299--8491330 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8491289 GAGCACGTAT
8491299 AAAACATAACTTG
1 AAAACATAACTTG
*
8491312 AAAACATGACTTG
1 AAAACATAACTTG
8491325 AAAACA
1 AAAACA
8491331 GAGTTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:8493720 original size:42 final size:42
Alignment explanation
Indices: 8493669--8493750 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
8493659 CCCGGAATTG
* *
8493669 GCTCTAGAAA-CTTCGCCTTCTTTCCCACCATCCGTGTATCCA
1 GCTCCAGAAACCTT-GCCTTCTCTCCCACCATCCGTGTATCCA
8493711 GCTCCAGAAACCTTGCCTTCTCTCCCACCATCCGTGTATC
1 GCTCCAGAAACCTTGCCTTCTCTCCCACCATCCGTGTATC
8493751 TGGCCCCCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.92
43 3 0.08
ACGTcount: A:0.18, C:0.40, G:0.12, T:0.29
Consensus pattern (42 bp):
GCTCCAGAAACCTTGCCTTCTCTCCCACCATCCGTGTATCCA
Found at i:8498505 original size:61 final size:61
Alignment explanation
Indices: 8498410--8498527 Score: 236
Period size: 61 Copynumber: 1.9 Consensus size: 61
8498400 ACCTGTAGAA
8498410 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAACAGGT
1 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAACAGGT
8498471 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAAC
1 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAAC
8498528 TTAAAGAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (61 bp):
TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAACAGGT
Found at i:8501288 original size:18 final size:19
Alignment explanation
Indices: 8501265--8501300 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8501255 TGTAATATTT
*
8501265 ATATTTTTTATTA-AATAG
1 ATATTTATTATTATAATAG
8501283 ATATTTATTATTATAATA
1 ATATTTATTATTATAATA
8501301 ATTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTTATTATTATAATAG
Found at i:8501323 original size:19 final size:19
Alignment explanation
Indices: 8501301--8501346 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
8501291 TATTATAATA
*
8501301 ATTATTATTAATTGTTATT
1 ATTATTATTAATTGATATT
8501320 ATTA-T-TTAATTGATATT
1 ATTATTATTAATTGATATT
8501337 A-TATTATTAA
1 ATTATTATTAA
8501347 ATCAATGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 5 0.21
19 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTATTATTAATTGATATT
Found at i:8502067 original size:126 final size:124
Alignment explanation
Indices: 8501875--8502131 Score: 363
Period size: 126 Copynumber: 2.1 Consensus size: 124
8501865 AAATAGTGGG
** * * * *
8501875 AAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTGAAATTGTGGCCTCGTGGATGCGATT
1 AAATCGCTGATACAAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGATGCGATT
*
8501940 TCGGTACAG-TGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTCTAAGCAAATAGTATA
66 TCGCTACAGTTGGTCATGTAAGAAATAA-TTTTTTTTGACG-TTTCTAAGCAAATAGTATA
* *
8502000 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTGAAATCGCGCCCTCGTGGATGCGAT
1 AAATCGCTGATACAAGGATGCTAT-TTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGATGCGAT
* * * *
8502065 TTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTGTC
65 TTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATA
8502125 AAATCGC
1 AAATCGC
8502132 GCCCTCGTAG
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 44 0.38
126 56 0.48
127 17 0.15
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (124 bp):
AAATCGCTGATACAAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGATGCGATT
TCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATA
Found at i:8505422 original size:23 final size:22
Alignment explanation
