Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 35 of 356
Found at i:11717985 original size:48 final size:48
Alignment explanation
Indices: 11717927--11718018 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
11717917 AGAGATTAAG
11717927 CTATCCTGGTTTCAAAAATACCAAAATTACTAAAAACGGGACAATGAA
1 CTATCCTGGTTTCAAAAATACCAAAATTACTAAAAACGGGACAATGAA
*
11717975 CTATCTTGGTTTCAAAAATACCAAAATTACTAAAAACGGGACAA
1 CTATCCTGGTTTCAAAAATACCAAAATTACTAAAAACGGGACAA
11718019 GGAAACTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (48 bp):
CTATCCTGGTTTCAAAAATACCAAAATTACTAAAAACGGGACAATGAA
Found at i:11718764 original size:2 final size:2
Alignment explanation
Indices: 11718757--11718828 Score: 54
Period size: 2 Copynumber: 36.0 Consensus size: 2
11718747 ATAATCTATT
* * * * * * *
11718757 GA GA GA GA GA GT GA GA GT GA GT GA GA GA GA GT GA GT GT GT GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
11718799 GT GA GA GA GA GA GA GA AA GA AA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11718829 CCACTCATGG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.42, C:0.00, G:0.47, T:0.11
Consensus pattern (2 bp):
GA
Found at i:11722691 original size:66 final size:66
Alignment explanation
Indices: 11722609--11722742 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
11722599 GAAAGAAAAA
11722609 TAAAAATAAAATCGAGGGTGAAAAACACTAGTTGAAGGATCATATTCACGAACCTTCAACTTGTA
1 TAAAAATAAAATCGAGGGTGAAAAACACTAGTTGAAGGATCATATTCACGAACCTTCAACTTGTA
11722674 T
66 T
11722675 TAAAAATAAAATCGAGGGTGAAAAACACTAGTTGAAGGATCATATTCACGAACCTTCAACTTGTA
1 TAAAAATAAAATCGAGGGTGAAAAACACTAGTTGAAGGATCATATTCACGAACCTTCAACTTGTA
11722740 T
66 T
11722741 TA
1 TA
11722743 CTCTTACCAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (66 bp):
TAAAAATAAAATCGAGGGTGAAAAACACTAGTTGAAGGATCATATTCACGAACCTTCAACTTGTA
T
Found at i:11724047 original size:27 final size:27
Alignment explanation
Indices: 11724001--11724150 Score: 210
Period size: 27 Copynumber: 5.5 Consensus size: 27
11723991 CGTGTGAGGT
*
11724001 AGCCTTTGTGGCGATCTATGAAAAGGA
1 AGCCTTTGTGGCGATTTATGAAAAGGA
* *
11724028 AGCATTTGTAGCGATTTATGAAAAAGGA
1 AGCCTTTGTGGCGATTTATG-AAAAGGA
11724056 AGCCTTTGTGGCGATTTATGAAAAAGGA
1 AGCCTTTGTGGCGATTTATG-AAAAGGA
*
11724084 AGCCTTTGTGGCGATTTATGAAAAAGA
1 AGCCTTTGTGGCGATTTATGAAAAGGA
* * *
11724111 AGCCTTTATGGCGATCTATGAAAAAGA
1 AGCCTTTGTGGCGATTTATGAAAAGGA
*
11724138 AGCATTTGTGGCG
1 AGCCTTTGTGGCG
11724151 CACTTTAAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 59 0.53
28 53 0.47
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (27 bp):
AGCCTTTGTGGCGATTTATGAAAAGGA
Found at i:11724063 original size:28 final size:28
Alignment explanation
Indices: 11724001--11724150 Score: 225
Period size: 28 Copynumber: 5.5 Consensus size: 28
11723991 CGTGTGAGGT
*
11724001 AGCCTTTGTGGCGATCTATG-AAAAGGA
1 AGCCTTTGTGGCGATTTATGAAAAAGGA
* *
11724028 AGCATTTGTAGCGATTTATGAAAAAGGA
1 AGCCTTTGTGGCGATTTATGAAAAAGGA
11724056 AGCCTTTGTGGCGATTTATGAAAAAGGA
1 AGCCTTTGTGGCGATTTATGAAAAAGGA
11724084 AGCCTTTGTGGCGATTTATGAAAAA-GA
1 AGCCTTTGTGGCGATTTATGAAAAAGGA
* *
11724111 AGCCTTTATGGCGATCTATGAAAAA-GA
1 AGCCTTTGTGGCGATTTATGAAAAAGGA
*
11724138 AGCATTTGTGGCG
1 AGCCTTTGTGGCG
11724151 CACTTTAAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 55 0.49
28 58 0.51
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (28 bp):
AGCCTTTGTGGCGATTTATGAAAAAGGA
Found at i:11724113 original size:55 final size:56
Alignment explanation
Indices: 11724001--11724150 Score: 243
Period size: 55 Copynumber: 2.7 Consensus size: 56
11723991 CGTGTGAGGT
*
11724001 AGCCTTTGTGGCGATCTATG-AAAAGGAAGCATTTGTAGCGATTTATGAAAAAGGA
1 AGCCTTTGTGGCGATCTATGAAAAAGGAAGCATTTGTGGCGATTTATGAAAAAGGA
* *
11724056 AGCCTTTGTGGCGATTTATGAAAAAGGAAGCCTTTGTGGCGATTTATGAAAAA-GA
1 AGCCTTTGTGGCGATCTATGAAAAAGGAAGCATTTGTGGCGATTTATGAAAAAGGA
*
11724111 AGCCTTTATGGCGATCTATGAAAAA-GAAGCATTTGTGGCG
1 AGCCTTTGTGGCGATCTATGAAAAAGGAAGCATTTGTGGCG
11724151 CACTTTAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 14 0.16
55 44 0.50
56 30 0.34
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (56 bp):
AGCCTTTGTGGCGATCTATGAAAAAGGAAGCATTTGTGGCGATTTATGAAAAAGGA
Found at i:11724515 original size:24 final size:24
Alignment explanation
Indices: 11724488--11724558 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
11724478 AGCTTGGCAC
11724488 TTGTCTAAGCGTCAAACAACATCA
1 TTGTCTAAGCGTCAAACAACATCA
* *
11724512 TTGT-T-A--GT-ATACTTGACA-C-
1 TTGTCTAAGCGTCAAAC--AACATCA
11724531 TTGTCTAAGCGTCAAACAACATCA
1 TTGTCTAAGCGTCAAACAACATCA
11724555 TTGT
1 TTGT
11724559 TAGTATACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 18
0.61 0.07 0.32
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 4 0.12
22 4 0.12
23 4 0.12
24 11 0.32
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (24 bp):
TTGTCTAAGCGTCAAACAACATCA
Found at i:11724533 original size:43 final size:43
Alignment explanation
Indices: 11724480--11724569 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
11724470 CAATCAATAG
*
11724480 CTTGGCACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
1 CTTGACACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
11724523 CTTGACACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
1 CTTGACACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
11724566 CTTG
1 CTTG
11724570 CACATATTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (43 bp):
CTTGACACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
Found at i:11725119 original size:46 final size:47
Alignment explanation
Indices: 11725058--11725238 Score: 262
Period size: 46 Copynumber: 3.9 Consensus size: 47
11725048 TTTAACATGA
* * * * *
11725058 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATATCACGT
*
11725104 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATATCACGT
11725150 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATATCACGT
**
11725196 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATATCA
11725239 GAGAGCACAC
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
45 5 0.04
46 119 0.96
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATATCACGT
Found at i:11727339 original size:11 final size:11
Alignment explanation
Indices: 11727323--11727372 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
11727313 ATACTAATAA
11727323 AATAATAAAAT
1 AATAATAAAAT
11727334 AATAATAAAAT
1 AATAATAAAAT
*
11727345 ATATTATTAAAAT
1 A-A-TAATAAAAT
*
11727358 ATTAATAAAAT
1 AATAATAAAAT
11727369 AATA
1 AATA
11727373 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 1 0.03
13 9 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:11727355 original size:24 final size:25
Alignment explanation
Indices: 11727328--11727374 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
11727318 AATAAAATAA
11727328 TAAAATAATAATAAAAT-ATATTAT
1 TAAAATAATAATAAAATAATATTAT
*
11727352 TAAAATATTAATAAAATAATATT
1 TAAAATAATAATAAAATAATATT
11727375 TATCTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAATAATAAAATAATATTAT
Found at i:11727356 original size:32 final size:32
Alignment explanation
Indices: 11727311--11727408 Score: 87
Period size: 32 Copynumber: 3.1 Consensus size: 32
11727301 TTCTTTCTTT
11727311 ATATACTAATAAAATAATAA-AATAATAATAAA
1 ATATACTAATAAAATAATAATAA-AATAATAAA
* * * *
11727343 ATATATTATTAAAATATTAATAAAATAAT-AT
1 ATATACTAATAAAATAATAATAAAATAATAAA
* * *
11727374 TTAT-CTAATTAAATAATTATAAAAT-ATCAAA
1 ATATACTAATAAAATAATAATAAAATAAT-AAA
11727405 ATAT
1 ATAT
11727409 CTCTAGCATC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
29 2 0.04
30 16 0.31
31 8 0.16
32 23 0.45
33 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (32 bp):
ATATACTAATAAAATAATAATAAAATAATAAA
Found at i:11729793 original size:17 final size:17
Alignment explanation
Indices: 11729773--11729827 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
11729763 GTGTGTTGAA
11729773 ATTTATAAGGTTTAAAG
1 ATTTATAAGGTTTAAAG
**
11729790 ATTTAT--TTTTCTAAA-
1 ATTTATAAGGTT-TAAAG
11729805 ATTTATAAGGTTTAAAG
1 ATTTATAAGGTTTAAAG
11729822 ATTTAT
1 ATTTAT
11729828 TTTTCTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 8 0.27
16 8 0.27
17 14 0.47
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (17 bp):
ATTTATAAGGTTTAAAG
Found at i:11729808 original size:32 final size:32
Alignment explanation
Indices: 11729771--11729833 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
11729761 TTGTGTGTTG
11729771 AAATTTATAAGGTTTAAAGATTTATTTTTCTA
1 AAATTTATAAGGTTTAAAGATTTATTTTTCTA
11729803 AAATTTATAAGGTTTAAAGATTTATTTTTCT
1 AAATTTATAAGGTTTAAAGATTTATTTTTCT
11729834 CTCACTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (32 bp):
