Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 126 of 320
Found at i:41072360 original size:18 final size:18
Alignment explanation
Indices: 41072341--41072375 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
41072331 AACAATAATA
*
41072341 AAATAAAGCA-AAGAAAT
1 AAATAAAACACAAGAAAT
41072358 AAATAAAACACAAGAAAT
1 AAATAAAACACAAGAAAT
41072376 CAAAGAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (18 bp):
AAATAAAACACAAGAAAT
Found at i:41085656 original size:25 final size:26
Alignment explanation
Indices: 41085609--41085668 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
41085599 TTTAATTAAA
* *
41085609 TAAAAATTATTAATGATTCAAT-AAAT
1 TAAAAATTA-TAATAATTAAATAAAAT
41085635 TGAAAAATTA-AATAATTAAATAAAAT
1 T-AAAAATTATAATAATTAAATAAAAT
41085661 TAAAAATT
1 TAAAAATT
41085669 GAGGAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 16 0.53
26 6 0.20
27 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (26 bp):
TAAAAATTATAATAATTAAATAAAAT
Found at i:41089711 original size:113 final size:113
Alignment explanation
Indices: 41089513--41089740 Score: 402
Period size: 113 Copynumber: 2.0 Consensus size: 113
41089503 TGCTTACTAG
41089513 TTAATTCTACTAAAACAATCACAGGCAAAGTAAAAGAGTTACCTAAATAAACATATTTCAGATGT
1 TTAATTCTACTAAAACAATCACAGGCAAAGTAAAAGAGTTACCTAAATAAACATATTTCAGATGT
*
41089578 AAAGGTAGTACCTTGAGTTCTAATTTAGGTGGCTCCTCGATTGACGCT
66 AAAGGTAGTACCTTGAGTTCTAATTTAGGTCGCTCCTCGATTGACGCT
* * * *
41089626 TTAATTCTATTGAAACAATCACAGGCAAAGTAGAATAGTTACCTAAATAAACATATTTCAGATGT
1 TTAATTCTACTAAAACAATCACAGGCAAAGTAAAAGAGTTACCTAAATAAACATATTTCAGATGT
*
41089691 GAAGGTAGTACCTTGAGTTCTAATTTAGGTCGCTCCTCGATTGACGCT
66 AAAGGTAGTACCTTGAGTTCTAATTTAGGTCGCTCCTCGATTGACGCT
41089739 TT
1 TT
41089741 TGGTTGGGCA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (113 bp):
TTAATTCTACTAAAACAATCACAGGCAAAGTAAAAGAGTTACCTAAATAAACATATTTCAGATGT
AAAGGTAGTACCTTGAGTTCTAATTTAGGTCGCTCCTCGATTGACGCT
Found at i:41092018 original size:21 final size:21
Alignment explanation
Indices: 41091992--41092034 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
41091982 TCAATAAGGT
*
41091992 AGTATTAAAATTTTGTCAGAA
1 AGTATTAAAATTTCGTCAGAA
41092013 AGTATTAAAATTTCGTCAGAA
1 AGTATTAAAATTTCGTCAGAA
41092034 A
1 A
41092035 ATTTTAACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (21 bp):
AGTATTAAAATTTCGTCAGAA
Found at i:41092041 original size:21 final size:21
Alignment explanation
Indices: 41091994--41092041 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
41091984 AATAAGGTAG
* *
41091994 TATTAAAATTTTGTCAGAAAG
1 TATTAAAATTTCGTCAGAAAA
41092015 TATTAAAATTTCGTCAGAAAA
1 TATTAAAATTTCGTCAGAAAA
*
41092036 TTTTAA
1 TATTAA
41092042 CGCTTGGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (21 bp):
TATTAAAATTTCGTCAGAAAA
Found at i:41093880 original size:48 final size:47
Alignment explanation
Indices: 41093814--41094002 Score: 237
Period size: 48 Copynumber: 4.0 Consensus size: 47
41093804 ACATCAGTGA
* * *
41093814 GATATGTGATTCGGGTAAGACCATAGCTGGGCTATGGCATTGATATAT
1 GATATGTGA-TCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
* *
41093862 GATATGTTATCCGTGTAAGACCATAGTTGGGCTATGGCATCGATATGT
1 GATATGTGAT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
*
41093910 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGA-T-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
41093959 GA-A--T-AT-GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGT
1 GATATGTGATCGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGT
41094001 GA
1 GA
41094003 AGATGTATAA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