Indices: 8505392--8505706 Score: 253
Period size: 23 Copynumber: 13.8 Consensus size: 22
8505382 ATTAGCTTAG
8505392 GGTTAGGGTTTTACATTAAGTTA
1 GGTTAGGGTTTTA-ATTAAGTTA
8505415 GGTTAGGGTTTTAAATTAAGTTA
1 GGTTAGGGTTTT-AATTAAGTTA
*
8505438 GCTTAGGGTTTTTAATTAAATTAAGTTA
1 GGTTAGGG---TT--TT-AATTAAGTTA
*
8505466 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGG-TTTTAATTAAGTTA
*
8505489 AGTTA-GGTTTTAAGTTAAGTTA
1 GGTTAGGGTTTTAA-TTAAGTTA
8505511 GGTTAGGGTTTTACATTAAGTTA
1 GGTTAGGGTTTTA-ATTAAGTTA
8505534 GGTTAGGGTTTTTAATTAA---A
1 GGTTAGGG-TTTTAATTAAGTTA
*
8505554 --TTAGGTTTTTAATTCAA-TTA
1 GGTTAGGGTTTTAATT-AAGTTA
8505574 GGTTAGGGTTTTACATTAAGTTA
1 GGTTAGGGTTTTA-ATTAAGTTA
8505597 GGTTAGGGTTTTTAATTAA---A
1 GGTTAGGG-TTTTAATTAAGTTA
*
8505617 --TTAGGTTTTTAATTCAA-TTA
1 GGTTAGGGTTTTAATT-AAGTTA
8505637 GGTTAGGGTTTTTAATTCAATTAAGTTA
1 GGTTAGGG---TT--TT-AATTAAGTTA
*
8505665 GGTTTGGGTTTTTAATTCAA-TTA
1 GGTTAGGG-TTTTAATT-AAGTTA
8505688 GGTTAGGGTTTTTAATTAA
1 GGTTAGGG-TTTTAATTAA
8505707 TTCAATTAGG
Statistics
Matches: 249, Mismatches: 12, Indels: 63
0.77 0.04 0.19
Matches are distributed among these distances:
17 16 0.06
18 14 0.06
20 4 0.02
21 6 0.02
22 32 0.13
23 111 0.45
24 18 0.07
25 2 0.01
26 8 0.03
27 4 0.02
28 34 0.14
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.47
Consensus pattern (22 bp):
GGTTAGGGTTTTAATTAAGTTA
Found at i:8505495 original size:28 final size:28
Alignment explanation
Indices: 8505406--8505497 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
8505396 AGGGTTTTAC
8505406 ATTAAGTTAGGTTAGGG---TT--TTAA
1 ATTAAGTTAGGTTAGGGTTTTTAATTAA
*
8505429 ATTAAGTTAGCTTAGGGTTTTTAATTAA
1 ATTAAGTTAGGTTAGGGTTTTTAATTAA
8505457 ATTAAGTTAGGTTAGGGTTTTTAATTAA
1 ATTAAGTTAGGTTAGGGTTTTTAATTAA
8505485 ATTAAGTTAGGTT
1 ATTAAGTTAGGTT
8505498 TTAAGTTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
23 16 0.26
26 2 0.03
28 44 0.71
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (28 bp):
ATTAAGTTAGGTTAGGGTTTTTAATTAA
Found at i:8505506 original size:17 final size:17
Alignment explanation
Indices: 8505481--8505514 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8505471 GGGTTTTTAA
8505481 TTAAATTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
*
8505498 TTAAGTTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
8505515 AGGGTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTAAATTAAGTTAGGTT
Found at i:8505529 original size:40 final size:39
Alignment explanation
Indices: 8505456--8505648 Score: 124
Period size: 45 Copynumber: 4.6 Consensus size: 39
8505446 TTTTTAATTA
*
8505456 AATTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTTT
1 AATTAAGTTAGGTTAGGG---TT--TTACATTAAGTTAGGTTTT
8505500 AAGTTAAGTTAGGTTAGGGTTTTACATTAAGTTAGGTTAGGGTT
1 AA-TTAAGTTAGGTTAGGGTTTTACATTAAGTTAGGTT----TT
* ** * *
8505544 -TTTAA-TTAAATTAGGTTTTTAATTCAATTAGGTTAGGGTTTT
1 AATTAAGTTAGGTTAGGGTTTT-A--C-ATTAAGTTA-GGTTTT
*
8505586 ACATTAAGTTAGGTTAGGGTTTTTA-ATTAAATTAGGTTTTT
1 A-ATTAAGTTAGGTTAGGG-TTTTACATTAAGTTAGG-TTTT
8505627 AATTCAA-TTAGGTTAGGGTTTT
1 AATT-AAGTTAGGTTAGGGTTTT
8505649 TAATTCAATT
Statistics
Matches: 121, Mismatches: 12, Indels: 37
0.71 0.07 0.22
Matches are distributed among these distances:
39 4 0.03
40 32 0.26
41 26 0.21
42 9 0.07
44 9 0.07
45 33 0.27
46 8 0.07
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (39 bp):
AATTAAGTTAGGTTAGGGTTTTACATTAAGTTAGGTTTT
Found at i:8505562 original size:17 final size:17
Alignment explanation
Indices: 8505540--8505640 Score: 76
Period size: 17 Copynumber: 5.2 Consensus size: 17