AAATTTATAAGGTTTAAAGATTTATTTTTCTA
Found at i:11730565 original size:24 final size:24
Alignment explanation
Indices: 11730538--11730588 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11730528 ATTCTTACTA
* **
11730538 CATCAATATCCATTTCATGCATTT
1 CATCAATAACCATTTCATAAATTT
11730562 CATCAATAACCATTTCATAAATTT
1 CATCAATAACCATTTCATAAATTT
11730586 CAT
1 CAT
11730589 TTCTATATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (24 bp):
CATCAATAACCATTTCATAAATTT
Found at i:11731285 original size:44 final size:44
Alignment explanation
Indices: 11731232--11731324 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
11731222 GATTAAACCA
*
11731232 AAGTAACAGTACGACACACA-AGGTGCCTCATCGACTTAAAGTCG
1 AAGTAACAGTACGACACACATA-GTGCCTCATCGACTCAAAGTCG
** * *
11731276 AAGTAACAGTACGACACTTATAGTGCCTCATCGGCTCAAGGTCG
1 AAGTAACAGTACGACACACATAGTGCCTCATCGACTCAAAGTCG
11731320 AAGTA
1 AAGTA
11731325 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (44 bp):
AAGTAACAGTACGACACACATAGTGCCTCATCGACTCAAAGTCG
Found at i:11732694 original size:31 final size:28
Alignment explanation
Indices: 11732659--11732726 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
11732649 TGTTTATCTC
*
11732659 ATAAAAATCTTATAATTTAATTAATTATCAA
1 ATAAAAATCTT-TAATTTAA-TAATAAT-AA
* *
11732690 ATAAACATCTTTTATTTAATAATAATAA
1 ATAAAAATCTTTAATTTAATAATAATAA
11732718 ATAATAAAT
1 ATAA-AAAT
11732727 ATCTATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 7 0.22
31 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAAAAATCTTTAATTTAATAATAATAA
Found at i:11734847 original size:42 final size:43
Alignment explanation
Indices: 11734774--11734856 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
11734764 GAATTGAGTA
* **
11734774 CTTCGTTTACTCGATGTCATAGTTCAACTATGGTCTTACACAT
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
*
11734817 CTTCATTTA-TCGATGTCATAGCCCAGCTATGGTCTTACAC
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACAC
11734857 GAATCACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (43 bp):
CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
Found at i:11735003 original size:31 final size:31
Alignment explanation
Indices: 11734968--11735116 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
11734958 CTTGTCACTT
*
11734968 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
11734999 GTAGCTGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
11735030 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
11735061 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
11735092 GTAGCCGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
11735117 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:11735174 original size:57 final size:50
Alignment explanation
Indices: 11735094--11735218 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
11735084 CTGATCAGGT
* * * * * * *
11735094 AGCCGAAACTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGT
1 AGCCGAAGCTATCACTTATCACTT-TCACTTATCATTGATCAAATAAGTGC
* *
11735145 AGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGATCAAATAAGTGC
1 AGCCGAAGCTATCACTTATCACTTTCACTTATCATTGATCAAATAAGTGC
11735195 AGCCGAAGCTATCACTTATCACTT
1 AGCCGAAGCTATCACTTATCACTT
11735219 GTTGCTATGG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 44 0.69
51 20 0.31
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (50 bp):
AGCCGAAGCTATCACTTATCACTTTCACTTATCATTGATCAAATAAGTGC
Found at i:11738452 original size:16 final size:17
Alignment explanation
Indices: 11738423--11738455 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
11738413 ATTTGTTGGA
11738423 TTCTTTTATTTCTTTTC
1 TTCTTTTATTTCTTTTC
11738440 TTCTTTT-TTTCTTTTC
1 TTCTTTTATTTCTTTTC
11738456 CTTTTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTATTTCTTTTC
Found at i:11756895 original size:23 final size:23
Alignment explanation
Indices: 11756865--11756911 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11756855 TAGGGTTTAG
11756865 GATTTCTGCAAGAATAATTCTAA
1 GATTTCTGCAAGAATAATTCTAA
11756888 GATTTCTGCAAGAATAATTCTAA
1 GATTTCTGCAAGAATAATTCTAA
11756911 G
1 G
11756912 TAGACATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (23 bp):
GATTTCTGCAAGAATAATTCTAA
Found at i:11757436 original size:128 final size:126
Alignment explanation
Indices: 11756900--11757543 Score: 761
Period size: 126 Copynumber: 5.0 Consensus size: 126
11756890 TTTCTGCAAG
* * * *
11756900 AATAATTCTAAGTAGACATTTCTAAACAAATAGTGTCGAAAAACACTTTAAAGTTTAAACAGGAT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTC-AAAAACGC-TTCAAG------CAGGAT
* * *
11756965 GCACTGTCAGCAAAATTTTTG-GAAAAAGCTCTCACGTTGG-CGCTCTTTTGCTACAGTAGTTCG
58 GCACTGTCAGCAAAA-TTTCGAAAAAAAGCTCCCACG-TGGACGCTCTTTTGCTACAGTAGTTCG
*
11757028 GAGAAA
121 TAGAAA
* * * * * * *
11757034 AATAATTTTGAGTAGATATTTCTGAACAGATAGTGTCGAAAACACTTCAATCAGGATGCACTATC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
* * * * * *
11757099 AACAAAATTTCTAGAGAAAGCTCCCACGTGAACGCTCTTTTGCTATAGTAGTTCGTAGAAA
66 AGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
11757160 AATAATTCTGAGCAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
* * *
11757225 AGTAAAATTTCGAAAAAAAGCTCCTACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* ** * *
11757286 AATAATTCTAAGTAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
** *
11757351 AGCAAAATTTCGGAAAAAAAAGCTCCCACGTAAACGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTC-G-AAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
11757414 AATAATTCTGAGTAGACATTTCTAAACAAATGGTGTCAAAAAACGCTTCAAACAGGATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTC-AAAAACGCTTCAAGCAGGATGCACTGT
* * ** *
11757479 CAGCAAAATTTAGAAAAAAAGCTCCCATGTGGTTGCTCTTTTGCTATAGTAGTTCGTAGAAA
65 CAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
11757541 AAT
1 AAT
11757544 GAGGCTATAA
Statistics
Matches: 445, Mismatches: 60, Indels: 17
0.85 0.11 0.03
Matches are distributed among these distances:
125 5 0.01
126 237 0.53
127 46 0.10
128 79 0.18
129 35 0.08
132 4 0.01
133 7 0.02
134 32 0.07
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:11761015 original size:18 final size:18
Alignment explanation
Indices: 11760979--11761015 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11760969 GAAAAATGAA
*
11760979 ACATATAAGGGTTAAGAT
1 ACATATAAGGGCTAAGAT
*
11760997 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAAGAT
11761015 A
1 A
11761016 TGCACATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAAGAT
Found at i:11761611 original size:7 final size:7
Alignment explanation
Indices: 11761599--11761623 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11761589 CATTACTTAT
11761599 ATACATA
1 ATACATA
11761606 ATACATA
1 ATACATA
11761613 ATACATA
1 ATACATA
11761620 ATAC
1 ATAC
11761624 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:11761629 original size:7 final size:7
Alignment explanation
Indices: 11761619--11761651 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
11761609 CATAATACAT
11761619 AATACTA
1 AATACTA
11761626 AATACTA
1 AATACTA
11761633 AATACTA
1 AATACTA
11761640 AATACTA
1 AATACTA
11761647 AATAC
1 AATAC
11761652 GAAACCACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:11761629 original size:14 final size:14
Alignment explanation
Indices: 11761599--11761644 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
11761589 CATTACTTAT
11761599 ATACATAATAC-ATA
1 ATACATAATACTA-A
11761613 ATACATAATACTAA
1 ATACATAATACTAA
11761627 ATAC-TAAATACTAA
1 ATACAT-AATACTAA
11761641 ATAC
1 ATAC
11761645 TAAATACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (14 bp):
ATACATAATACTAA
Found at i:11762641 original size:48 final size:46
Alignment explanation
Indices: 11762585--11762720 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 46
11762575 ATGCAAACAT
*
11762585 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAAAATCAA-TAGTATTGAAATT-TAATTA-AATTTG
* *
11762633 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAAAATC-AATAGTATTG-AAATTTAATTAAATTTG
* *
11762681 TATAAATTAAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAAA-ATC-AATAGTATTG-AAATTTAA
11762721 AATTATCACT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.03
48 45 0.60
49 28 0.37
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (46 bp):
CATAAATGAAAAAAAAATCAATAGTATTGAAATTTAATTAAATTTG
Found at i:11762706 original size:49 final size:47
Alignment explanation
Indices: 11762585--11762720 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 47
11762575 ATGCAAACAT
* *
11762585 CATAAATGAAAAAAAA-ATCAAGCAGTATTGAAATTGTAATTATAATTG
1 CATAAATTAAAAAAAATATCAA-TAGTATTGAAATT-TAATTATAATTG
