Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 107 of 290
Found at i:33186955 original size:30 final size:30
Alignment explanation
Indices: 33186925--33186981 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33186915 CCACCCAACT
33186925 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33186954 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33186982 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33189757 original size:27 final size:27
Alignment explanation
Indices: 33189727--33189894 Score: 191
Period size: 27 Copynumber: 6.2 Consensus size: 27
33189717 GTGATGAAGT
*
33189727 CACCAGATACGGAT-ATTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
*
33189754 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCAGAGC
*
33189781 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
* **
33189808 CACCAGGA-CAAAT-ATATGTAACAGAGC
1 CACCA-GATCAGATAAT-TGTGGCAGAGC
*
33189835 CACTAGATCAGATAATTGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
* *
33189862 CACTAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
33189889 CACCAG
1 CACCAG
33189895 GACGCTTCCT
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.08
27 105 0.87
28 6 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:33189799 original size:54 final size:54
Alignment explanation
Indices: 33189727--33189894 Score: 214
Period size: 54 Copynumber: 3.1 Consensus size: 54
33189717 GTGATGAAGT
*
33189727 CACCAGATACGGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * * **
33189781 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTAACAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
33189835 CACTAGATCAGATAATTGTGGCAGAGCCACTAGATCAGATA-ATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATA-TGTGGCAGAGC
33189889 CACCAG
1 CACCAG
33189895 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 5 0.05
54 91 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:33189855 original size:81 final size:81
Alignment explanation
Indices: 33189748--33189897 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 81
33189738 GATATTGTGG
33189748 CAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
1 CAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
33189813 GGACAAATATATGTAA
66 GGACAAATATATGTAA
* * *
33189829 CAGAGCCACTAGATCAGATA-ATTGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACC
1 CAGAGCCACCAGAACAGATATA-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACC
33189893 AGGAC
65 AGGAC
33189898 GCTTCCTCCA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (81 bp):
CAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
GGACAAATATATGTAA
Found at i:33204325 original size:27 final size:27
Alignment explanation
Indices: 33204304--33204433 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
33204294 CGATTTGTAG
* * * *
33204304 AATTACCTTTTTACCCTTGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
33204331 AATTACCGTTTCACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
33204358 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
33204385 AATTACCATTTTACCCT-TAGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
33204412 AATTACCATTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
33204434 GTGAAATTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 90 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:33204476 original size:27 final size:27
Alignment explanation
Indices: 33204446--33204533 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
33204436 GAAATTATTG
*
33204446 AAATACCCCT-GTAGGATAGAATTACCA
1 AAATACCCCTAGTAGG-TAAAATTACCA
**
33204473 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTAGGTAAAATTACCA
** *
33204500 AAATACCCCTAGTTTGTAAAATTACCG
1 AAATACCCCTAGTAGGTAAAATTACCA
33204527 AAATACC
1 AAATACC
33204534 ATTGGTTTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 53 0.95
28 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (27 bp):
AAATACCCCTAGTAGGTAAAATTACCA
Found at i:33204506 original size:54 final size:54
Alignment explanation
Indices: 33204446--33204587 Score: 135
Period size: 54 Copynumber: 2.6 Consensus size: 54
33204436 GAAATTATTG
* *
33204446 AAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTAAAATTACCA
** * * * * *
33204500 AAATACCCCTAGTTTGTAAAATTACCGAAATACCATTGGTTTGTGAAATTACCG
1 AAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCA
* ** *
33204554 AAATA-CCCTCAATTTGTAAAATTACAAAAATACC
1 AAATACCCCT-AGTAGGTAAAATTACCAAAATACC
33204588 CTTGACTTTC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 67 0.91
55 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (54 bp):
AAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCA
Found at i:33204541 original size:27 final size:27
Alignment explanation
Indices: 33204465--33204674 Score: 177
Period size: 27 Copynumber: 7.7 Consensus size: 27
33204455 TGTAGGATAG
* * *
33204465 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGTAA
* * *
33204492 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGTAA
* *
33204519 AATTACCGAAATACCATTGGTTTGTGA
1 AATTACCGAAATACCCTTGGTTTGTAA
***
33204546 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTGGTTTGTAA
** * *
33204573 AATTACAAAAATACCCTTGACTTTCTAAA
1 AATTACCGAAATACCCTTG-GTTTGT-AA
** * **
33204602 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTGGTTTGTAA
* *
33204629 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGGTTTGTAA
* * *
33204656 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
33204675 TAGGATGAAA
Statistics
Matches: 149, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 124 0.83
28 7 0.05
29 18 0.12
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTGTAA
Found at i:33204653 original size:83 final size:82
Alignment explanation
Indices: 33204465--33204674 Score: 242
Period size: 83 Copynumber: 2.6 Consensus size: 82
33204455 TGTAGGATAG
* * * * * *
33204465 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGAA
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGACTTTCTAAAATTACAGAA
***
33204529 ATACCATTGGTTTGTGA
66 ATACCATTGGTTTACAA
* * * *
33204546 AATTACCGAAATACCCTCAATTTGTAAAATTACAAAAATACCCTTGACTTTCTAAAAATTATAGA
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGACTTTCT-AAAATTACAGA
33204611 AATACCATTGGTTTACAA
65 AATACCATTGGTTTACAA
* * * * *
33204629 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTG
33204675 TAGGATGAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 39 0.37
82 5 0.05
83 62 0.58
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (82 bp):
AATTACCGAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGACTTTCTAAAATTACAGAA
ATACCATTGGTTTACAA
Found at i:33205618 original size:25 final size:24
Alignment explanation
Indices: 33205580--33205649 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
33205570 AGGAAGTGCT
*
33205580 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* * *
33205604 GAAAAGAGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
33205629 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
33205650 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:33205662 original size:24 final size:24
Alignment explanation
Indices: 33205579--33205662 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
33205569 GAGGAAGTGC
* *
33205579 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* * *
33205604 GAAAAGAGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
33205628 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
33205652 TAAAAGAGGCT
1 TAAAAG-GGCT
33205663 AGGCCTCCAG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.21
25 34 0.71
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:33205974 original size:31 final size:31
Alignment explanation
Indices: 33205869--33205977 Score: 202
Period size: 31 Copynumber: 3.5 Consensus size: 31
33205859 CGCTTACAGT
33205869 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33205899 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33205930 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33205961 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
33205978 AAATGTCGAG
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 11 0.14
31 65 0.86
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33209466 original size:40 final size:40
Alignment explanation
Indices: 33209436--33209607 Score: 208
Period size: 40 Copynumber: 4.3 Consensus size: 40
33209426 GCTACTCGTT
*
33209436 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
33209476 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* *
33209516 CAAATGCCTTCGGGACTTAACCTGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* * * * *
33209556 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
33209595 CAAATGCCTTCGG
1 CAAATGCCTTCGG
33209608 ATCTTAGTCT
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 31 0.26
40 87 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:33209550 original size:80 final size:80
Alignment explanation
Indices: 33209436--33209660 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
33209426 GCTACTCGTT
* * *
33209436 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCTGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