8505530 GTTAGGTTAG
8505540 GGTTTTTAATTAAATTA
1 GGTTTTTAATTAAATTA
8505557 GGTTTTTAATTCAATTAGGTTA
1 GGTTTTTAATT-AA--A--TTA
*
8505579 GGGTTTTACATTAAGTTAGGTTA
1 GGTTTTTA-ATTAA---A--TTA
8505602 GGGTTTTTAATTAAATTA
1 -GGTTTTTAATTAAATTA
*
8505620 GGTTTTTAATTCAATTA
1 GGTTTTTAATTAAATTA
8505637 GGTT
1 GGTT
8505641 AGGGTTTTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 16
0.79 0.03 0.17
Matches are distributed among these distances:
17 31 0.42
18 5 0.07
20 2 0.03
22 12 0.16
23 16 0.22
24 7 0.10
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.50
Consensus pattern (17 bp):
GGTTTTTAATTAAATTA
Found at i:8505575 original size:63 final size:63
Alignment explanation
Indices: 8505457--8505691 Score: 337
Period size: 63 Copynumber: 3.6 Consensus size: 63
8505447 TTTTAATTAA
*
8505457 ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTTTAAGTT-AAGTTAGGTTAGGGTT
1 ATTAAGTTAGGTTAGGGTTTTTAATTAAATT-AG---GTTTTTAA-TTCAA-TTAGGTTAGGGTT
8505521 TTAC
60 TTAC
8505525 ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTTTTAATTCAATTAGGTTAGGGTTTTAC
1 ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTTTTAATTCAATTAGGTTAGGGTTTTAC
8505588 ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTTTTAATTCAATTAGGTTAGGGTTTTTAAT
1 ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTTTTAATTCAATTAGGTTAGGG-TTTT-A-
8505653 TC
63 -C
* *
8505655 AATTAAGTTAGGTTTGGGTTTTTAATTCAATTAGGTT
1 -ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
8505692 AGGGTTTTTA
Statistics
Matches: 158, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
63 76 0.48
64 13 0.08
65 1 0.01
67 3 0.02
68 65 0.41
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.48
Consensus pattern (63 bp):
ATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTTTTAATTCAATTAGGTTAGGGTTTTAC
Found at i:8505667 original size:28 final size:27
Alignment explanation
Indices: 8505627--8505728 Score: 124
Period size: 28 Copynumber: 3.9 Consensus size: 27
8505617 TTAGGTTTTT
8505627 AATTCAATTAGGTTAGGGTTTTTAATTC
1 AATT-AATTAGGTTAGGGTTTTTAATTC
*
8505655 AATTAAGTTAGGTTTGGGTTTTTAATTC
1 AATTAA-TTAGGTTAGGGTTTTTAATTC
8505683 ----AATTAGGTTAGGGTTTTTAATT-
1 AATTAATTAGGTTAGGGTTTTTAATTC
*
8505705 AATTCAATTAGGTTTGGGTTTTTA
1 AATT-AATTAGGTTAGGGTTTTTA
8505729 CATGGGTATT
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
23 19 0.29
24 2 0.03
27 20 0.31
28 24 0.37
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (27 bp):
AATTAATTAGGTTAGGGTTTTTAATTC
Found at i:8505696 original size:51 final size:50
Alignment explanation
Indices: 8505620--8505728 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 50
8505610 AATTAAATTA
8505620 GGTTTTTAATTCAATTAGGTTAGGGTTTTTAATTCAATT-AAGTTAGGTTTG
1 GGTTTTTAATTCAATTAGGTTAGGGTTTTTAATT-AATTCAA-TTAGGTTTG
8505671 GGTTTTTAATTCAATTAGGTTAGGGTTTTTAATTAATTCAATTAGGTTTG
1 GGTTTTTAATTCAATTAGGTTAGGGTTTTTAATTAATTCAATTAGGTTTG
8505721 GGTTTTTA
1 GGTTTTTA
8505729 CATGGGTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 21 0.37
51 36 0.63
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (50 bp):
GGTTTTTAATTCAATTAGGTTAGGGTTTTTAATTAATTCAATTAGGTTTG
Found at i:8507865 original size:14 final size:15
Alignment explanation
Indices: 8507848--8507881 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8507838 AATAAATATC
8507848 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
8507862 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
8507877 TAAAA
1 TAAAA
8507882 TATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:8508014 original size:29 final size:30