* *
11762633 CATAAA-TGAATAAAATATCAAATAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATTAAAAAAAATATC-AATAGTATTG-AAATTTAATTATAA-TTG
*
11762681 TATAAATTAAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATTAAAAAAAATATC-AATAGTATTG-AAATTTAA
11762721 AATTATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
47 8 0.11
48 30 0.41
49 36 0.49
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (47 bp):
CATAAATTAAAAAAAATATCAATAGTATTGAAATTTAATTATAATTG
Found at i:11762853 original size:15 final size:16
Alignment explanation
Indices: 11762821--11762853 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11762811 TTTTTAATTT
11762821 AAAAAAATTAAATTCAA
1 AAAAAAATTAAA-TCAA
11762838 AAAAAAATTAAA-CAA
1 AAAAAAATTAAATCAA
11762853 A
1 A
11762854 CAAATTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAATTAAATCAA
Found at i:11762874 original size:11 final size:11
Alignment explanation
Indices: 11762858--11762916 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
11762848 AACAAACAAA
11762858 TTTGATAGAAT
1 TTTGATAGAAT
11762869 TTTGATAGAAT
1 TTTGATAGAAT
* *
11762880 TTTGAGAAAAT
1 TTTGATAGAAT
** *
11762891 TTCAAT-GAAA
1 TTTGATAGAAT
*
11762901 TTTGATAGATT
1 TTTGATAGAAT
11762912 TTTGA
1 TTTGA
11762917 AGGGAATATT
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
10 6 0.17
11 30 0.83
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (11 bp):
TTTGATAGAAT
Found at i:11779445 original size:18 final size:19
Alignment explanation
Indices: 11779404--11779453 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
11779394 ATATTAGAAT
*
11779404 TTTTTCATAATTATTAATAG
1 TTTTT-ATAATTTTTAATAG
11779424 -TTTTATAATTTTTAA-AG
1 TTTTTATAATTTTTAATAG
*
11779441 TTTTTTTAATTTT
1 TTTTTATAATTTT
11779454 GTATTCATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 21 0.78
19 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAG
Found at i:11781166 original size:23 final size:23
Alignment explanation
Indices: 11781140--11781184 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11781130 TATATATGTA
*
11781140 ATTTTAACTTTCCTTCTTTTTTT
1 ATTTTAACTTTCATTCTTTTTTT
**
11781163 ATTTTATTTTTCATTCTTTTTT
1 ATTTTAACTTTCATTCTTTTTT
11781185 GCTTTTCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTTTAACTTTCATTCTTTTTTT
Found at i:11781190 original size:23 final size:24
Alignment explanation
Indices: 11781148--11781208 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
11781138 TAATTTTAAC
* *
11781148 TTTCCTTCTTTTTTTATTTT-ATT
1 TTTCATTCTTTTTTGATTTTCATT
*
11781171 TTTCATTCTTTTTTGCTTTTCCATT
1 TTTCATTCTTTTTTGATTTT-CATT
*
11781196 CTTCATTTCTTTT
1 TTTCA-TTCTTTT
11781209 AATGTAGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 17 0.55
25 7 0.23
26 7 0.23
ACGTcount: A:0.08, C:0.18, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTCATTCTTTTTTGATTTTCATT
Found at i:11786312 original size:21 final size:21
Alignment explanation
Indices: 11786286--11786328 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11786276 GTTCCTGGAG
11786286 TTTGAAGGCACCATTTTTATT
1 TTTGAAGGCACCATTTTTATT
11786307 TTTGAAGGCACCATTTTTATT
1 TTTGAAGGCACCATTTTTATT
11786328 T
1 T
11786329 CTGATGTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (21 bp):
TTTGAAGGCACCATTTTTATT
Found at i:11790265 original size:78 final size:78
Alignment explanation
Indices: 11790132--11790283 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
11790122 GAGTCACATC
** *
11790132 TCATGTAACTGTAGTGAATCAAGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCAAATCAAGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
11790197 AATGAATCATATA
66 AATGAATCATATA
* *
11790210 TCATGTAACTGTAGCAAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCAT
1 TCATGTAACTGTAGCAAATCAAGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
11790275 AGTGAATCA
66 AATGAATCA
11790284 GGAATAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (78 bp):
TCATGTAACTGTAGCAAATCAAGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:11790296 original size:40 final size:40
Alignment explanation
Indices: 11790248--11790389 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
11790238 CTTTTCAGGT
* * *
11790248 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACCTTAAATTACCATAGTGAATCAAGAA
* * *
11790288 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACCTTAAATTACCATAGTGAATCAAGAA
* ** * ** **
11790328 CAAATCCTATCTATTTTGAGGTATTATAGTGAATCAAGAA
1 CAAATCCTATCCACCTTAAATTACCATAGTGAATCAAGAA
* *
11790368 CGAATCCTATCCACTTTAAATT
1 CAAATCCTATCCACCTTAAATT
11790390 CTCGAGAAGG
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (40 bp):
CAAATCCTATCCACCTTAAATTACCATAGTGAATCAAGAA
Found at i:11794350 original size:15 final size:14
Alignment explanation
Indices: 11794331--11794374 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
11794321 ATGTTGATAA
*
11794331 TATTTTATAATTAT
1 TATTTTATAAATAT
*
11794345 TAATTTGATAAATAT
1 T-ATTTTATAAATAT
*
11794360 TATTTTATTAATAT
1 TATTTTATAAATAT
11794374 T
1 T
11794375 TTAATAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TATTTTATAAATAT
Found at i:11794400 original size:26 final size:26
Alignment explanation
Indices: 11794329--11794400 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
11794319 TGATGTTGAT
* * *
11794329 AATATTTTATAATTATTAATTTGATA
1 AATATTTTATTATTATTATTTTAATA
*
11794355 AATATTATT-TTATTAATATTTTAATA
1 AATATT-TTATTATTATTATTTTAATA
11794381 AGATATTTTATTATT-TTATT
1 A-ATATTTTATTATTATTATT
11794401 ATTATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 26 0.68
27 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (26 bp):
AATATTTTATTATTATTATTTTAATA
Found at i:11803824 original size:42 final size:42
Alignment explanation
Indices: 11803762--11803924 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 42
11803752 TTCGTTTTCT
**
11803762 TGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAA
* * *
11803804 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-A
1 TGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAA
* ** *
11803845 TCGATGCCATAGCCCAATTATCATCTTACACGTAATCACATATCACATAT
1 T-GATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATAA
*
11803895 TGATGCCATAGCCCAGCTATGGTCTTACAC
1 TGATGCCATAGCCCAACTATGGTCTTACAC
11803925 GAATCACATA
Statistics
Matches: 96, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 60 0.62
45 2 0.02
48 1 0.01
49 30 0.31
50 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAA
Found at i:11803904 original size:49 final size:48
Alignment explanation
Indices: 11803831--11803936 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 48
11803821 TATGGTCTTA
* *
11803831 CACATATTCATATATCGATGCCATAGCCCAATTATCATCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATCATCTTACACG-AAT
* * **
11803881 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAACTATCATCTTACACGAAT
11803929 CACATATC
1 CACATATC
11803937 TCACTGATGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 11 0.22
49 33 0.66
50 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACTATCATCTTACACGAAT
Found at i:11803962 original size:46 final size:46
Alignment explanation
Indices: 11803868--11804012 Score: 173
Period size: 47 Copynumber: 3.1 Consensus size: 46
11803858 CCAATTATCA
* * *
11803868 TCTTACACGTAATCACATATCACATATTGATGCCATAGCCCAGCTATGG
1 TCTTACACG-AATCACATATCAC--ACTGATGCCATATCCCAGATATGG
*
11803917 TCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATATGG
1 TCTTACACGAATCACATATCACACTGATGCCATATCCCAGATATGG
* * * * *
11803963 TCTTATACAGTAGCATATATCACACCGATGCCATATCCCAGATATGG
1 TCTTACAC-GAATCACATATCACACTGATGCCATATCCCAGATATGG
11804010 TCT
1 TCT
11804013 AATACGGAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 28 0.33
47 36 0.42
48 12 0.14
49 9 0.11
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
TCTTACACGAATCACATATCACACTGATGCCATATCCCAGATATGG
Found at i:11804072 original size:31 final size:31
Alignment explanation
Indices: 11804037--11804184 Score: 242
Period size: 31 Copynumber: 4.8 Consensus size: 31
11804027 TTGTCACTTT
*
11804037 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* * *
11804068 TAGCCGGAGCTACTATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
11804099 TAGCCGGAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
11804130 TAGCAGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
11804161 TAGCCGAAGCTACCACTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
11804185 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:11804280 original size:50 final size:50
Alignment explanation
Indices: 11804160--11804336 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