33209500 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
33209516 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
33209580 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * * *
33209595 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCTGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
33209658 GGA
64 GGA
33209661 CATCATTCGA
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
78 3 0.02
79 57 0.45
80 65 0.51
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:33209644 original size:119 final size:120
Alignment explanation
Indices: 33209438--33209653 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
33209428 TACTCGTTCA
*
33209438 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
33209503 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACC
* * ** *
33209558 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
33209620 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA
33209654 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.71
120 20 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACC
Found at i:33210861 original size:56 final size:56
Alignment explanation
Indices: 33210794--33210966 Score: 337
Period size: 56 Copynumber: 3.1 Consensus size: 56
33210784 TAGTTTATTA
33210794 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
33210850 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
*
33210906 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
33210962 CCCAT
1 CCCAT
33210967 CATCCCTTGT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:33211354 original size:27 final size:27
Alignment explanation
Indices: 33211324--33211467 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
33211314 TACTGAAATG
** *
33211324 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
33211351 CCCTCGATTTATAGAATTACTATTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
33211378 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
33211405 CCCTCGATTTAAAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
33211432 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
33211459 CCCTCGATT
1 CCCTCGATT
33211468 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:33211540 original size:54 final size:54
Alignment explanation
Indices: 33211466--33211621 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
33211456 TTACCCTCGA
** * *
33211466 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * *
33211520 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
33211574 TTGTGAAATTACCAAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
33211622 CTTGATTTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 81 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:33211588 original size:81 final size:81
Alignment explanation
Indices: 33211499--33211648 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
33211489 TGTAGGATAG
* ** *
33211499 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATA-CCCTAGATTTACAAAATTACAGA
33211562 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
*
33211580 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTTACAAAATTACAGAAA
33211645 TACC
66 TACC
33211649 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 5 0.08
81 56 0.90
82 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:33211629 original size:27 final size:27
Alignment explanation
Indices: 33211499--33211735 Score: 187
Period size: 27 Copynumber: 8.7 Consensus size: 27
33211489 TGTAGGATAG
*
33211499 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
33211526 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
33211553 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
**
33211580 AATTACCAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
33211607 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
33211634 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * * **
33211663 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** * *
33211690 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
33211717 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
33211736 TAGGATGAAA
Statistics
Matches: 175, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 145 0.83
28 8 0.05
29 19 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:33211804 original size:27 final size:27
Alignment explanation
Indices: 33211753--33211830 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
33211743 AAATGACTAA
* *
33211753 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATA-CCCTTATAGGGTAAAATGACCGT
* *
33211780 AA-AGCCCTTGTAGGGTAAAGTGACCGT
1 AATA-CCCTTATAGGGTAAAATGACCGT
*
33211807 AATACCCTTATATGGTAAAATGAC
1 AATACCCTTATAGGGTAAAATGAC
33211831 GAATACGCCC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.17
27 33 0.80
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AATACCCTTATAGGGTAAAATGACCGT
Found at i:33212713 original size:24 final size:24
Alignment explanation
Indices: 33212630--33212713 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
33212620 GAGGAAGTGC
* *
33212630 TAAAAGGGCTCTGCCCCAGTTTACT
1 TAAAAGGGCTTTGCCCTAGTTTA-T
*
33212655 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCTAGTTTAT
*
33212679 CAGAAAGGGCTTTGCCCTAG-TTAT
1 TA-AAAGGGCTTTGCCCTAGTTTAT
33212703 TAAAAGAGGCT
1 TAAAAG-GGCT
33212714 AGACCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.21
25 37 0.71
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCTAGTTTAT
Found at i:33212969 original size:31 final size:31
Alignment explanation
Indices: 33212920--33213002 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
33212910 CGCTTGCAGT
33212920 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33212950 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33212981 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33213003 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33227232 original size:44 final size:44
Alignment explanation
Indices: 33227169--33227256 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
33227159 ACAGTTAGCT
33227169 TTGTATGATGACGGTTCAATTGTAGCTAAGTTGAAAGCGAGACC
1 TTGTATGATGACGGTTCAATTGTAGCTAAGTTGAAAGCGAGACC
*
33227213 TTGTATGATGACGGTTCAATTGTAGCTGAGTTGAAAGCGAGACC
1 TTGTATGATGACGGTTCAATTGTAGCTAAGTTGAAAGCGAGACC
33227257 GTTATTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (44 bp):
TTGTATGATGACGGTTCAATTGTAGCTAAGTTGAAAGCGAGACC
Found at i:33228487 original size:47 final size:47
Alignment explanation
Indices: 33228418--33228511 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
33228408 CGATTAGGTT
* *
33228418 AGAGAAAATCCTTAATGTGTTTCATGTATCTATGTTGCATCGATATA
1 AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
33228465 AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
1 AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
33228512 GGTCGGATCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (47 bp):
AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
Found at i:33245107 original size:27 final size:27
Alignment explanation
Indices: 33245077--33245309 Score: 297
Period size: 27 Copynumber: 8.6 Consensus size: 27
33245067 TATATTGAGT
* * * *
33245077 TCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTACATAGTCAAA
* *
33245104 TCGCACACTTAGTGCTACGTAATCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
33245131 TCGCACACTTAGTGCTACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
** * *
33245158 CTCGCACACTTAGTGCCGCATGGTCAAT
1 -TCGCACACTTAGTGCTACATAGTCAAA
* **
33245186 TCGCACACTTAGTGC-ATCATATTCATT
1 TCGCACACTTAGTGCTA-CATAGTCAAA
*
33245213 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
33245240 TCGCACACTTAGTGCTACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
* *
33245267 TCGCACACTTAGTGCTACGTAATCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
33245294 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
33245310 GTACAATTTA
Statistics
Matches: 183, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
27 159 0.87
28 24 0.13
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCTACATAGTCAAA
Found at i:33248037 original size:121 final size:122
Alignment explanation
Indices: 33247874--33248098 Score: 319
Period size: 122 Copynumber: 1.9 Consensus size: 122
33247864 CACAATAACA
* *
33247874 ATGAGAATGAGAATAGAAATGTAATGGGTATAAGGTTTTTCTAAT-A-TCAATTTAACATAGAAA
1 ATGAGAATAAGAATAGAAATGTAATGGGTATAAGGTGTTTCTAATAACTCAATTTAACA-AGAAA
*
33247937 TGTATAATAACTAACCTAGGAATGCAAATTAAATGATAGACATTGGCATGGTAAAAGC
65 TGTATAATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAAAAGC
* * * * ** * *
33247995 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTTCTAATAACTTGATTTAACACGACAT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATAAGGTGTTTCTAATAACTCAATTTAACAAGAAAT
*
33248060 GTATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
66 GTATAATAACTAACCTAAGAATGCAAATTAAATGATAGA
33248099 AAAATGAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 39 0.43
122 42 0.47
123 9 0.10
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.29
Consensus pattern (122 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATAAGGTGTTTCTAATAACTCAATTTAACAAGAAAT
GTATAATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAAAAGC
Found at i:33248593 original size:55 final size:55
Alignment explanation
Indices: 33248534--33248644 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 55
33248524 CGTGTCAATC
* * * *
33248534 TAACAAGTTCGACCACGGGTGTTAGACACGGGCATGTCACACGCCCGTGCTGTTT
1 TAACAAGTTCAACCACGGGTCTTACACACGGGCATGTCACACGCCAGTGCTGTTT
* * * * * * *
33248589 TAACAGGTTCAACCATGGGTCTTCCACACGGGCGTGTCGCATGCCAGTGTTGTTT
1 TAACAAGTTCAACCACGGGTCTTACACACGGGCATGTCACACGCCAGTGCTGTTT
33248644 T
1 T
33248645 GGCAGGCTTG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.27
Consensus pattern (55 bp):
TAACAAGTTCAACCACGGGTCTTACACACGGGCATGTCACACGCCAGTGCTGTTT
Found at i:33260069 original size:13 final size:13
Alignment explanation
Indices: 33260044--33260076 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33260034 TTACTTTAGT
*
33260044 TTAG-TTAGTTAA
1 TTAGTTTAGCTAA
33260056 TTAGTTTAGCTAA
1 TTAGTTTAGCTAA
33260069 TTAGTTTA
1 TTAGTTTA
33260077 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (13 bp):
TTAGTTTAGCTAA
Found at i:33272343 original size:208 final size:208
Alignment explanation
Indices: 33271974--33272396 Score: 729
Period size: 208 Copynumber: 2.0 Consensus size: 208
33271964 TTCAATTTCC
*
33271974 ATTCAAGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTACTCTTCTGAGATGTTTTCTTTTAT
1 ATTCAAGGGTTTTAGGTTTTCTTTATGTTTTGTATTCATTACTCTTCTGAGATGTTTTCTTTTAT
*
33272039 AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGATGAATCTTGTTACTATT
66 AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGAATCTTGTTACTATT
*
33272104 ATCTAAATTGTATGATAGATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
131 ATCTAAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
*
33272169 TTCTAGGATATTG
196 TTCCAGGATATTG
*
33272182 ATTCAAGGGTTTTAGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTTCTTTTAT
1 ATTCAAGGGTTTTAGGTTTTCTTTATGTTTTGTATTCATTACTCTTCTGAGATGTTTTCTTTTAT
* * * * *
33272247 AATTATGAACTAAACCTCCTATATACCTAAGGGGAATGAAACCTAAGGCGGATCTTGTTATTATT
66 AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGAATCTTGTTACTATT
* * *
33272312 ATCTGAATTGTATGATAAATATTTTACTTGTTCTTACTTATGTGTTCTTAATTCTTGTTTTAATA
131 ATCTAAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
33272377 TTCCAGGATATTG
196 TTCCAGGATATTG
33272390 ATTCAAG
1 ATTCAAG
33272397 TTAATGCTCT
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
208 202 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (208 bp):
ATTCAAGGGTTTTAGGTTTTCTTTATGTTTTGTATTCATTACTCTTCTGAGATGTTTTCTTTTAT
AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGAATCTTGTTACTATT
ATCTAAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
TTCCAGGATATTG
Found at i:33277305 original size:25 final size:25
Alignment explanation
Indices: 33277277--33277324 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33277267 TTGGTTTTGG
33277277 TTTTGAGTTTTCGATTTAACCTACT
1 TTTTGAGTTTTCGATTTAACCTACT
** *
33277302 TTTTGCTTTTTCGATTTTACCTA
1 TTTTGAGTTTTCGATTTAACCTA
33277325 AAGGCATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (25 bp):
TTTTGAGTTTTCGATTTAACCTACT
Found at i:33278403 original size:23 final size:23
Alignment explanation
Indices: 33278370--33278423 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
33278360 TATCACGTTG
*
33278370 TCATGACAAGAGGAAGCTCCTCG
1 TCATGACAAGAGGAAGCTCCTCA
*
33278393 TCGTGACAAGAGGAAGCTCCTCA
1 TCATGACAAGAGGAAGCTCCTCA
33278416 TCATGACA
1 TCATGACA
33278424 TCAAGTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (23 bp):
TCATGACAAGAGGAAGCTCCTCA
Found at i:33279028 original size:45 final size:45
Alignment explanation
Indices: 33278964--33279099 Score: 272
Period size: 45 Copynumber: 3.0 Consensus size: 45
33278954 ACAGGGGACT
33278964 CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
1 CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
33279009 CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
1 CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
33279054 CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
1 CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
33279099 C
1 C
33279100 TCCCATGTCT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (45 bp):
CATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTCACA
Found at i:33279234 original size:20 final size:20
Alignment explanation
Indices: 33279209--33279249 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33279199 AAGGCATCAA
*
33279209 AAACATACTAAATCATTCAT
1 AAACATACTAAATCATGCAT
33279229 AAACATACTAAATCATGCAT
1 AAACATACTAAATCATGCAT
33279249 A
1 A
33279250 TAATGACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (20 bp):
AAACATACTAAATCATGCAT
Found at i:33280903 original size:138 final size:137
Alignment explanation
Indices: 33280647--33280912 Score: 336
Period size: 138 Copynumber: 1.9 Consensus size: 137
33280637 CCATAAAATG
*
33280647 GGTCTGCTCACACAAGCTGACGGTCAGAATGTAAACTAAATAATGCTGCTCATAAAGCTAACGAG
1 GGTCTGCTCACACAAGCTGACGGTCAGAATGTAAACTAAATAATGCTGCTCACAAAGCTAACGAG
* * * * * * *
33280712 TATCTGTAACAAATGTTGGAACTCAGTCATCAGTAGGACATTCAGGACTAGCACCCGAAACATAG
66 TATCCGCAAAAAATGTCGGAACTCAGCCATCAGTAGAACATTCAGGACCAGCACCCGAAACATAG
33280777 TAACCTA
131 TAACCTA
* * * * * * *
33280784 GGTCTGCTGACACAAGCTGA-GAGTCGGAATGTAAGCTACATGATGCTGCTCACACAAGCTTATG
1 GGTCTGCTCACACAAGCTGACG-GTCAGAATGTAAACTAAATAATGCTGCTCACA-AAGCTAACG
* ** *
33280848 AGTATCCGCAAAAAATGTCGGACCTCAGCCATTGGTAGAACATTTAGGACCAGCACCCGAAACAT
64 AGTATCCGCAAAAAATGTCGGAACTCAGCCATCAGTAGAACATTCAGGACCAGCACCCGAAACAT
33280913 GAAAACCGTA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
136 1 0.01
137 46 0.43
138 61 0.56
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (137 bp):
GGTCTGCTCACACAAGCTGACGGTCAGAATGTAAACTAAATAATGCTGCTCACAAAGCTAACGAG
TATCCGCAAAAAATGTCGGAACTCAGCCATCAGTAGAACATTCAGGACCAGCACCCGAAACATAG
TAACCTA
Found at i:33292632 original size:46 final size:46
Alignment explanation
Indices: 33292513--33292876 Score: 477
Period size: 46 Copynumber: 8.0 Consensus size: 46
33292503 GCCTTCTGAA
*
33292513 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33292559 ATGAAATG--TAAGACCATGGTTGAAAGATACCATGGCATCATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
33292603 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
33292649 A-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33292695 ATGAAATGAATAAGACCATGGTTTAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
33292741 ATGAAATGAATAAGACCACGATTGAAAGATGCCATGGCAA-AGCGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA-TGAT
* * *
33292787 ATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
33292833 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
33292877 TCAAAGATAA
Statistics
Matches: 281, Mismatches: 30, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
44 43 0.15
45 3 0.01
46 233 0.83
47 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:33298762 original size:17 final size:17
Alignment explanation
Indices: 33298732--33298766 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33298722 TCAGTAATAA
*
33298732 ACTTCGTATAATCACAT
1 ACTTCATATAATCACAT
*
33298749 ACTTCATATCATCACAT
1 ACTTCATATAATCACAT
33298766 A
1 A
33298767 TACCTTGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (17 bp):
ACTTCATATAATCACAT
Found at i:33300858 original size:16 final size:16
Alignment explanation
Indices: 33300837--33300907 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
33300827 GTTTGGTTCA
*
33300837 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
33300853 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
33300869 TTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
33300885 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
33300901 CTGTAAT
1 CTGTAAT
33300908 CAGTAATTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:33300951 original size:46 final size:44
Alignment explanation
Indices: 33300889--33300981 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
33300879 ATAGAGTTGT
*
33300889 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAAAGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAAAGG
*** *
33300935 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAAAGG
33300979 AAT
1 AAT
33300982 AATGTTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAAAGG
Found at i:33301158 original size:26 final size:25
Alignment explanation
Indices: 33301129--33301211 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 25
33301119 AATAAATAAT
*
33301129 TTAATCATATTTTAACATAATTATTA
1 TTAAT-ATATTTTAATATAATTATTA
* * * *
33301155 TTAAATATAATTTAATAAAAATATAA
1 TT-AATATATTTTAATATAATTATTA
*
33301181 TTTAATAACATTCTTAATATAATTATTA
1 -TTAAT-ATATT-TTAATATAATTATTA
33301209 TTA
1 TTA
33301212 TATGAATTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
26 20 0.47
27 11 0.26
28 12 0.28
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATATATTTTAATATAATTATTA
Found at i:33301169 original size:58 final size:53
Alignment explanation
Indices: 33301094--33301211 Score: 139
Period size: 54 Copynumber: 2.1 Consensus size: 53
33301084 AATAAGATTG
* *
33301094 TTATTGAAAATAATTTAATGAAAATAATAAATAATTTAATCATATT-TTAACATAATTA