41 1 0.01
42 36 0.28
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 50 0.39
49 38 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (47 bp):
GATATGTGATCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
Found at i:41093969 original size:42 final size:42
Alignment explanation
Indices: 41093910--41094034 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 42
41093900 ATCGATATGT
*
41093910 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
41093952 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* * * **
41093994 -ATTATGTGAAGATGTATAAGACCATAGTTGAACTATGGCAT
1 GA-TATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCAT
41094035 TGAGAAAACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 1 0.01
42 75 0.99
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:41094827 original size:13 final size:13
Alignment explanation
Indices: 41094809--41094843 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
41094799 CACACGGGTT
41094809 GAGACACGGCTAG
1 GAGACACGGCTAG
41094822 GAGACACGGCTAG
1 GAGACACGGCTAG
41094835 GAGACACGG
1 GAGACACGG
41094844 GCGTCTGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.40, T:0.06
Consensus pattern (13 bp):
GAGACACGGCTAG
Found at i:41103614 original size:27 final size:27
Alignment explanation
Indices: 41103576--41103757 Score: 253
Period size: 27 Copynumber: 6.7 Consensus size: 27
41103566 TGTACCTAAA
41103576 CCCTTATGTGATAAAATGACGATATTT
1 CCCTTATGTGATAAAATGACGATATTT
*
41103603 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTT
* *
41103630 CCCTTATGTGATAAAATGATGATATTG
1 CCCTTATGTGATAAAATGACGATATTT
*
41103657 CCCTTATGTGATAAGATGACGATATTT
1 CCCTTATGTGATAAAATGACGATATTT
*
41103684 CCCTTATGTGATAAAATGACAATATTAT
1 CCCTTATGTGATAAAATGACGATATT-T
*
41103712 -CCTTATGTGATAAAATAACGAT-TTT
1 CCCTTATGTGATAAAATGACGATATTT
*
41103737 ACCCTTATAG-GGTAAAATGAC
1 -CCCTTAT-GTGATAAAATGAC
41103758 TGAAGTACCC
Statistics
Matches: 140, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
25 1 0.01
26 2 0.01
27 135 0.96
28 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATATTT
Found at i:41103766 original size:27 final size:27
Alignment explanation
Indices: 41103736--41103810 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
41103726 ATAACGATTT
* *
41103736 TACCCTTATAGGGTAAAATGACTG-AA
1 TACCCCTATAAGGTAAAATGACTGTAA
41103762 GTACCCCTATAAGGTAAAATGACTGTAA
1 -TACCCCTATAAGGTAAAATGACTGTAA
*
41103790 TACCCCTGTAAGGTAAAATGA
1 TACCCCTATAAGGTAAAATGA
41103811 ATGATTTGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (27 bp):
TACCCCTATAAGGTAAAATGACTGTAA
Found at i:41107402 original size:27 final size:27
Alignment explanation
Indices: 41107364--41107548 Score: 334
Period size: 27 Copynumber: 6.9 Consensus size: 27
41107354 CGTACCTGAA
41107364 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
41107391 CCCTTATGTGATAAAATGACAATATTG
1 CCCTTATGTGATAAAATGACGATATTG
41107418 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
41107445 CCCTTATGTGATAAAATGACAATATTG
1 CCCTTATGTGATAAAATGACGATATTG
41107472 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
41107499 CCCTTATGTGATAAAATGATGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
41107526 TCCTTATGTGATAAAATGACGAT
1 CCCTTATGTGATAAAATGACGAT
41107549 TTTACCCTCA
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATATTG
Found at i:41107608 original size:26 final size:27
Alignment explanation
Indices: 41107551--41107628 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
41107541 ATGACGATTT
*
41107551 TACCCTCATAAGGTAAAATGA-TAGAAA
1 TACCCCCATAAGGTAAAATGACT-GAAA