11804150 CACTGATCAG
* * *
11804160 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
11804211 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
11804261 GTAGCCAAAACTATTACTTATCACTTTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
11804311 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
11804337 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 88 0.79
51 24 0.21
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:11808816 original size:23 final size:23
Alignment explanation
Indices: 11808787--11808832 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11808777 ATTATATTAA
* *
11808787 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAAAATAAATAT
*
11808810 AATTAAAAATAAAAAATATATAT
1 AATTAAAAATAAAAAATAAATAT
11808833 TTATTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTAAAAATAAAAAATAAATAT
Found at i:11810539 original size:25 final size:25
Alignment explanation
Indices: 11810509--11810588 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
11810499 GGACTCACCA
* *
11810509 CAGCTCGTATGAGCTTACCGATTTT
1 CAGCTCATATGAGCTTACCGATATT
* * *
11810534 CTGCTCATGA-GAGCTTATCGATACT
1 CAGCTCAT-ATGAGCTTACCGATATT
11810559 CAGCTCATATGAGCTTACCGATATT
1 CAGCTCATATGAGCTTACCGATATT
11810584 CAGCT
1 CAGCT
11810589 TGTAGGAGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (25 bp):
CAGCTCATATGAGCTTACCGATATT
Found at i:11810597 original size:25 final size:25
Alignment explanation
Indices: 11810509--11810601 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 25
11810499 GGACTCACCA
*
11810509 CAGCTCGTATGAGCTTACCGATTTT
1 CAGCTCGTATGAGCTTACCGATATT
* * * *
11810534 CTGCTCATGA-GAGCTTATCGATACT
1 CAGCTCGT-ATGAGCTTACCGATATT
*
11810559 CAGCTCATATGAGCTTACCGATATT
1 CAGCTCGTATGAGCTTACCGATATT
* *
11810584 CAGCTTGTAGGAGCTTAC
1 CAGCTCGTATGAGCTTAC
11810602 ATATTATCGC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATATT
Found at i:11816096 original size:33 final size:32
Alignment explanation
Indices: 11816054--11816181 Score: 132
Period size: 33 Copynumber: 3.9 Consensus size: 32
11816044 CTTTCTGAGT
*
11816054 GGTACACACAAAGTATACCTTTCATTTTCATA
1 GGTACACACAAAGTATACCTTTCCTTTTCATA
*
11816086 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 -GGTACACACAAAGTATACCTTTCCTTTTCATA
* * **
11816118 GTGTACACACAAAGTACACATAACCTTTTCATGA
1 G-GTACACACAAAGTATACCTTTCCTTTTCAT-A
* * **
11816152 GGTATACACAAAATATACCTAACCTTTTCA
1 GGTACACACAAAGTATACCTTTCCTTTTCA
11816182 CATTCGATAG
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
31 1 0.01
32 25 0.31
33 53 0.65
34 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (32 bp):
GGTACACACAAAGTATACCTTTCCTTTTCATA
Found at i:11816126 original size:65 final size:65
Alignment explanation
Indices: 11816055--11816181 Score: 166
Period size: 65 Copynumber: 2.0 Consensus size: 65
11816045 TTTCTGAGTG
* * ** * **
11816055 GTACACACAAAGTATACCTTTCATTTTCAT-ATGGTATACACAAAGTATACCTTTCCTTTTCAAG
1 GTACACACAAAGTACACATAACATTTTCATGA-GGTATACACAAAATATACCTAACCTTTTCAAG
11816119 T
65 T
*
11816120 GTACACACAAAGTACACATAACCTTTTCATGAGGTATACACAAAATATACCTAACCTTTTCA
1 GTACACACAAAGTACACATAACATTTTCATGAGGTATACACAAAATATACCTAACCTTTTCA
11816182 CATTCGATAG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 52 0.98
66 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (65 bp):
GTACACACAAAGTACACATAACATTTTCATGAGGTATACACAAAATATACCTAACCTTTTCAAGT
Found at i:11816216 original size:29 final size:29
Alignment explanation
Indices: 11816174--11816242 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
11816164 ATATACCTAA
11816174 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
*
11816203 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
11816232 CCTTTTCACAT
1 CCTTTTCACAT
11816243 GGTACAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.33
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGCTATC
Found at i:11818300 original size:15 final size:15
Alignment explanation
Indices: 11818277--11818318 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
11818267 GAAGCCCAGA
11818277 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* * *
11818292 ATAAAGAAACCCATG
1 ATAAGGAAATCCAAG
11818307 ATAAGGAAATCC
1 ATAAGGAAATCC
11818319 CATTTACAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:11819172 original size:6 final size:6
Alignment explanation
Indices: 11819161--11819301 Score: 282
Period size: 6 Copynumber: 23.5 Consensus size: 6
11819151 ACTCAACTCT
11819161 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
11819209 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
11819257 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CAT
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CAT
11819302 GTAACACAGT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 135 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:11820903 original size:93 final size:93
Alignment explanation
Indices: 11820788--11820958 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11820778 GCCCATAAGT
* *
11820788 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
11820853 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * *
11820881 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
11820946 CGAGTTCGGATGC
66 CGAGCTCAGATGC
11820959 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:11820955 original size:46 final size:46
Alignment explanation
Indices: 11820780--11820955 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
11820770 TGTAACCCGC
* * *
11820780 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
11820826 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCAT
* *
11820876 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
11820919 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
11820956 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 2 0.02
46 63 0.58
47 25 0.23
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:11824756 original size:33 final size:33
Alignment explanation
Indices: 11824718--11824903 Score: 191
Period size: 33 Copynumber: 5.7 Consensus size: 33
11824708 GTATGTACAT
* **
11824718 ACAAAGTATACCTTTCCTTTTCATATGGTATAC
1 ACAAAGTATACATAACCTTTTCATATGGTATAC
** *
11824751 ACAAAGTATACATTTCCTTTTTATATGGTATAC
1 ACAAAGTATACATAACCTTTTCATATGGTATAC
** *
11824784 ACAAAGTATACATTTCCTTTTCA-A-GTGTACAC
1 ACAAAGTATACATAACCTTTTCATATG-GTATAC
* *
11824816 ACAAAGTGTACATAACCTTTTCA-A-GTGTACAC
1 ACAAAGTATACATAACCTTTTCATATG-GTATAC
** *
11824848 ACAAAGTGCACATAACCTTTTCATGTGGTATAC
1 ACAAAGTATACATAACCTTTTCATATGGTATAC
*
11824881 ACAAAGTATACCTAACCTTTTCA
1 ACAAAGTATACATAACCTTTTCA
11824904 CATTCAATAG
Statistics
Matches: 137, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
31 1 0.01
32 57 0.42
33 78 0.57
34 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (33 bp):
ACAAAGTATACATAACCTTTTCATATGGTATAC
Found at i:11824942 original size:29 final size:29
Alignment explanation
Indices: 11824896--11824961 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
11824886 GTATACCTAA
*
11824896 CCTTTTCACATTCAATAGCTGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAGCTATC
*
11824925 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAGCTATC
*
11824954 TCTTTTCA
1 CCTTTTCA
11824962 TATGGTACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTCAATAGCCGAAGCTATC
Found at i:11830801 original size:14 final size:13
Alignment explanation
Indices: 11830782--11830811 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
11830772 TAGGGTAGGA
11830782 AAAAGAAAAAGAAG
1 AAAAGAAAAAG-AG
11830796 AAAAGAAAAAGAG
1 AAAAGAAAAAGAG
11830809 AAA
1 AAA
11830812 GATGAGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:11830805 original size:20 final size:20
Alignment explanation
Indices: 11830780--11830839 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
11830770 ATTAGGGTAG
11830780 GAAAAAGAAAAAGAAGAAAA
1 GAAAAAGAAAAAGAAGAAAA
* *
11830800 GAAAAAGAGAAAGATGAGAAA
1 GAAAAAGAAAAAGAAGA-AAA
*
11830821 G-AAAATAAAAAGAA-AAAA
1 GAAAAAGAAAAAGAAGAAAA
11830839 G
1 G
11830840 GGCCAAAGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 25 0.74
21 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAAAAGAAGAAAA
Found at i:11832128 original size:17 final size:20
Alignment explanation
Indices: 11832094--11832142 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
11832084 TATGACAGGT
11832094 TAATATTTAATTATTTTTAA
1 TAATATTTAATTATTTTTAA
*
11832114 TAATATTT-A-TATTTTAAAA
1 TAATATTTAATTATTTT-TAA
11832133 TAAT-TTTAAT
1 TAATATTTAAT
11832143 AATTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 9 0.36
19 8 0.32
20 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATATTTAATTATTTTTAA
Found at i:11841353 original size:23 final size:20
Alignment explanation
Indices: 11841316--11841357 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 20
11841306 TCATCCATAT
11841316 AATTTTAAATTTTTTTAATA
1 AATTTTAAATTTTTTTAATA
11841336 AATTATTAATATTATTTTTAAT
1 AATT-TTAA-ATT-TTTTTAAT
11841358 TTAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 3 0.16
23 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTAAATTTTTTTAATA
Found at i:11841427 original size:24 final size:25
Alignment explanation
Indices: 11841358--11841427 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
11841348 TATTTTTAAT
*
11841358 TTAATATTTTT-ATATTTTTCATCTA
1 TTAAAATTTTTAATATTTTT-ATCTA
**
11841383 TTAAAATTTTTAA-ATAATTATC--
1 TTAAAATTTTTAATATTTTTATCTA
11841405 TTATAAATTTTTAATATTTTTAT
1 TTA-AAATTTTTAATATTTTTAT
11841428 TATAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.08
23 10 0.27
24 9 0.24
25 14 0.38
26 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAAATTTTTAATATTTTTATCTA
Found at i:11847750 original size:46 final size:46
Alignment explanation
Indices: 11847708--11847971 Score: 384
Period size: 46 Copynumber: 5.7 Consensus size: 46
11847698 ATGAAATGTG
* *
11847708 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
11847754 CAATACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
11847800 CAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * **
11847846 TAAGACCATGGCTGAAAGATACCATGGCAATATGATGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
11847892 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
11847938 TAAGACCATAGTTGAAAGATACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
11847972 TCGAAGATAA
Statistics
Matches: 199, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 199 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:11848223 original size:29 final size:31
Alignment explanation
Indices: 11848175--11848239 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 31
11848165 ATAAATGAAA
11848175 TAAGTATAGGTACATGGAATTTAATTTATGT
1 TAAGTATAGGTACATGGAATTTAATTTATGT
11848206 TAAG-ATAGGT-CATGGAATTTAATTTATGT
1 TAAGTATAGGTACATGGAATTTAATTTATGT
11848235 TAAGT
1 TAAGT
11848240 TTAATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 23 0.70
30 6 0.18
31 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (31 bp):
TAAGTATAGGTACATGGAATTTAATTTATGT
Found at i:11849609 original size:34 final size:35
Alignment explanation
Indices: 11849571--11849693 Score: 187
Period size: 34 Copynumber: 3.6 Consensus size: 35
11849561 AATGTGAAAC
*
11849571 GTAGGTATGGTA-TTTCCATACTGAGCTATGATAT
1 GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
*
11849605 GTAGGTATGGTATTTT-CATATTGAGCTATGATAC
1 GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
* * *
11849639 GTAGGTATGATATTTTCCATATTGAGTTATGAAAT
1 GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
11849674 GTAGGTATGGTATTTTCCAT
1 GTAGGTATGGTATTTTCCAT
11849694 GAGGAAAACC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
34 43 0.54
35 37 0.46
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (35 bp):
GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
Found at i:11855163 original size:40 final size:40
Alignment explanation
Indices: 11855107--11855258 Score: 187
Period size: 41 Copynumber: 3.8 Consensus size: 40
11855097 TTAATTTTTT
* * *
11855107 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* **
11855147 GCGGCATTTTTTAAAAAGCATCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* *
11855187 GTGGCTTTTTTTATAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTA-AAAAGCGCCGCTAATGCTCGATCTATA
* * *
11855228 GCAGCGTTTTTTCTAAAAGCGTCGCTAATGC
1 GCGGCGTTTTTT-AAAAAGCGCCGCTAATGC
11855259 CACTAAAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 45 0.47
41 50 0.53
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:11855198 original size:41 final size:40
Alignment explanation
Indices: 11855107--11855258 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
11855097 TTAATTTTTT
* * * *
11855107 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATA
1 GCGGCTTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* **
11855147 GCGGCATTTTTTAAAAAGCATCGCTAATGCTCGATCTATA
1 GCGGCTTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
*
11855187 GTGGCTTTTTTTATAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCTTTTTTTA-AAAAGCGCCGCTAATGCTCGATCTATA
* *
11855228 GCAGCGTTTTTTCT-AAAAGCGTCGCTAATGC
1 GCGGC-TTTTTT-TAAAAAGCGCCGCTAATGC
11855259 CACTAAAGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
40 45 0.47
41 44 0.46
42 6 0.06
43 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
GCGGCTTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:11855395 original size:40 final size:40
Alignment explanation
Indices: 11855306--11855395 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
11855296 ATTTTTTTGT
*
11855306 GACATTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGC
1 GACATTTTTTAAAAAACGCCGCTAATGCTCAATCTATAGC
* * * * *
11855346 GGCACTTTTTGAAAAACGCCGCTAATGCTCAATTTGTAGC
1 GACATTTTTTAAAAAACGCCGCTAATGCTCAATCTATAGC
*
11855386 GACGTTTTTT
1 GACATTTTTT
11855396 TATCCAAACG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (40 bp):
GACATTTTTTAAAAAACGCCGCTAATGCTCAATCTATAGC
Found at i:11860809 original size:50 final size:50
Alignment explanation
Indices: 11860685--11860933 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11860675 GATAATAACA
* * ** * *
11860685 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11860736 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11860786 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11860836 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11860891 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11860934 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11860863 original size:100 final size:104
Alignment explanation
Indices: 11860684--11860933 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11860674 TGATAATAAC
**
11860684 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11860749 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11860786 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11860849 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11860891 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11860934 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11861049 original size:13 final size:13
Alignment explanation
Indices: 11861028--11861059 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11861018 GCTTGGATCA
*
11861028 TCATCAAATAAAT
1 TCATAAAATAAAT
11861041 TCATAAAATAAAT
1 TCATAAAATAAAT
11861054 TCATAA
1 TCATAA
11861060 TTGCTGGAAA
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:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11861306 original size:30 final size:30
Alignment explanation
Indices: 11861271--11861328 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11861261 CCTCGACTCT
*
11861271 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11861301 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11861329 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11868391 original size:50 final size:50
Alignment explanation
Indices: 11868267--11868515 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11868257 GATAATAACA
* * ** * *
11868267 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11868318 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11868368 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11868418 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11868473 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11868516 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11868445 original size:100 final size:104
Alignment explanation
Indices: 11868266--11868515 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11868256 TGATAATAAC
**
11868266 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11868331 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11868368 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11868431 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11868473 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11868516 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11868631 original size:13 final size:13
Alignment explanation
Indices: 11868610--11868641 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11868600 GCTTGGATCA
*
11868610 TCATCAAATAAAT
1 TCATAAAATAAAT
11868623 TCATAAAATAAAT
1 TCATAAAATAAAT
11868636 TCATAA
1 TCATAA
11868642 TTGCTGGAAA