1 TTATT-AAAATAATTTAAT--AAA-AAT--ATAATTTAATAACATTCTTAACATAATTA
*
33301152 TTATTAAATATAATTTAATAAAAATATAATTTAATAACATTCTTAATATAATTA
1 TTATTAAA-ATAATTTAATAAAAATATAATTTAATAACATTCTTAACATAATTA
33301206 TTATTA
1 TTATTA
33301212 TATGAATTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
53 14 0.25
54 17 0.31
55 3 0.05
56 3 0.05
57 3 0.05
58 15 0.27
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (53 bp):
TTATTAAAATAATTTAATAAAAATATAATTTAATAACATTCTTAACATAATTA
Found at i:33301176 original size:16 final size:16
Alignment explanation
Indices: 33301157--33301188 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33301147 AATTATTATT
33301157 AAATATAATTTAATAA
1 AAATATAATTTAATAA
33301173 AAATATAATTTAATAA
1 AAATATAATTTAATAA
33301189 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:33304928 original size:26 final size:26
Alignment explanation
Indices: 33304856--33304956 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 26
33304846 TTATAATAGG
*
33304856 AATATTACTAAATATAATTTAATAAT
1 AATATTATTAAATATAATTTAATAAT
* * * *
33304882 AA-ATAATTTAATCATACTTTAAT-TT
1 AATATTATTAAAT-ATAATTTAATAAT
33304907 AAGTATTATTAAATATAATTTAATAA-
1 AA-TATTATTAAATATAATTTAATAAT
*
33304933 AA-A-TAATAACATATAATTTAATAA
1 AATATTATTAA-ATATAATTTAATAA
33304957 CATTCTTAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.08
24 15 0.25
25 10 0.17
26 22 0.37
27 8 0.13
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (26 bp):
AATATTATTAAATATAATTTAATAAT
Found at i:33304998 original size:63 final size:61
Alignment explanation
Indices: 33304875--33305012 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 61
33304865 AAATATAATT
* *
33304875 TAATAATAAATAATTTAATCATACTTTAATTTAAGTATTATTAAATATAATTTAATAAAAA
1 TAATAATATATAATTTAATCATACTTTAATATAAGTATTATTAAATATAATTTAATAAAAA
* * *
33304936 TAATAACATATAATTTAATAACATTC-TTAATATAATTATTATTAAAATATGAA-TTAATAAAAA
1 TAATAATATATAATTTAAT--CATACTTTAATATAAGTATTATT-AAATAT-AATTTAATAAAAA
*
33304999 TCATAATATATAAT
1 TAATAATATATAAT
33305013 ATTAGAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
61 17 0.26
62 15 0.23
63 32 0.48
64 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (61 bp):
TAATAATATATAATTTAATCATACTTTAATATAAGTATTATTAAATATAATTTAATAAAAA
Found at i:33305126 original size:15 final size:16
Alignment explanation
Indices: 33305106--33305140 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33305096 TAATTTAATT
33305106 ATCTTC-TATAAATGA
1 ATCTTCTTATAAATGA
*
33305121 ATCTTCTTATAAATTA
1 ATCTTCTTATAAATGA
33305137 ATCT
1 ATCT
33305141 CAGTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (16 bp):
ATCTTCTTATAAATGA
Found at i:33305277 original size:14 final size:12
Alignment explanation
Indices: 33305249--33305275 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33305239 TCATTTGTTA
33305249 TTTATATAATTT
1 TTTATATAATTT
33305261 TTTATATAATTT
1 TTTATATAATTT
33305273 TTT
1 TTT
33305276 TTTGCCTGTG
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATAATTT
Found at i:33305321 original size:19 final size:18
Alignment explanation
Indices: 33305294--33305336 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33305284 TGTTATAATC
33305294 TAAAAATGATAAATTGTAT
1 TAAAAATGA-AAATTGTAT
* * *
33305313 TAAACATGAAATTTTTAT
1 TAAAAATGAAAATTGTAT
33305331 TAAAAA
1 TAAAAA
33305337 AAGAAAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (18 bp):
TAAAAATGAAAATTGTAT
Found at i:33306031 original size:5 final size:5
Alignment explanation
Indices: 33306007--33306045 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
33305997 TGAACATTGA
*
33306007 AAACT AAA-T AACCAT AAACT AAACT AAACT AAACT AAAC
1 AAACT AAACT AAAC-T AAACT AAACT AAACT AAACT AAAC
33306046 AACTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.77
6 4 0.13
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
AAACT
Found at i:33306698 original size:12 final size:12
Alignment explanation
Indices: 33306681--33306707 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33306671 AGTCATAAGC
33306681 CCTTAATTGCAA
1 CCTTAATTGCAA
33306693 CCTTAATTGCAA
1 CCTTAATTGCAA
33306705 CCT
1 CCT
33306708 CAGTCATGAG
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:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (12 bp):
CCTTAATTGCAA
Found at i:33310825 original size:64 final size:64
Alignment explanation
Indices: 33310724--33310852 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
33310714 TAATTATTTT
33310724 GTATACTTTTATTTACTTTCTTTCGCTCATACAAGTCTTATTTGAGTTGAAGTGTAAACCAGTA
1 GTATACTTTTATTTACTTTCTTTCGCTCATACAAGTCTTATTTGAGTTGAAGTGTAAACCAGTA
33310788 GTATACTTTTATTTACTTTCTTTCGCTCATACAAGTCTTATTTGAGTTGAAGTGTAAACCAGTA
1 GTATACTTTTATTTACTTTCTTTCGCTCATACAAGTCTTATTTGAGTTGAAGTGTAAACCAGTA
33310852 G
1 G
33310853 CAACTATTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (64 bp):
GTATACTTTTATTTACTTTCTTTCGCTCATACAAGTCTTATTTGAGTTGAAGTGTAAACCAGTA
Found at i:33327082 original size:46 final size:46
Alignment explanation
Indices: 33327016--33327158 Score: 189
Period size: 46 Copynumber: 3.1 Consensus size: 46
33327006 CCGCCACTTT
* * *
33327016 GGCTTACAA-TTCGACAGGCTCGTACTTTGCTTACTGTCTTTAATA
1 GGCTTACAACTTTGACAGGCTCGTACTTTGCTTACTGTCTTCAACA
* * * *
33327061 GGCTTACAACTTTGACAGGCTCGTACTCTACTTTCTATCTTCAACA
1 GGCTTACAACTTTGACAGGCTCGTACTTTGCTTACTGTCTTCAACA
* *
33327107 GGCTCACAACTTTGACAAGCTCGTACTTTGGCTTACTGTCTTCAACA
1 GGCTTACAACTTTGACAGGCTCGTACTTT-GCTTACTGTCTTCAACA
33327154 GGCTT
1 GGCTT
33327159 TCACATTTAC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 9 0.11
46 55 0.67
47 18 0.22
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (46 bp):
GGCTTACAACTTTGACAGGCTCGTACTTTGCTTACTGTCTTCAACA
Found at i:33328116 original size:10 final size:10
Alignment explanation
Indices: 33328093--33328125 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
33328083 GTAAAGTTGT
33328093 AAAATTTGATG
1 AAAATTT-ATG
33328104 AAAATTTATG
1 AAAATTTATG
33328114 AAAATTTATG
1 AAAATTTATG
33328124 AA
1 AA
33328126 TATAAGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (10 bp):
AAAATTTATG
Found at i:33334870 original size:40 final size:40
Alignment explanation
Indices: 33334786--33334969 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33334776 TTGAATGCTG
* * * *
33334786 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33334825 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33334866 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33334906 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33334946 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33334970 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33334923 original size:80 final size:81
Alignment explanation
Indices: 33334786--33334966 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
33334776 TTGAATGCTG
* * *
33334786 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33334850 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
33334866 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
33334927 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
33334946 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33334967 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33334990 original size:39 final size:38
Alignment explanation
Indices: 33334867--33335016 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
33334857 GTTATTAATT
* ** * *
33334867 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
33334907 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
33334946 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
33334986 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
33335017 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:33338765 original size:12 final size:11
Alignment explanation
Indices: 33338742--33338782 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
33338732 TAACATACTG
33338742 AATTTTTAATT
1 AATTTTTAATT
33338753 AATTTTATAATT
1 AATTTT-TAATT
33338765 AATTTTGT--TT
1 AATTTT-TAATT
33338775 AATTTTTA
1 AATTTTTA
33338783 TTATTTTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 1 0.04
10 8 0.30
11 6 0.22
12 12 0.44
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
AATTTTTAATT
Found at i:33349173 original size:19 final size:19
Alignment explanation
Indices: 33349149--33349186 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33349139 TCATTGTTCA
33349149 TTAATGACACAATTCTTTT
1 TTAATGACACAATTCTTTT
*
33349168 TTAATGACACAATTGTTTT
1 TTAATGACACAATTCTTTT
33349187 CATTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (19 bp):
TTAATGACACAATTCTTTT
Found at i:33355941 original size:28 final size:28
Alignment explanation
Indices: 33355909--33355965 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
33355899 GCAAAATAAA
33355909 ATAAATATCTTTTTTCTTAAATGTATAT
1 ATAAATATCTTTTTTCTTAAATGTATAT
33355937 ATAAATATCTTTTTTCTTAAATGTATAT
1 ATAAATATCTTTTTTCTTAAATGTATAT
33355965 A
1 A
33355966 CACATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (28 bp):
ATAAATATCTTTTTTCTTAAATGTATAT
Found at i:33359686 original size:13 final size:13
Alignment explanation
Indices: 33359668--33359705 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