Alignment explanation
Indices: 8507980--8508037 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
8507970 TGAAAATATT
*
8507980 AAAAATTTTAAAA-TTATTTAAAAAAAATA
1 AAAAATTGTAAAATTTATTTAAAAAAAATA
*
8508009 AAAAATTGTAAAATTTTTTTAAAAAAAAT
1 AAAAATTGTAAAATTTATTTAAAAAAAAT
8508038 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAATTGTAAAATTTATTTAAAAAAAATA
Found at i:8508109 original size:22 final size:22
Alignment explanation
Indices: 8508079--8508120 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8508069 ATTTGGAGAT
*
8508079 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
8508101 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
8508121 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:8508128 original size:30 final size:30
Alignment explanation
Indices: 8508092--8508150 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
8508082 TTGAAGGAAA
* *
8508092 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
8508122 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
8508151 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:8508141 original size:52 final size:51
Alignment explanation
Indices: 8508070--8508172 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
8508060 TTAATATGGA
* * *
8508070 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAG-GAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGAGAA-TTGAGAG
*
8508121 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGAGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGAGAATTGAGAG
8508173 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 39 0.85
53 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGAGAATTGAGAG
Found at i:8508147 original size:22 final size:22
Alignment explanation
Indices: 8508122--8508199 Score: 122
Period size: 22 Copynumber: 3.5 Consensus size: 22
8508112 ATTTGAGAGT
*
8508122 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
8508144 TTGAGAGAATTTTTGAA-GAGAA
1 TTGAGAGAATTTTTGAAGGA-AA
8508166 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
*
8508188 TTGAAAGAATTT
1 TTGAGAGAATTT
8508200 GTTTGTGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
21 2 0.04
22 48 0.92
23 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:8509566 original size:41 final size:37
Alignment explanation
Indices: 8509519--8509615 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 37
8509509 CGACCTCGAG
*
8509519 TCGATGAGACACTGGGTGTCACTATTTTACTTCGGATTGA
1 TCGATGAGACACTGGGTGTCAC---TTTACTTCGGATAGA
* * * *
8509559 TTCGATGAGATATTGGGTATCACTTTACTTCGGCTAGA
1 -TCGATGAGACACTGGGTGTCACTTTACTTCGGATAGA
*
8509597 CCGATGAGACACTGGGTGT
1 TCGATGAGACACTGGGTGT
8509616 TAACTTTGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 15 0.32
38 13 0.28
41 19 0.40
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (37 bp):
TCGATGAGACACTGGGTGTCACTTTACTTCGGATAGA
Found at i:8509622 original size:38 final size:39
Alignment explanation
Indices: 8509520--8509633 Score: 97
Period size: 38 Copynumber: 2.9 Consensus size: 39
8509510 GACCTCGAGT
* * * * *
8509520 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATTGATT
1 CGATGAGACACTGGGTGTTA--ACTTTACTTCGGCTAGATC
* * * *
8509561 CGATGAGATATTGGGT-ATCACTTTACTTCGGCTAGA-C
1 CGATGAGACACTGGGTGTTAACTTTACTTCGGCTAGATC
*
8509598 CGATGAGACACTGGGTGTTAACTTTGCTTCGAGCTA
1 CGATGAGACACTGGGTGTTAACTTTACTTCG-GCTA
8509634 TCTGTTGACA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 14 0.25
38 25 0.44
39 4 0.07
41 14 0.25
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTTAACTTTACTTCGGCTAGATC
Found at i:8511106 original size:3 final size:3
Alignment explanation
Indices: 8511098--8511138 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
8511088 ACAAGACATA
*
8511098 AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8511139 CAACTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8531188 original size:21 final size:23
Alignment explanation
Indices: 8531139--8531189 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 23
8531129 CAGCATTAAA
*
8531139 AAAGATTGATCACAAAGTTGATC
1 AAAGATTGATCACAAAGGTGATC
*
8531162 -AA-ATTGA-CACCAAGGTG-TC
1 AAAGATTGATCACAAAGGTGATC
8531181 AAAGATTGA
1 AAAGATTGA
8531190 AAAGTCGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 10 0.42
22 2 0.08
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (23 bp):
AAAGATTGATCACAAAGGTGATC
Found at i:8539156 original size:24 final size:24
Alignment explanation
Indices: 8539106--8539156 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8539096 CAAAATTAAT
* *
8539106 AAAATAACATATAATTATATTTCA
1 AAAATAAAATATAATTATATATCA
*
8539130 AAAATAAAATATTATTATTATAT-A
1 AAAATAAAATATAATTA-TATATCA
8539154 AAA
1 AAA
8539157 CTGATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAATATAATTATATATCA
Found at i:8551930 original size:21 final size:20
Alignment explanation
Indices: 8551904--8551965 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
8551894 TTTTGGTGGA
8551904 TCAGCTCTTACGAGCTTCTGT
1 TCAGCT-TTACGAGCTTCTGT
*
8551925 TCAGCTTTTACGGGCTTCTGT
1 TCAGC-TTTACGAGCTTCTGT
*
8551946 TAAGCTTT-CGAGCTTCTGT
1 TCAGCTTTACGAGCTTCTGT
8551965 T
1 T
8551966 GGCGTATTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 11 0.30
20 3 0.08
21 22 0.59
22 1 0.03
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (20 bp):
TCAGCTTTACGAGCTTCTGT
Found at i:8557410 original size:19 final size:20
Alignment explanation
Indices: 8557383--8557430 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
8557373 GTTGGTAAAT
*
8557383 ACATGTGTA-ATAATAATAA
1 ACATATGTATATAATAATAA
*
8557402 ACATATGTATTTAATAATAA
1 ACATATGTATATAATAATAA
8557422 A-ATATGTAT
1 ACATATGTAT
8557431 TGCTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
ACATATGTATATAATAATAA
Found at i:8557431 original size:19 final size:20
Alignment explanation
Indices: 8557393--8557431 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8557383 ACATGTGTAA
8557393 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
8557413 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
8557432 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:8557570 original size:15 final size:15
Alignment explanation
Indices: 8557546--8557576 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8557536 AAACAGGGGG
*
8557546 AAAAAGAAAGAAAGA
1 AAAAAAAAAGAAAGA
8557561 AAAAAAAAAGAAAGA
1 AAAAAAAAAGAAAGA
8557576 A
1 A
8557577 GGAGAAACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAGA
Found at i:8560697 original size:67 final size:67
Alignment explanation
Indices: 8560589--8560717 Score: 213
Period size: 67 Copynumber: 1.9 Consensus size: 67
8560579 TTTCCAATTC
* * *
8560589 AGAGAGCACACTGCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGTCTAAATCCCTTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCTTG
8560654 CA
66 CA
* *
8560656 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCGGTCCAGGCTAAATCCC
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCC
8560718 CTGTAATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCTTG
CA
Found at i:8564515 original size:40 final size:40