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:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11868888 original size:30 final size:30
Alignment explanation
Indices: 11868853--11868910 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11868843 CCTCGACTCT
*
11868853 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11868883 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11868911 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11871273 original size:24 final size:26
Alignment explanation
Indices: 11871246--11871298 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
11871236 TTTCATCACT
11871246 ATAAATAA-TGAC-AACTTTTGATTA
1 ATAAATAAGTGACAAACTTTTGATTA
*
11871270 ATAATTAAGTGACATAACTTTTGATTA
1 ATAAATAAGTGACA-AACTTTTGATTA
11871297 AT
1 AT
11871299 TATAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
27 14 0.56
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (26 bp):
ATAAATAAGTGACAAACTTTTGATTA
Found at i:11881565 original size:25 final size:26
Alignment explanation
Indices: 11881533--11881587 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
11881523 TTATTAAATT
*
11881533 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
11881558 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
11881583 A-ATAT
1 ATATAT
11881588 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:11881774 original size:44 final size:45
Alignment explanation
Indices: 11881725--11881819 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
11881715 TTACACCTAT
* *
11881725 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
11881769 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
11881814 ATTACA
1 ATTACA
11881820 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:11881819 original size:16 final size:16
Alignment explanation
Indices: 11881800--11881851 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
11881790 GATTTGCTAT
* *
11881800 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
11881816 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11881832 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11881848 TACA
1 TACA
11881852 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11886364 original size:46 final size:46
Alignment explanation
Indices: 11886304--11886615 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
11886294 TTTAACGTGA
* * * * * *
11886304 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
11886350 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
11886396 TGCCATGGTACCTTTCAACCATGGTCTTACACATCTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11886442 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11886488 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11886534 TGCCATGGTATCTTTCAACCATGGTCTTACACA---C--A--A-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11886572 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11886616 AGAGCACACT
Statistics
Matches: 240, Mismatches: 17, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
38 34 0.14
39 1 0.00
41 2 0.01
43 2 0.01
45 5 0.02
46 196 0.82
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11886583 original size:38 final size:38
Alignment explanation
Indices: 11886532--11886604 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
11886522 TTCATATCAG
*
11886532 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
1 GTTGCCATGGTATCTTTCAACCATAGTCTTACACACAA
11886570 GTTGCCATGGTATCTTTCAACCATAGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATAGTCTTACACA
11886605 TTTCATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATAGTCTTACACACAA
Found at i:11891778 original size:46 final size:46
Alignment explanation
Indices: 11891718--11892029 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
11891708 TTTAACGTGA
* * * * * *
11891718 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * **
11891764 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11891810 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11891856 TGCCATGGTATCTTTCAACCATAGTTTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11891902 TGCCATGGTATCTTTCAACCGTGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11891948 TGCCATGGTATCTTTCAACCATGTTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11891986 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11892030 AGAGCACACT
Statistics
Matches: 234, Mismatches: 23, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
38 32 0.14
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 188 0.80
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11891994 original size:38 final size:38
Alignment explanation
Indices: 11891943--11892018 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
11891933 CATTTCATAT
*
11891943 CAGGTTGCCATGGTATCTTTCAACCATGTTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
11891981 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
11892019 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:11900073 original size:30 final size:30
Alignment explanation
Indices: 11900039--11900115 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
11900029 CTTACAAGAA
11900039 CGTTCAGG-GACTTGGGAAGACCCGATATCT
1 CGTTCAGGAG-CTTGGGAAGACCCGATATCT
* *
11900069 CGTTCAGAAGCTTGGGAAGACTCGATATCT
1 CGTTCAGGAGCTTGGGAAGACCCGATATCT
* *
11900099 CGTTTAGGATCTTGGGA
1 CGTTCAGGAGCTTGGGA
11900116 TTCAGAAGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (30 bp):
CGTTCAGGAGCTTGGGAAGACCCGATATCT
Found at i:11901123 original size:30 final size:30
Alignment explanation
Indices: 11901089--11901150 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
11901079 CTTAACAAGT
*
11901089 AAATGCCTCTAAAATAATAATAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
11901119 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
11901149 AA
1 AA
11901151 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:11901274 original size:21 final size:24
Alignment explanation
Indices: 11901231--11901274 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11901221 AAATAGGGAG
*
11901231 AAAACAATAAGAAAATAATATTTA
1 AAAACAATAAGAAAATAAGATTTA
11901255 AAAACAA-AA-AAAA-AAGATTT
1 AAAACAATAAGAAAATAAGATTT
11901275 TTTTATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 2 0.11
24 7 0.37
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (24 bp):
AAAACAATAAGAAAATAAGATTTA
Found at i:11905132 original size:23 final size:23
Alignment explanation
Indices: 11905105--11905151 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11905095 CAAGTTAACT
*
11905105 GGCCACATCAGTGGTCCCGTTAA
1 GGCCACATCAATGGTCCCGTTAA
11905128 GGCCACATCAATGGTCCCGTTAA
1 GGCCACATCAATGGTCCCGTTAA
11905151 G
1 G
11905152 ACACTAACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (23 bp):
GGCCACATCAATGGTCCCGTTAA
Found at i:11906028 original size:76 final size:76
Alignment explanation
Indices: 11905898--11906050 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
11905888 TTTTTTCCCC
11905898 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
1 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
11905963 TTAGCCTTGTG
66 TTAGCCTTGTG
*
11905974 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCATCCTTTTGAAGAGCCC
1 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
11906039 TTAGCCTTGTG
66 TTAGCCTTGTG
11906050 C
1 C
11906051 CAAACGAGGT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (76 bp):
CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
TTAGCCTTGTG
Found at i:11918396 original size:42 final size:42
Alignment explanation
Indices: 11918337--11918419 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
11918327 ATCAACTCCT
*
11918337 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
1 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACTG
11918379 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACT
1 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACT
11918420 ACGTTACAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.22
Consensus pattern (42 bp):
CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACTG
Found at i:11920807 original size:23 final size:22
Alignment explanation
Indices: 11920764--11920812 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
11920754 TTTTTTACTT
* *
11920764 TTTTATTTATTTTTATGAAAAC
1 TTTTAATTATTTTAATGAAAAC
* *
11920786 TTTTAATTATTTTGAATTAAAAG
1 TTTTAATTATTTT-AATGAAAAC
11920809 TTTT
1 TTTT
11920813 TAACTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTAATTATTTTAATGAAAAC
Found at i:11920907 original size:18 final size:19
Alignment explanation
Indices: 11920886--11920958 Score: 57