33359658 GGTTAGTTTA
33359668 TTAAACTAATTAT
1 TTAAACTAATTAT
33359681 TTAAACTAATTAT
1 TTAAACTAATTAT
33359694 TTAAACTAATTA
1 TTAAACTAATTA
33359706 ACGGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:33365367 original size:4 final size:4
Alignment explanation
Indices: 33365341--33365381 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
33365331 TGAAAAAAAA
33365341 AAAG AAAG AAAAG AAAG -AA- AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
33365382 GAAGAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.12
4 26 0.76
5 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:33365371 original size:18 final size:19
Alignment explanation
Indices: 33365339--33365384 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
33365329 TTTGAAAAAA
33365339 AAAAAGAAAGAAAAGAAAG
1 AAAAAGAAAGAAAAGAAAG
33365358 AAAAAGAAAG-AAAGAAAG
1 AAAAAGAAAGAAAAGAAAG
33365376 AAAGAAGAA
1 AAA-AAGAA
33365385 GAAGAAGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGAAAAGAAAG
Found at i:33365375 original size:22 final size:23
Alignment explanation
Indices: 33365332--33365387 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
33365322 ATTCAATTTT
33365332 GAAA-AAAAA-AAAGAAAGAAAA
1 GAAAGAAAAAGAAAGAAAGAAAA
33365353 GAAAGAAAAAGAAAGAAAG-AAA
1 GAAAGAAAAAGAAAGAAAGAAAA
*
33365375 GAAAGAAGAAGAA
1 GAAAGAAAAAGAA
33365388 GAAGCGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 4 0.12
22 20 0.62
23 8 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
GAAAGAAAAAGAAAGAAAGAAAA
Found at i:33365772 original size:6 final size:6
Alignment explanation
Indices: 33365703--33365756 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
33365693 GAAGAAGAAG
* * * * *
33365703 AATAGT AATATT ATTATT AATATT GATATT AATAAT -ATATT AATAAT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
33365750 AATATT A
1 AATATT A
33365757 TTGTTGTTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:33369606 original size:28 final size:28
Alignment explanation
Indices: 33369543--33369668 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
33369533 ATATTAAGTC
*
33369543 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33369570 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33369598 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33369626 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33369655 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33369669 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33370132 original size:12 final size:12
Alignment explanation
Indices: 33370115--33370141 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33370105 TGGGCATACT
33370115 TATGTATATATA
1 TATGTATATATA
33370127 TATGTATATATA
1 TATGTATATATA
33370139 TAT
1 TAT
33370142 ACTTCGGAAT
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:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:33371693 original size:28 final size:28
Alignment explanation
Indices: 33371630--33371755 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
33371620 ATATTAAGTC
*
33371630 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33371657 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33371685 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33371713 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33371742 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33371756 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33372219 original size:12 final size:12
Alignment explanation
Indices: 33372202--33372228 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33372192 TGGGCATACT
33372202 TATGTATATATA
1 TATGTATATATA
33372214 TATGTATATATA
1 TATGTATATATA
33372226 TAT
1 TAT
33372229 ACTTCGGAAT
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:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:33385100 original size:28 final size:28
Alignment explanation
Indices: 33385037--33385162 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
33385027 ATATTAAGTC
*
33385037 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33385064 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33385092 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33385120 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33385149 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33385163 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33389311 original size:33 final size:33
Alignment explanation
Indices: 33389266--33389359 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
33389256 AACACAGTGT
* *
33389266 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
33389299 CAGTACAGTCTGGGCCTTAGCCC--TTC---AA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
33389327 CAGTAGCAGTATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAGTCTGGGCCTAAGCCCT-ATTCAGT
33389360 CTCGACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 16 0.33
31 3 0.06
32 3 0.06
33 20 0.41
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
Found at i:33389341 original size:29 final size:28
Alignment explanation
Indices: 33389297--33389351 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
33389287 CCTATTCAGT
* *
33389297 AACAGTACAGTCTGGGCCTTAGCCCTTC
1 AACAGTACAGTATGGGCCTAAGCCCTTC
33389325 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
33389352 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTC
Found at i:33389658 original size:24 final size:25
Alignment explanation
Indices: 33389631--33389682 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
33389621 GCCTAGCCTC
33389631 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
** *
33389655 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
33389680 TTT
1 TTT
33389683 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:33389917 original size:27 final size:27
Alignment explanation
Indices: 33389887--33390082 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
33389877 GGGGCAAAAT
* * * *
33389887 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
33389914 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
33389941 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
33389968 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
33389995 AATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
33390022 GGTAACTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
33390049 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
33390076 GGTAATT
1 GGTAATT
33390083 TTACAAACTA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:33389944 original size:54 final size:54
Alignment explanation
Indices: 33389886--33390112 Score: 280
Period size: 54 Copynumber: 4.2 Consensus size: 54
33389876 AGGGGCAAAA
* * *
33389886 TGGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
33389940 TGGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*** *
33389994 CAAT-ATTTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * * * **
33390048 TAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTT
33390102 TGGTAATTTTA
1 TGGTAATTTTA
33390113 TAAACTAAGG
Statistics
Matches: 152, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
53 7 0.05
54 142 0.93
55 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:33390095 original size:27 final size:27
Alignment explanation
Indices: 33390038--33390354 Score: 345
Period size: 27 Copynumber: 11.7 Consensus size: 27
33390028 TCTACCCTAC
* * **
33390038 AGGGGTATTTTAGTAATTCTACCCTAC-
1 AGGGGTATTTTGGTAATTTTA-CAAACT
33390065 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
33390092 AGGGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
33390119 AAGGGTATTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
33390145 CGAGGGTATTTCAGTAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
33390172 CAGGGGTATTTTGGTAATTTTATAAACC
1 -AGGGGTATTTTGGTAATTTTACAAACT
* *
33390200 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
33390227 AAGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
33390254 AAGGGTATTTCAGTAATTTCACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
*
33390280 CAGGGGTATTTTGGTAATTTCACAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
33390308 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
33390335 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
33390355 GCTAATCGAG
Statistics
Matches: 249, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.02
27 239 0.96
28 4 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:33390098 original size:81 final size:81
Alignment explanation
Indices: 33389919--33390107 Score: 220
Period size: 81 Copynumber: 2.3 Consensus size: 81
33389909 ATCTCGGTAA
** ** *
33389919 TTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
1 TTCTACCAAACAGGGGTATTTTGGTAACTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTAC
33389984 AGGGGTATTTCAATAT
66 AGGGGTATTTCAATAT
** * * * *
33390000 TTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTAC
1 TTCTACCAAACAGGGGTATTTTGGTAACTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTAC
***
33390065 AGGGGTATTTTGGTAAT
66 AGGGGTATTTCAAT-AT
33390082 TT-TA-CAAACTAGGGGTATTTTGGTAA
1 TTCTACCAAAC-AGGGGTATTTTGGTAA
33390108 TTTTATAAAC