Alignment explanation
Indices: 8564394--8564533 Score: 121
Period size: 40 Copynumber: 3.5 Consensus size: 40
8564384 GACTTTGAGT
* *
8564394 CGATGAGACACTGGGTGTC-AATTCATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATT-ATTACTTCGAATT-ATC
* * *
8564435 CGATGAAGA-ACTGGGTG-CCAA-T-TTACTTC-AGTTTAGC
1 CGATG-AGACACTGGGTGTCAAATTATTACTTCGA-ATTATC
*
8564472 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
* * *
8564512 CGATAAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
8564534 CTGTTGTGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
36 3 0.04
37 13 0.16
38 12 0.15
39 1 0.01
40 31 0.39
41 16 0.20
42 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:8564772 original size:57 final size:57
Alignment explanation
Indices: 8564704--8564820 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
8564694 CATAGAATAC
* *
8564704 ATGAGTTAAATACTCATGAATTGAATATGGAATGGATAGTGCCATTGTTTAAATGAT
1 ATGAGTTAAATACTCATGAACTAAATATGGAATGGATAGTGCCATTGTTTAAATGAT
8564761 ATGAGTTAAATACTCATGAACTAAATATGGAATGGATAGTGCCATTGTTTAAATGAT
1 ATGAGTTAAATACTCATGAACTAAATATGGAATGGATAGTGCCATTGTTTAAATGAT
8564818 ATG
1 ATG
8564821 TGAACCAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (57 bp):
ATGAGTTAAATACTCATGAACTAAATATGGAATGGATAGTGCCATTGTTTAAATGAT
Found at i:8567161 original size:9 final size:10
Alignment explanation
Indices: 8567138--8567207 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 10
8567128 TGGTTAATTT
8567138 TATTTTTTAA
1 TATTTTTTAA
8567148 TATTTTTTAA
1 TATTTTTTAA
*
8567158 -ATTTTTTATT
1 TATTTTTTA-A
8567168 TCATTTTTATAA
1 T-ATTTTT-TAA
**
8567180 T-TTAGTTAA
1 TATTTTTTAA
8567189 TATTTTTT-A
1 TATTTTTTAA
8567198 TATTATTTTA
1 TATT-TTTTA
8567208 TAATAGCCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
9 17 0.36
10 21 0.45
12 7 0.15
13 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:8567996 original size:18 final size:18
Alignment explanation
Indices: 8567975--8568016 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
8567965 TTAAAATAAA
*
8567975 ATTTTATGCTAAAATTTT
1 ATTTAATGCTAAAATTTT
8567993 ATTTAATGCTAAAATTTT
1 ATTTAATGCTAAAATTTT
8568011 ATTTAA
1 ATTTAA
8568017 ATAGGTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (18 bp):
ATTTAATGCTAAAATTTT
Found at i:8571061 original size:9 final size:9
Alignment explanation
Indices: 8571044--8571080 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8571034 TGAGTTTTCG
8571044 AATTCGAAT
1 AATTCGAAT
*
8571053 AACTCGAAT
1 AATTCGAAT
*
8571062 ATTTCGAAT
1 AATTCGAAT
8571071 AATTCGAAT
1 AATTCGAAT
8571080 A
1 A
8571081 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8571069 original size:18 final size:18
Alignment explanation
Indices: 8571046--8571081 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8571036 AGTTTTCGAA
8571046 TTCGAATAACTCGAATAT
1 TTCGAATAACTCGAATAT
*
8571064 TTCGAATAATTCGAATAT
1 TTCGAATAACTCGAATAT
8571082 CAAACTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TTCGAATAACTCGAATAT
Found at i:8571163 original size:30 final size:31
Alignment explanation
Indices: 8571129--8571189 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
8571119 AAACTTTTTT
* *
8571129 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
8571159 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
8571190 CTCCCCTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
Found at i:8571201 original size:30 final size:30
Alignment explanation
Indices: 8571139--8571201 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
8571129 ACTTTTCCCT