Period size: 21 Copynumber: 3.9 Consensus size: 19
11920876 AAGTATTTAA
11920886 TTAATAT-TTTAATAATTT
1 TTAATATATTTAATAATTT
11920904 TTAAGTATATATTAGAT-ATTT
1 TTAA-TATAT-TTA-ATAATTT
* *
11920925 TTAATAT-GTT-ATAA-GT
1 TTAATATATTTAATAATTT
*
11920941 TTAATATCTTTAATAATT
1 TTAATATATTTAATAATT
11920959 ATTTTGTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 15
0.69 0.06 0.24
Matches are distributed among these distances:
16 10 0.23
17 3 0.07
18 10 0.23
19 3 0.07
20 4 0.09
21 11 0.26
22 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.55
Consensus pattern (19 bp):
TTAATATATTTAATAATTT
Found at i:11926399 original size:12 final size:12
Alignment explanation
Indices: 11926382--11926406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11926372 CACCGTAGGG
11926382 TAACAGTAACAA
1 TAACAGTAACAA
11926394 TAACAGTAACAA
1 TAACAGTAACAA
11926406 T
1 T
11926407 CATAGTCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:11927346 original size:21 final size:21
Alignment explanation
Indices: 11927308--11927351 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11927298 TTGTTTGTTC
* *
11927308 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTTTTCTATTATA
11927329 TTTCTTTATTCTTT-TATTATA
1 TTTCTTTATT-TTTCTATTATA
11927350 TT
1 TT
11927352 ATTATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTATTTTTCTATTATA
Found at i:11927353 original size:8 final size:8
Alignment explanation
Indices: 11927342--11927394 Score: 60
Period size: 8 Copynumber: 6.9 Consensus size: 8
11927332 CTTTATTCTT
11927342 TTATTATA
1 TTATTATA
11927350 TTATTATA
1 TTATTATA
11927358 TTA-T-TA
1 TTATTATA
11927364 -TATTATA
1 TTATTATA
11927371 TTATTATA
1 TTATTATA
11927379 TT-TTAGTAA
1 TTATTA-T-A
11927388 TTATTAT
1 TTATTAT
11927395 TATTTACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 6 0.15
8 21 0.54
9 4 0.10
10 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:11927353 original size:16 final size:16
Alignment explanation
Indices: 11927342--11927394 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 16
11927332 CTTTATTCTT
11927342 TTATTATATTATTATA
1 TTATTATATTATTATA
11927358 TTA-T-TA-TATTATA
1 TTATTATATTATTATA
11927371 TTATTATATT-TTAGTAA
1 TTATTATATTATTA-T-A
11927388 TTATTAT
1 TTATTAT
11927395 TATTTACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
15 6 0.19
16 5 0.16
17 8 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATTATATTATTATA
Found at i:11927354 original size:3 final size:3
Alignment explanation
Indices: 11927342--11927398 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
11927332 CTTTATTCTT
11927342 TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA -TA TTA TTA -TA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11927384 GTAA TTA TTA TTA TT
1 -TTA TTA TTA TTA TT
11927399 TACTTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
2 12 0.27
3 31 0.69
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11927463 original size:20 final size:20
Alignment explanation
Indices: 11927440--11927477 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11927430 CTACACATGT
11927440 ATGT-ATTATACTTTATACAC
1 ATGTAATTA-ACTTTATACAC
*
11927460 ATGTAATTAATTTTATAC
1 ATGTAATTAACTTTATAC
11927478 CTCACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (20 bp):
ATGTAATTAACTTTATACAC
Found at i:11929413 original size:131 final size:131
Alignment explanation
Indices: 11929194--11929429 Score: 298
Period size: 131 Copynumber: 1.8 Consensus size: 131
11929184 ACCTAAAGGA
* * * *
11929194 ATATTCGATTGTTTTGAGCAAACGAGAAGTCACAACCCAGCACGATAGGGCATGATTCCCGAATT
1 ATATTCGATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCCCGAATT
* * *
11929259 GTCAATCACCGAATATTGCCTTCGTTTTAAATG-ATTTTTAGAAGACATGCGTGAAATTTTGGAG
66 GCCAATCACCAAATATCGCCTTCGTTTTAAA-GAATTTTTAGAAGACATGCGTGAAATTTTGGAG
11929323 GG
130 GG
* ** *
11929325 ATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCACG-AT
1 ATATTCGATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCC-CGAAT
* * *
11929389 TGCCAAAT-ATCAAATCTCGTCTTCGTTTTAAAGAATTTTTA
65 TGCC-AATCACCAAATATCGCCTTCGTTTTAAAGAATTTTTA
11929430 AGTGAATACT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
130 1 0.01
131 82 0.93
132 5 0.06
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (131 bp):
ATATTCGATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCCCGAATT
GCCAATCACCAAATATCGCCTTCGTTTTAAAGAATTTTTAGAAGACATGCGTGAAATTTTGGAGG
G
Found at i:11930745 original size:44 final size:44
Alignment explanation
Indices: 11930682--11930908 Score: 294
Period size: 44 Copynumber: 5.2 Consensus size: 44
11930672 CGGGAACACC
* * * * *
11930682 AATCTGTTATTTTCGATCTGCTCTCTACCAATACAGAGATGTCA
1 AATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
* * * *
11930726 AATCTGCTATCTTCGATCTGCCCTCTGA-CAATATAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTC-CACCAATACAGAGACGCCA
* *
11930770 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
*
11930814 AATCTGCTATCTTCGATCTGCTCTCCACCAAAACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
* * * *
11930858 AATCTGCTATCTTAGATCTGCTGTCCGCCAATACAGAGACGCAA
1 AATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
11930902 AATCTGC
1 AATCTGC
11930909 AGGATTTACC
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
44 160 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
Found at i:11948200 original size:28 final size:27
Alignment explanation
Indices: 11948158--11948233 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 27
11948148 AGGCCCACCC
* *
11948158 ATATTATGTTCTATTTTTTAA-AATATTT
1 ATATTATATTATATTTTTTAATAA-A-TT
11948186 ATATTATATTATATTAATATTTAATAAATT
1 ATATTATATTATATT--T-TTTAATAAATT
11948216 -TA-TATATTATATTTTTTA
1 ATATTATATTATATTTTTTA
11948234 TGTAGTCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
28 24 0.57
29 2 0.05
30 3 0.07
31 6 0.14
32 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
ATATTATATTATATTTTTTAATAAATT
Found at i:11962597 original size:21 final size:21
Alignment explanation
Indices: 11962572--11962611 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11962562 CAAAACAACT
* *
11962572 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTAAACTTGA
11962593 TAGTTTTGACTTTAAACTT
1 TAGTTTTGACTTTAAACTT
11962612 TAGAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAGTTTTGACTTTAAACTTGA
Found at i:11962999 original size:18 final size:19
Alignment explanation
Indices: 11962976--11963011 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11962966 TTTTTTAAAA
11962976 TATAAAT-TTTTGAATTTG
1 TATAAATATTTTGAATTTG
11962994 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
11963012 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTG
Found at i:11963018 original size:18 final size:19
Alignment explanation
Indices: 11962979--11963024 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
11962969 TTTAAAATAT
* *
11962979 AAAT-TTTTGAATTTGTAT
1 AAATATTTTGAATTTGAAA
11962997 AAATATTTTGAATTT-AAA
1 AAATATTTTGAATTTGAAA
11963015 AAATTATTTT
1 AAA-TATTTT
11963025 CAAAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
AAATATTTTGAATTTGAAA
Found at i:11969600 original size:17 final size:17
Alignment explanation
Indices: 11969578--11969613 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
11969568 TTTTTTAAAA
11969578 ATTAAAA-AATATAAATT
1 ATTAAAATAATA-AAATT
11969595 ATTAAAATAATAAAATT
1 ATTAAAATAATAAAATT
11969612 AT
1 AT
11969614 ATTTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAAATAATAAAATT
Found at i:11969601 original size:23 final size:23
Alignment explanation
Indices: 11969575--11969649 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
11969565 TAATTTTTTA
11969575 AAAATTAAAAAATATAAATTATT
1 AAAATTAAAAAATATAAATTATT
*
11969598 AAAA-TAATAAAAT-TATATT-TT
1 AAAATTAA-AAAATATAAATTATT
** *
11969619 AACTTATAAAAAATACAAATTTATT
1 AAAAT-TAAAAAATATAAA-TTATT
*
11969644 CAAATT
1 AAAATT
11969650 TCTCTTCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 4 0.11
22 13 0.34
23 14 0.37
24 3 0.08
25 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATTAAAAAATATAAATTATT
Found at i:11971077 original size:13 final size:13
Alignment explanation
Indices: 11971043--11971083 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
11971033 AAGGTCAATT
11971043 TTAATTAAATCAAA
1 TTAATTAAAT-AAA
11971057 TTAATTAAA-AAA
1 TTAATTAAATAAA
11971069 TTGAATTAAATAAA
1 TT-AATTAAATAAA
11971083 T
1 T
11971084 GTGTTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
14 13 0.52
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
TTAATTAAATAAA
Found at i:11971739 original size:34 final size:34
Alignment explanation