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 85 0.92
82 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
TTCTACCAAACAGGGGTATTTTGGTAACTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTAC
AGGGGTATTTCAATAT
Found at i:33390123 original size:108 final size:108
Alignment explanation
Indices: 33390010--33390352 Score: 421
Period size: 108 Copynumber: 3.2 Consensus size: 108
33390000 TTCTACCCTA
* * * **
33390010 CAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTTTAGTAA-TTCTAC-CCTACAGGGGTAT
1 CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTC-ACAAAT-CAGGGGTAT
*
33390073 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAAC
64 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
* * **
33390118 TAAGGGTATTTTGGTAATTTTACAAGT-C-GAGGGTATTTCAGTAATTTCACAAATCAGGGGTAT
1 CAAGGGTATTTTGGTAATTCTAC-CCTACAG-GGGTATTTCAGTAATTTCACAAATCAGGGGTAT
* * *
33390181 TTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
64 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
* *
33390226 CAAGGGTATTTTGGTAATTTTGTAAACC-A-A-GGGTATTTCAGTAATTTCACAAATCAGGGGTA
1 CAAGGGTATTTTGGTAA--TTCT-ACCCTACAGGGGTATTTCAGTAATTTCACAAATCAGGGGTA
*
33390288 TTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAAC
63 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
*
33390334 CAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
33390353 TTGCTAATCG
Statistics
Matches: 203, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
106 2 0.01
107 1 0.00
108 191 0.94
109 5 0.02
110 3 0.01
111 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (108 bp):
CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTCACAAATCAGGGGTATTT
TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
Found at i:33390403 original size:27 final size:27
Alignment explanation
Indices: 33390337--33390406 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
33390327 TACAAACCAG
* *
33390337 GGGTATTTTGGTAATTTTGCTAATCGA
1 GGGTAATTTGGTAATTCTGCTAATCGA
***
33390364 GGGTAAAACGGTAATTCTG-TAAATCGA
1 GGGTAATTTGGTAATTCTGCT-AATCGA
*
33390391 GGGTACTTTGGTAATT
1 GGGTAATTTGGTAATT
33390407 TGGTAAACTA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (27 bp):
GGGTAATTTGGTAATTCTGCTAATCGA
Found at i:33390416 original size:108 final size:108
Alignment explanation
Indices: 33390064--33390368 Score: 488
Period size: 108 Copynumber: 2.8 Consensus size: 108
33390054 TTCTACCCTA
* *
33390064 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
33390129 TGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAAT
66 TGGTAATTTTGCTAA-TCGAGGGTATTTCAGTAATTTCACAAAT
* * *
33390172 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
33390237 TGGTAATTTTG-TAAACCAAGGGTATTTCAGTAATTTCACAAAT
66 TGGTAATTTTGCT-AATCGAGGGTATTTCAGTAATTTCACAAAT
* *
33390280 CAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
33390345 TGGTAATTTTGCTAATCGAGGGTA
66 TGGTAATTTTGCTAATCGAGGGTA
33390369 AAACGGTAAT
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
108 176 0.98
109 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (108 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
TGGTAATTTTGCTAATCGAGGGTATTTCAGTAATTTCACAAAT
Found at i:33395128 original size:29 final size:30
Alignment explanation
Indices: 33395096--33395157 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
33395086 ACTTAACAAG
*
33395096 CAAATGCCTCTAAAATAA-AATAAAATTAA
1 CAAATGCCTCTAAAATAATAAGAAAATTAA
*
33395125 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTCTAAAATAATAAGAAAATTAA
33395155 CAA
1 CAA
33395158 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAGAAAATTAA
Found at i:33395212 original size:22 final size:22
Alignment explanation
Indices: 33395187--33395229 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33395177 TATCCAAACA
33395187 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
33395209 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
33395230 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:33395233 original size:11 final size:11
Alignment explanation
Indices: 33395194--33395234 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
33395184 ACAATAACAA
33395194 CAAAATAGTAG
1 CAAAATAGTAG
* *
33395205 CAACATAATAG
1 CAAAATAGTAG
*
33395216 TAAAATAGTAG
1 CAAAATAGTAG
33395227 CAAAATAG
1 CAAAATAG
33395235 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:33406541 original size:17 final size:18
Alignment explanation
Indices: 33406519--33406557 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
33406509 AGGCCAAGTT
33406519 GGGTGTGTGGGCC-ACAC
1 GGGTGTGTGGGCCTACAC
33406536 GGGTGTGTGGGCCTACAC
1 GGGTGTGTGGGCCTACAC
33406554 GGGT
1 GGGT
33406558 ATGTCACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.10, C:0.21, G:0.49, T:0.21
Consensus pattern (18 bp):
GGGTGTGTGGGCCTACAC
Found at i:33407119 original size:18 final size:18
Alignment explanation
Indices: 33407086--33407129 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
33407076 CTACTTATGT
**
33407086 AATCTGAATCTGAATTT-
1 AATCTGAATCCAAATTTG
33407103 AGATCTGAATCCAAATTTG
1 A-ATCTGAATCCAAATTTG
33407122 AATCTGAA
1 AATCTGAA
33407130 ACTGTATCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (18 bp):
AATCTGAATCCAAATTTG
Found at i:33408488 original size:7 final size:8
Alignment explanation
Indices: 33408461--33408505 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
33408451 AAATAATTTA
33408461 AAAAATAT
1 AAAAATAT
*
33408469 GAAAATAT
1 AAAAATAT
33408477 AAAAATAT
1 AAAAATAT
33408485 -AAAATAT
1 AAAAATAT
*
33408492 AAAACTATT
1 AAAAATA-T
33408501 AAAAA
1 AAAAA
33408506 AAGATCATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 7 0.23
8 19 0.61
9 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:33408488 original size:15 final size:16
Alignment explanation
Indices: 33408461--33408495 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
33408451 AAATAATTTA
33408461 AAAAATATGAAAATAT
1 AAAAATATGAAAATAT
33408477 AAAAATAT-AAAATAT
1 AAAAATATGAAAATAT
33408492 AAAA
1 AAAA
33408496 CTATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATATGAAAATAT
Found at i:33409141 original size:25 final size:24
Alignment explanation
Indices: 33409100--33409160 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
33409090 TAGGTAAAAT
*
33409100 AAATAAAAAATATTAAAAATATAAG
1 AAATAAAAAA-AATAAAAATATAAG
* *
33409125 CAAATAAAAAAAATAAATATATGAG
1 -AAATAAAAAAAATAAAAATATAAG
33409150 AAATAAAAAAA
1 AAATAAAAAAA
33409161 TAACAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 11 0.34
25 11 0.34
26 10 0.31
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (24 bp):
AAATAAAAAAAATAAAAATATAAG
Found at i:33409157 original size:23 final size:24
Alignment explanation
Indices: 33409100--33409163 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
33409090 TAGGTAAAAT
33409100 AAATAAAAAATATTAAAAATATAAGC
1 AAATAAAAAA-A-TAAAAATATAAGC
* *
33409126 AAATAAAAAAAATAAATATATGAG-
1 AAAT-AAAAAAATAAAAATATAAGC
33409150 AAATAAAAAAATAA
1 AAATAAAAAAATAA
33409164 CAAAAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 10 0.29
24 4 0.11
25 10 0.29
26 5 0.14
27 6 0.17
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (24 bp):
AAATAAAAAAATAAAAATATAAGC
Found at i:33412041 original size:29 final size:30
Alignment explanation
Indices: 33411990--33412056 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
33411980 ACAGTTTTTT
*
33411990 TAAATAATAAATAATTAATAATTATTTTA-AA
1 TAAA-AATAAAAAATTAATAATT-TTTTATAA
* *
33412021 TAAAAATAAAAAATT-TTAATTTTTTATTA
1 TAAAAATAAAAAATTAATAATTTTTTATAA
33412050 TAAAAAT
1 TAAAAAT
33412057 GATTTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.16
29 13 0.41
30 10 0.31
31 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAAAATAAAAAATTAATAATTTTTTATAA
Found at i:33424737 original size:23 final size:23
Alignment explanation
Indices: 33424707--33424776 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
33424697 AATTGAGCTG
33424707 AACAGTAAGCTCCGTAGAGTTGA
1 AACAGTAAGCTCCGTAGAGTTGA
*
33424730 AACAGTAAGC-CCCTA-AGGATTGA
1 AACAGTAAGCTCCGTAGA-G-TTGA
* *
33424753 AACAGTAAGCTCCGAAGAGCTGA
1 AACAGTAAGCTCCGTAGAGTTGA
33424776 A
1 A
33424777 CGATAAGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 28 0.72
24 4 0.10
25 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (23 bp):
AACAGTAAGCTCCGTAGAGTTGA
Found at i:33424785 original size:22 final size:23
Alignment explanation
Indices: 33424758--33424810 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
33424748 ATTGAAACAG
* *
33424758 TAAGCTCCGAAGAGCT-GAACGA
1 TAAGCTCAGAAGAGCTAAAACGA
*
33424780 TAAGCTCATAAGAGCTAAAACGA
1 TAAGCTCAGAAGAGCTAAAACGA
33424803 TAAGCTCA
1 TAAGCTCA
33424811 TACAAGCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (23 bp):
TAAGCTCAGAAGAGCTAAAACGA
Found at i:33424818 original size:23 final size:23
Alignment explanation
Indices: 33424758--33424812 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
33424748 ATTGAAACAG
** *
33424758 TAAGCTCCGAAGAGCT-GAACGA
1 TAAGCTCATAAGAGCTAAAACGA
33424780 TAAGCTCATAAGAGCTAAAACGA
1 TAAGCTCATAAGAGCTAAAACGA
33424803 TAAGCTCATA
1 TAAGCTCATA
33424813 CAAGCTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