*
8571139 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCTTCCCACTTCCCCCC
8571169 CAAAACTTTTACTCCCTTCCC-C-TCCCCTCC
1 CAAAACTTTTACT-CCTTCCCACTTCCCC-CC
8571199 CAA
1 CAA
8571202 CCCCCCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
30 19 0.63
31 7 0.23
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (30 bp):
CAAAACTTTTACTCCTTCCCACTTCCCCCC
Found at i:8572657 original size:170 final size:170
Alignment explanation
Indices: 8572375--8572705 Score: 572
Period size: 170 Copynumber: 1.9 Consensus size: 170
8572365 TAAAGGTGTT
* * * *
8572375 CCAGAATGGGAAAAGGGCAATGGTAGAAGAAATTTCAACACTCATCAAGAATGACATGTGAGAGC
1 CCAGAATGGGAAAAAGGCAATGGTAGAAGAAATTTCAACACTCAACAAGAATGACACGTGAAAGC
8572440 TTGTACCAAAATCATTGGATGCTGATTTTGTTACCTGTAAATGGGTTTACAAATTAAAAAAATGA
66 TTGTACCAAAATCATTGGATGCTGATTTTGTTACCTGTAAATGGGTTTACAAATTAAAAAAATGA
* * *
8572505 GTTGATGGTACAATCGAGAGGTCCAAATCTCGATTTTGTA
131 GTTGACGGTACAATCGAGAGATACAAATCTCGATTTTGTA
*
8572545 CCAGAATGGGAAAAATGCAATGGTAGAAGAAATTTCAACACTCAACAAGAATGACACGTGAAAGC
1 CCAGAATGGGAAAAAGGCAATGGTAGAAGAAATTTCAACACTCAACAAGAATGACACGTGAAAGC
* *
8572610 TTGTACCAAAATCATTGGATGTTGATTTTGTTACTTGTAAATGGGTTTACAAATTAAAAAAATGA
66 TTGTACCAAAATCATTGGATGCTGATTTTGTTACCTGTAAATGGGTTTACAAATTAAAAAAATGA
8572675 GTTGACGGTACAATCGAGAGATACAAATCTC
131 GTTGACGGTACAATCGAGAGATACAAATCTC
8572706 TCCTTGTTGC
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 151 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (170 bp):
CCAGAATGGGAAAAAGGCAATGGTAGAAGAAATTTCAACACTCAACAAGAATGACACGTGAAAGC
TTGTACCAAAATCATTGGATGCTGATTTTGTTACCTGTAAATGGGTTTACAAATTAAAAAAATGA
GTTGACGGTACAATCGAGAGATACAAATCTCGATTTTGTA
Found at i:8577185 original size:35 final size:36
Alignment explanation
Indices: 8577118--8577185 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
8577108 AAATGATAAC
* **
8577118 AAAATAGTAAAAAAAGTAACAAGAATTTTTTTTAAG
1 AAAATAGTAAAAAAAGTAACAAAAATAGTTTTTAAG
8577154 AAAA-AGTAAAAAACAGTAA-AAAAATAGTTTTT
1 AAAATAGTAAAAAA-AGTAACAAAAATAGTTTTT
8577186 TTTTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 19 0.68
36 9 0.32
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (36 bp):
AAAATAGTAAAAAAAGTAACAAAAATAGTTTTTAAG
Found at i:8577185 original size:36 final size:36
Alignment explanation
Indices: 8577118--8577186 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
8577108 AAATGATAAC
* *
8577118 AAAATAGTAAAAAAAGTAACAAGAATTTTTTTTAAG
1 AAAATAGTAAAAAAAGTAACAAAAATGTTTTTTAAG
8577154 AAAA-AGTAAAAAACAGTAA-AAAAATAGTTTTTT
1 AAAATAGTAAAAAA-AGTAACAAAAAT-GTTTTTT
8577187 TTTTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 14 0.48
36 15 0.52
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (36 bp):
AAAATAGTAAAAAAAGTAACAAAAATGTTTTTTAAG
Found at i:8577566 original size:16 final size:17
Alignment explanation
Indices: 8577527--8577567 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
8577517 ATATTAAAAA
*
8577527 TATAATATTATTATTTT
1 TATAATTTTATTATTTT
*
8577544 AAT-ATTTTA-TATTTT
1 TATAATTTTATTATTTT
8577559 TATAATTTT
1 TATAATTTT
8577568 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 8 0.40
16 10 0.50
17 2 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATAATTTTATTATTTT
Found at i:8578999 original size:4 final size:4
Alignment explanation
Indices: 8578990--8579021 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
8578980 AACAGAAGGG
8578990 AGAA AGAA AGAA A-AA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
8579022 AGGATCAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Done.