* *
41107578 CACCCCCATAAGGT-AAATGACTGTAA
1 TACCCCCATAAGGTAAAATGACTGAAA
* *
41107604 TACCCCTACAAGGTAAAATGACTGA
1 TACCCCCATAAGGTAAAATGACTGA
41107629 TTTGCTCTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (27 bp):
TACCCCCATAAGGTAAAATGACTGAAA
Found at i:41110560 original size:27 final size:27
Alignment explanation
Indices: 41110488--41110689 Score: 167
Period size: 27 Copynumber: 7.5 Consensus size: 27
41110478 AGTGCCCCAC
* * * *
41110488 AAAGGCATCCAT-TCATAAATCGCCAC
1 AAAGGCTTCCATCTCTTAGATCGCCAT
** * * * *
41110514 AAAGGCTTCGTTTTCATAGATAGCCAG
1 AAAGGCTTCCATCTCTTAGATCGCCAT
** *
41110541 AAAGGCTTCCATCTCTTAGATTTCCAC
1 AAAGGCTTCCATCTCTTAGATCGCCAT
*
41110568 AAAGGCTTTCATCTCTTA-AGTCGCCA-
1 AAAGGCTTCCATCTCTTAGA-TCGCCAT
* * *
41110594 ACTAGGCTTTCATCTCTTAGATCACCAT
1 A-AAGGCTTCCATCTCTTAGATCGCCAT
*
41110622 AAAGGCTTCCATATCTTAGATCGCCAT
1 AAAGGCTTCCATCTCTTAGATCGCCAT
* * *
41110649 AAAGGCTTCCATATCTTATATCGCCAA
1 AAAGGCTTCCATCTCTTAGATCGCCAT
*
41110676 AAAAGCTTCCATCT
1 AAAGGCTTCCATCT
41110690 TTTTGGTGTG
Statistics
Matches: 145, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 11 0.08
27 132 0.91
28 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (27 bp):
AAAGGCTTCCATCTCTTAGATCGCCAT
Found at i:41110601 original size:81 final size:81
Alignment explanation
Indices: 41110527--41110675 Score: 194
Period size: 81 Copynumber: 1.8 Consensus size: 81
41110517 GGCTTCGTTT
* ** * *
41110527 TCATAGAT-AGCCAGAAAGGCTTCCATCTCTTAGATTTCCACAAAGGCTTTCATCTCTTA-AGTC
1 TCATAGATCA-CCAGAAAGGCTTCCATATCTTAGATCGCCACAAAGGCTTCCATATCTTATA-TC
41110590 GCCAACTAGGCTTTCATC
64 GCCAACTAGGCTTTCATC
* * *
41110608 TCTTAGATCACCATAAAGGCTTCCATATCTTAGATCGCCATAAAGGCTTCCATATCTTATATCGC
1 TCATAGATCACCAGAAAGGCTTCCATATCTTAGATCGCCACAAAGGCTTCCATATCTTATATCGC
41110673 CAA
66 CAA
41110676 AAAAGCTTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 56 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (81 bp):
TCATAGATCACCAGAAAGGCTTCCATATCTTAGATCGCCACAAAGGCTTCCATATCTTATATCGC
CAACTAGGCTTTCATC
Found at i:41110689 original size:81 final size:81
Alignment explanation
Indices: 41110484--41110689 Score: 193
Period size: 81 Copynumber: 2.6 Consensus size: 81
41110474 TTAGAGTGCC
* * * * * ** * * *
41110484 CCACAAAGGCATCCAT-TCATAAATCGCCACAAAGGCTTCGTTTTCATAGAT-AGCCAGAAAGGC
1 CCACAAAGGCTTCCATATCTTAAGTCGCCAAAAAAGCTTCCATCTCTTAGATCA-CCATAAAGGC
* **
41110547 TTCCATCTCTTAGATTT
65 TTCCATATCTTAGATCG
* * ** * *
41110564 CCACAAAGGCTTTCATCTCTTAAGTCGCCAACTAGGCTTTCATCTCTTAGATCACCATAAAGGCT
1 CCACAAAGGCTTCCATATCTTAAGTCGCCAAAAAAGCTTCCATCTCTTAGATCACCATAAAGGCT
41110629 TCCATATCTTAGATCG
66 TCCATATCTTAGATCG
*
41110645 CCATAAAGGCTTCCATATCTTATA-TCGCCAAAAAAGCTTCCATCT
1 CCACAAAGGCTTCCATATCTTA-AGTCGCCAAAAAAGCTTCCATCT
41110690 TTTTGGTGTG
Statistics
Matches: 100, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
80 14 0.14
81 84 0.84
82 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (81 bp):
CCACAAAGGCTTCCATATCTTAAGTCGCCAAAAAAGCTTCCATCTCTTAGATCACCATAAAGGCT
TCCATATCTTAGATCG
Found at i:41114756 original size:40 final size:40
Alignment explanation
Indices: 41114613--41114742 Score: 190
Period size: 40 Copynumber: 3.3 Consensus size: 40
41114603 TCCTCGTTCA
* * * *
41114613 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
41114652 AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
41114692 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
41114732 AATGCCTTCGG
1 AATGCCTTCGG
41114743 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.41
40 48 0.59