TAAGCTCATAAGAGCTAAAACGA
Found at i:33432460 original size:22 final size:23
Alignment explanation
Indices: 33432435--33432487 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
33432425 GAGCTGAACG
*
33432435 GTAAGCTCCGT-GAACTGAAACA
1 GTAAGCTCCCTAGAACTGAAACA
*
33432457 GTAAGC-CCCTAAGGACTGAAACA
1 GTAAGCTCCCT-AGAACTGAAACA
33432480 GTAAGCTC
1 GTAAGCTC
33432488 TGAAGAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 16 0.62
24 1 0.04
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.17
Consensus pattern (23 bp):
GTAAGCTCCCTAGAACTGAAACA
Found at i:33432499 original size:23 final size:22
Alignment explanation
Indices: 33432449--33432542 Score: 68
Period size: 23 Copynumber: 4.1 Consensus size: 22
33432439 GCTCCGTGAA
* *
33432449 CTGAAACAGTAAGCCCCTAAG-G
1 CTGAAAC-GTAAGCTCATAAGAG
33432471 ACTGAAACAGTAAGCTC-TGAAGAG
1 -CTGAAAC-GTAAGCTCAT-AAGAG
*
33432495 TTG-AACGATAAGCTCATAAGAG
1 CTGAAACG-TAAGCTCATAAGAG
* *
33432517 CTAAAACGGTAAGCTCATACGAG
1 CTGAAAC-GTAAGCTCATAAGAG
33432540 CTG
1 CTG
33432543 TGGTGAGTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
21 1 0.02
22 17 0.29
23 39 0.66
24 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.18
Consensus pattern (22 bp):
CTGAAACGTAAGCTCATAAGAG
Found at i:33432515 original size:22 final size:23
Alignment explanation
Indices: 33432498--33432541 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
33432488 TGAAGAGTTG
33432498 AACGATAAGCTCATAAGAGCTAA
1 AACGATAAGCTCATAAGAGCTAA
* *
33432521 AACGGTAAGCTCATACGAGCT
1 AACGATAAGCTCATAAGAGCT
33432542 GTGGTGAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
AACGATAAGCTCATAAGAGCTAA
Found at i:33439196 original size:111 final size:110
Alignment explanation
Indices: 33439043--33439274 Score: 356
Period size: 111 Copynumber: 2.1 Consensus size: 110
33439033 CACGGCTAAG
* *
33439043 ACACACGGCCATGTCTTTGCCTGTGTGTTTACTACTGGCAATCTGTTTTGCATCATTAGGGTGCA
1 ACACACGGCCATGTCTCTGCCTGTGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCA
**
33439108 AGGGACACACGACCGAATCACACACCCCTAGGGCAGGCCGTGTGTC
66 AGGGACACACGACCGAATCACACACCCCTA-GGCAAACCGTGTGTC
* *
33439154 ACACACGGCCGTGTCTCTGCCTGTGTGTTTACTATTGGCAATCTATTTTGCATCATTAGGGTGCA
1 ACACACGGCCATGTCTCTGCCTGTGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCA
* * * *
33439219 GGGGACACACGATCGAATCATACACCCCTAGGCAAATCGTGTGTC
66 AGGGACACACGACCGAATCACACACCCCTAGGCAAACCGTGTGTC
*
33439264 ACACACTGCCA
1 ACACACGGCCA
33439275 AGACACATGC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 21 0.19
111 88 0.81
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (110 bp):
ACACACGGCCATGTCTCTGCCTGTGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCA
AGGGACACACGACCGAATCACACACCCCTAGGCAAACCGTGTGTC
Found at i:33440476 original size:45 final size:45
Alignment explanation
Indices: 33440426--33440513 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
33440416 AAACATATGC
* *
33440426 CACATACATCATGAATTCAGACCACAACTCAATAAGTTTAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGATGT
* * *
33440471 CACATATATCATGAACTCAGACCATAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGAT
33440514 CACATAGCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGATGT
Found at i:33453895 original size:47 final size:47
Alignment explanation
Indices: 33453819--33453998 Score: 166
Period size: 47 Copynumber: 3.8 Consensus size: 47
33453809 ACTGACGTTG
* * * * *
33453819 CTAAAATACATTGTAGATATACCACTGGTCGAGAAGGTGACT-GCGCA
1 CTAAAATACGTTGTGGATAAACCACTGGTCAAGAAGGTGACTACCG-A
* * *
33453866 CTAAAATACGTTATGGATAAACCAGTGGTCAAGCAGGTGACTACCGA
1 CTAAAATACGTTGTGGATAAACCACTGGTCAAGAAGGTGACTACCGA
* * ** ** *
33453913 CTAAAATACGTTGTGGATAAACCACTGGT-AGAGCAGATGGTTGTCAA
1 CTAAAATACGTTGTGGATAAACCACTGGTCA-AGAAGGTGACTACCGA
* * *
33453960 CTAAGATACGTTGTGGATAAACCACTGGTGAAGTAGGTG
1 CTAAAATACGTTGTGGATAAACCACTGGTCAAGAAGGTG
33453999 TGTCACATCC
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.01
47 107 0.96
48 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (47 bp):
CTAAAATACGTTGTGGATAAACCACTGGTCAAGAAGGTGACTACCGA
Found at i:33454710 original size:21 final size:21
Alignment explanation
Indices: 33454668--33454710 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33454658 ACACTATCCG
**
33454668 TATTTGGTAGCTTCTTTGCAA
1 TATTTGGTAGCTTCTTCACAA
33454689 TATTTGGTAGCTT-TTCCACAA
1 TATTTGGTAGCTTCTT-CACAA
33454710 T
1 T
33454711 TTGGTGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (21 bp):
TATTTGGTAGCTTCTTCACAA
Found at i:33457178 original size:3 final size:3
Alignment explanation
Indices: 33457164--33457206 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
33457154 CAATTAATTG
*
33457164 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33457207 ATATCTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33478178 original size:26 final size:26
Alignment explanation
Indices: 33478132--33478198 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
33478122 CTCAAATTGT
*
33478132 ATTTCTCATTTCA-TCTTATAATATCA
1 ATTTCTCATTTCATTCTAATAAT-TCA
*
33478158 CTTTCTCATTTCATTC-AATAATTCA
1 ATTTCTCATTTCATTCTAATAATTCA
*
33478183 ATTTATCAATTTCATT
1 ATTTCTC-ATTTCATT
33478199 TGATTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.23
26 25 0.71
27 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTCTCATTTCATTCTAATAATTCA
Found at i:33479448 original size:6 final size:6
Alignment explanation
Indices: 33479430--33479525 Score: 56
Period size: 6 Copynumber: 15.8 Consensus size: 6
33479420 AAGAAACATT
* * *
33479430 ATCAGA A-CTAGA ATCAGA ATCAGA AT-AGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
33479478 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ACCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
33479526 GTAACAGAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 9 0.13
6 52 0.75
7 6 0.09
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:33479512 original size:31 final size:31
Alignment explanation
Indices: 33479439--33479534 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
33479429 TATCAGAACT
* * *
33479439 AGAATCAGAATCAGAAT-AGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
*
33479469 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
* *
33479500 AGAATCAAAATCAGAACCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
33479531 AGAA
1 AGAA
33479535 AATGCAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 16 0.28
31 42 0.72
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:33479716 original size:27 final size:26
Alignment explanation
Indices: 33479668--33479769 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
33479658 GCTCGGTTAT
* * *
33479668 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
33479695 CAGATATTGTGGCAAAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
*
33479721 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
* *
33479749 CAGATAATATGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
33479770 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:33479752 original size:54 final size:53
Alignment explanation
Indices: 33479668--33479769 Score: 141
Period size: 54 Copynumber: 1.9 Consensus size: 53
33479658 GCTCGGTTAT
* * * *
33479668 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAAAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCACCAGAA
* *
33479721 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATATGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCAC
33479770 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 36 0.86
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCACCAGAA
Found at i:33479956 original size:22 final size:23
Alignment explanation
Indices: 33479928--33479989 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
33479918 GCAAATACGT
*
33479928 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
33479950 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
33479972 TTGACACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
33479990 TAGAAGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:33480474 original size:27 final size:27
Alignment explanation
Indices: 33480416--33481390 Score: 1327
Period size: 27 Copynumber: 36.3 Consensus size: 27
33480406 GGGGCAAAAT
* * * *
33480416 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
33480442 GATAATTCCACCCTACAGGGGTGTTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33480469 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33480496 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33480523 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33480550 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33480577 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33480604 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33480631 GATAATTCTACCC-AGCAGGGGTATTTC
1 GGTAATTCTACCCTA-CAGGGGTATTTC
*
33480658 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33480685 GATAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33480712 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33480739 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33480766 GATAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33480793 TGTAATTCTACCCTGCAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33480820 GGTAATTCTACCCTACGGGGGTA-TAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33480846 TGGTAATTCTACCCTACAAGGATATTCC