Indices: 11971672--11971739 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
11971662 ACTAGTTAAG
* *
11971672 TTTCAATGAACTTAGTTAGTTCCAAGGCTAACTC
1 TTTCAATGAACTTAGTGAGTTCCAAAGCTAACTC
*
11971706 TTTCAAATGAATTTAGTGAGTTCCAAAGC-AACTC
1 TTTC-AATGAACTTAGTGAGTTCCAAAGCTAACTC
11971740 GCTGACCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (34 bp):
TTTCAATGAACTTAGTGAGTTCCAAAGCTAACTC
Found at i:11977136 original size:125 final size:126
Alignment explanation
Indices: 11976908--11977138 Score: 311
Period size: 125 Copynumber: 1.8 Consensus size: 126
11976898 AAAACTTCTC
* * *
11976908 AAAACAAGGTAGTATTTCGTGTTTAGAAATTCAAAAAATTGTGCCCTAACGTGCTGGGTTTCGAT
1 AAAACAAGGCAATATTTCGTGTTTAGAAATTCAAAAAATCGTGCCCTAACGTGCTGGGTTTCGAT
** * * *
11976973 TTTTCATTTGACCGAATAACCAAATATTCTTTCGAAATTTCGTCCATGTTTTCTTAAATTA
66 TTACCATTTGACCAAATAACCAAATATCCTTTCAAAATTTCGTCCATGTTTTCTTAAATTA
* ** *
11977034 AAAACAAGGCAATATTTCGTGTTTGGAAATTTGATAAATCGTGCCC-AACGTGCTGGGTTTCGAT
1 AAAACAAGGCAATATTTCGTGTTTAGAAATTCAAAAAATCGTGCCCTAACGTGCTGGGTTTCGAT
* * * *
11977098 TTACCGTTTGACCAAATAACCCAATGTCCTTTTAAAATTTC
66 TTACCATTTGACCAAATAACCAAATATCCTTTCAAAATTTC
11977139 AATGCATGAA
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
125 50 0.56
126 39 0.44
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (126 bp):
AAAACAAGGCAATATTTCGTGTTTAGAAATTCAAAAAATCGTGCCCTAACGTGCTGGGTTTCGAT
TTACCATTTGACCAAATAACCAAATATCCTTTCAAAATTTCGTCCATGTTTTCTTAAATTA
Found at i:11981786 original size:39 final size:39
Alignment explanation
Indices: 11981728--11981804 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
11981718 TTCAGTGATG
* *
11981728 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
11981767 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
11981805 ATATGTCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:11981828 original size:39 final size:39
Alignment explanation
Indices: 11981728--11981832 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
11981718 TTCAGTGATG
** * *
11981728 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
*
11981767 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * *
11981806 TATGTCTGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAAGT-CCGCAGGCT
11981833 TCGAGCTAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 5 0.09
39 53 0.91
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:11989256 original size:18 final size:17
Alignment explanation
Indices: 11989223--11989261 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11989213 TTGTATAAAT
11989223 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
11989241 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
11989258 TGTG
1 TGTG
11989262 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:11989514 original size:23 final size:23
Alignment explanation
Indices: 11989487--11989584 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
11989477 AGTGTTATTG
11989487 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
11989510 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
11989533 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11989555 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11989578 ATCAGTG
1 ATCAGTG
11989585 TGACACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:11989553 original size:45 final size:45
Alignment explanation
Indices: 11989489--11989577 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
11989479 TGTTATTGAT
* *
11989489 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
11989534 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
11989578 ATCAGTGTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:11993112 original size:42 final size:42
Alignment explanation
Indices: 11993044--11993207 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
11993034 CTTCGTTTTC
** * *
11993044 TCGATGCCATAGTTCAACTATTGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
11993087 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
11993128 TGGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
11993177 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
11993208 GAATCACATA
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 62 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:11993187 original size:49 final size:47
Alignment explanation
Indices: 11993114--11993250 Score: 186
Period size: 49 Copynumber: 2.9 Consensus size: 47
11993104 TATGGTCTTA
*
11993114 CACATATTCATATATGGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACG-AAT
11993164 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
11993212 CACATATCTCA-CTGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATGATGCCATAGCCCAGCTATGGTCTTA
11993251 TACAGTAGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 24 0.30
47 1 0.01
48 13 0.16
49 37 0.46
50 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (47 bp):
CACATATCACATATGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:11993246 original size:46 final size:46
Alignment explanation
Indices: 11993130--11993303 Score: 159
Period size: 47 Copynumber: 3.7 Consensus size: 46
11993120 TTCATATATG
* * * * * *
11993130 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATATCCCAGATATGGTCTTATACG-AAGCACATA--ACACACC
* * * * * * *
11993179 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAAGCACATAACACACC
* *
11993225 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATAACACACC
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATAACACACC
* *
11993272 GATGCCATATCTCAAATATGGTCTTATACGAA
1 GATGCCATATCCCAGATATGGTCTTATACGAA
11993304 AATCACTTGT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
46 30 0.28
47 38 0.36
48 9 0.08
49 30 0.28
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATAACACACC
Found at i:11993362 original size:31 final size:31
Alignment explanation
Indices: 11993325--11993466 Score: 171
Period size: 31 Copynumber: 4.6 Consensus size: 31
11993315 ACTTGTATTC
*
11993325 GAAGCTACCACTATTCACTGATCAGGTAGCTA
1 GAAGCTACCACTTTTCACTGATCAGGTAGC-A
* ** *
11993357 G-AGCTATCGTTTTTCACTGATCAGG-AGCT
1 GAAGCTACCACTTTTCACTGATCAGGTAGCA
*
11993386 GGAGCTACCACTTTTCACTGATCAGGTAGCA
1 GAAGCTACCACTTTTCACTGATCAGGTAGCA
* * * *
11993417 GAAGTTACCATTTTTCACTGATTAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCA
11993448 GAAGCTACCACTTTTCACT
1 GAAGCTACCACTTTTCACT
11993467 TGTCATTTGT
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
29 1 0.01
30 24 0.26
31 66 0.72
32 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (31 bp):
GAAGCTACCACTTTTCACTGATCAGGTAGCA
Found at i:11993404 original size:61 final size:62
Alignment explanation
Indices: 11993324--11993466 Score: 200
Period size: 61 Copynumber: 2.3 Consensus size: 62
11993314 CACTTGTATT
* * *
11993324 CGAAGCTACCACTATTCACTGATCAGGTAGCTAG-AGCTATCGTTTTTCACTGATCAGG-AGC
1 CGAAGCTACCACTTTTCACTGATCAGGTAGC-AGAAGCTACCATTTTTCACTGATCAGGTAGC
* * * *
11993385 TGGAGCTACCACTTTTCACTGATCAGGTAGCAGAAGTTACCATTTTTCACTGATTAGGTAGC
1 CGAAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTAGC
11993447 CGAAGCTACCACTTTTCACT
1 CGAAGCTACCACTTTTCACT
11993467 TGTCATTTGT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
60 2 0.03
61 48 0.68
62 21 0.30
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (62 bp):
CGAAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTAGC
Found at i:11993547 original size:50 final size:50
Alignment explanation
Indices: 11993442--11993569 Score: 202
Period size: 50 Copynumber: 2.5 Consensus size: 50
11993432 CACTGATTAG
* * *
11993442 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
*
11993493 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
11993543 GTAGCCAAAGCTATCACTTATCACTTT
1 GTAGCCGAAGCTATCACTTATCACTTT
11993570 TTGCCATGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:11997935 original size:42 final size:42
Alignment explanation
Indices: 11997872--11998047 Score: 187
Period size: 42 Copynumber: 4.0 Consensus size: 42
11997862 CTTCGTTTTC
**
11997872 TCGATGCCATAGTTCAACTATGGTCTTACACATATTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
11997915 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
11997956 TCGATACCATAGCCCAACTATGGTCTTACACGTAATTACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---A-T--AT-TCACATA
* *
11998005 TCGATGCCATAGCCCAGCTAGGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
11998046 TC
1 TC
11998048 TCACGGATGC
Statistics
Matches: 114, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
41 11 0.10
42 62 0.54
43 2 0.02
45 1 0.01
46 1 0.01
47 1 0.01
48 2 0.02
49 34 0.30
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Done.