1 -GGTAATTCTACCCTACAGGGGTATTTC
**
33480874 GGTAATTCTACCCTATGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33480901 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33480927 TGGTAATTCTACCCTATAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
33480955 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33480982 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
33481008 CGTAATTCTACCCTATAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
33481035 GGTAATTCTACTTTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
33481062 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33481089 GGTAATTCTATCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
33481116 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33481143 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33481170 GATAATTCTACCCTACTGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33481196 TGGTAATTCTACCCTAC--GGGTATTCC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
33481222 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33481249 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33481276 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33481303 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33481330 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33481357 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33481384 AGTAATT
1 GGTAATT
33481391 TTGTAAATCG
Statistics
Matches: 844, Mismatches: 93, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
25 21 0.02
26 46 0.05
27 771 0.91
28 6 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33481468 original size:27 final size:27
Alignment explanation
Indices: 33481385--33481485 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
33481375 GGGTATTTCA
* *
33481385 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
33481412 GTAATTTTGTAAATCTAGGGTGAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
33481439 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
33481466 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
33481486 CATTTCAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:33481497 original size:54 final size:55
Alignment explanation
Indices: 33481375--33481498 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 55
33481365 TACCCTACAG
* * * ** *
33481375 GGGT-ATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCTA
1 GGGTCATTTCAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGA
* ** * *
33481429 GGGTGA-AACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGA
1 GGGTCATTTCAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGA
33481483 GGG-CATTTCAGTAATT
1 GGGTCATTTCAGTAATT
33481499 TGGTAAACTA
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
53 1 0.02
54 52 0.96
55 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (55 bp):
GGGTCATTTCAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGA
Found at i:33491809 original size:18 final size:18
Alignment explanation
Indices: 33491773--33491830 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
33491763 TAACACCCTG
* * *
33491773 ATTTTCGAGATTTTCGTA
1 ATTTTTGAGAATTTGGTA
33491791 ATTTTTGAGAATTTGGTAAA
1 ATTTTTGAGAATTTGGT--A
*
33491811 ATTTTT-AAAATTTGGTA
1 ATTTTTGAGAATTTGGTA
33491828 ATT
1 ATT
33491831 GGTTGTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.12
18 14 0.41
19 9 0.26
20 7 0.21
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (18 bp):
ATTTTTGAGAATTTGGTA
Found at i:33493698 original size:10 final size:10
Alignment explanation
Indices: 33493677--33493723 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
33493667 CATAAGATTT
33493677 TGATAT-ACA
1 TGATATGACA
33493686 TGATATGACA
1 TGATATGACA
33493696 TGATATGACA
1 TGATATGACA
33493706 TGATATGCACA
1 TGATATG-ACA
*
33493717 CGATATG
1 TGATATG
33493724 TTATGAGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.57
11 9 0.26
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (10 bp):
TGATATGACA
Found at i:33493729 original size:21 final size:21
Alignment explanation
Indices: 33493677--33493743 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
33493667 CATAAGATTT
33493677 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
33493696 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
* ** * *
33493717 CGATATGTTATGAGATACACA
1 TGATATGACATGATATGCACA
33493738 TGATAT
1 TGATAT
33493744 ACTCATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.15
20 10 0.25
21 24 0.60
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:33497638 original size:37 final size:37
Alignment explanation
Indices: 33497588--33497732 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
33497578 CTTTAGCTTA
* *
33497588 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
33497625 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
33497662 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
33497699 GACATAATCTCCACACGTAGTCATCGGGTCTTAC
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTAC
33497733 TCAGAATATA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:33498003 original size:47 final size:47
Alignment explanation
Indices: 33497942--33498126 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
33497932 TACATATATT
* * * *
33497942 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
33497989 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
33498036 TTACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
33498083 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
33498127 CACAATTATC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:33498063 original size:22 final size:22
Alignment explanation
Indices: 33498038--33498110 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
33498028 CACATTCATT
33498038 ACATTGGCCATTTGGCCTTATC
1 ACATTGGCCATTTGGCCTTATC
* ** *
33498060 ACATATATG-CATGTTCACATTCATC
1 ACAT-T-GGCCAT-TTGGCCTT-ATC
*
33498085 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTTGGCCTTATC
33498107 ACAT
1 ACAT
33498111 ATATGCACAT
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 10 0.27
25 7 0.19
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (22 bp):
ACATTGGCCATTTGGCCTTATC
Found at i:33499209 original size:11 final size:11
Alignment explanation
Indices: 33499193--33499218 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33499183 CTTTTCCCCT
33499193 ATCCGACTTTG
1 ATCCGACTTTG
33499204 ATCCGACTTTG
1 ATCCGACTTTG
33499215 ATCC
1 ATCC
33499219 TCTTTGCTCT
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:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (11 bp):
ATCCGACTTTG
Found at i:33506811 original size:28 final size:29
Alignment explanation
Indices: 33506780--33506836 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
33506770 TAAAGAGATT
*
33506780 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
* * *
33506808 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
33506837 ATTGTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTGAGGGATTAA
Found at i:33506845 original size:29 final size:28
Alignment explanation
Indices: 33506781--33506845 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
33506771 AAAGAGATTT
* * *
33506781 TTGACAAAAATGTCAATTAGGGATTAAT
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
33506809 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
33506838 TTGTGAAA
1 TTGAGAAA
33506846 TAAATGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:33508715 original size:46 final size:45
Alignment explanation
Indices: 33508658--33508782 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 45
33508648 ATTGAGATAA
*
33508658 GTGCTAATGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGAC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGAC
* * * *
33508702 GTAAGCTAGTGTAAGACATGTCTGAGACATGCAT-TGGCTACGAGAT
1 GT--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGAC
33508748 GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC
33508783 GACACAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 12 0.18
45 16 0.24
46 39 0.57
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGAC
Found at i:33529607 original size:28 final size:29
Alignment explanation
Indices: 33529576--33529632 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
33529566 TAAAGAGATT
*
33529576 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
* * *
33529604 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
33529633 ATTGTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTGAGGGATTAA
Found at i:33530436 original size:33 final size:33
Alignment explanation
Indices: 33530394--33530474 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
33530384 GTTAATAACA
33530394 CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
* *
33530427 CAGTATCAGTACAGTTTGGGCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
*
33530460 CAGTATCGGTACAGT
1 CAGTATCAGTACAGT
33530475 GCAAAATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
Done.