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:41114789 original size:40 final size:40
Alignment explanation
Indices: 41114616--41114793 Score: 130
Period size: 40 Copynumber: 4.5 Consensus size: 40
41114606 TCGTTCAAAT
* * * * *
41114616 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CAC-AAT
1 GCCTTCGGGACTTAGCCCGGATATAATAACT-AGCACGAAA
* * * * * * *
41114655 GCCTTCGGGACATAACCCAGATTTAACAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAATAACTAGCACGAAA
* * * *
41114695 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAATAACTAGCACGAAA
* * *
41114735 GCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATATAATAAC-TAGCACGAAA
41114775 GCCTTCGGGACTTAGCCCG
1 GCCTTCGGGACTTAGCCCG
41114794 AACAGCATTC
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 32 0.27
40 77 0.66
41 8 0.07
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAATAACTAGCACGAAA
Found at i:41122613 original size:40 final size:40
Alignment explanation
Indices: 41122472--41122653 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
41122462 TCCTCGTTCA
* * * **
41122472 AATGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTTGCACG
* * * *
41122510 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTTGCACG
*
41122550 AATGCCTTCGGGACTTAACCCGGATTTAATAACTTGCACG
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTTGCACG
* * * *
41122590 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAATAACTT-GCACG
*
41122630 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41122654 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
38 20 0.16
39 16 0.13
40 81 0.65
41 7 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTTGCACG
Found at i:41124905 original size:21 final size:21
Alignment explanation
Indices: 41124881--41124923 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41124871 ATTTTTCCTA
* *
41124881 GGATTTGAATTGAATTGAATT
1 GGATGTGAATTGAATTAAATT
*
41124902 GGATGTGAATTGTATTAAATT
1 GGATGTGAATTGAATTAAATT
41124923 G
1 G
41124924 AGCTAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.42
Consensus pattern (21 bp):
GGATGTGAATTGAATTAAATT
Found at i:41125459 original size:23 final size:24
Alignment explanation
Indices: 41125433--41125499 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
41125423 ATCCTGATTA
*
41125433 ATGGCTCTCTGAAGCTTCTCG-AT
1 ATGGCTCTCTGAAGCTTCCCGAAT
*
41125456 ATGGCTCACTTGAA-CTTCCCGATAT
1 ATGGCTCTC-TGAAGCTTCCCGA-AT
* *
41125481 ATGGCTATCCGAAGCTTCC
1 ATGGCTCTCTGAAGCTTCC
41125500 TGTTAATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.40
24 7 0.20
25 14 0.40
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
ATGGCTCTCTGAAGCTTCCCGAAT
Found at i:41125633 original size:25 final size:25
Alignment explanation
Indices: 41125562--41125633 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
41125552 TATGGCTCTT
** *
41125562 ATGAGCTTCCAGTTATACAACTCAG
1 ATGAGCTTCCAGTTATACGGCTCAC
* * *
41125587 ATAAGCTTCCCGTTACACGGCTCAC
1 ATGAGCTTCCAGTTATACGGCTCAC
*
41125612 ATGAGCTTCCAGTTATATGGCT
1 ATGAGCTTCCAGTTATACGGCT
41125634 GGAGAGAGGG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (25 bp):
ATGAGCTTCCAGTTATACGGCTCAC
Found at i:41136538 original size:47 final size:49
Alignment explanation
Indices: 41136467--41136633 Score: 164
Period size: 49 Copynumber: 3.4 Consensus size: 49
41136457 AGGGTATAAT
* *
41136467 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AA
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * *
41136514 GTCGATGCCATGTTCCAGACATGGTCTTACAGTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATC-AAATCGAA
** * * *
41136563 GCCGATGCCATGTTCTGGACATGGTCTTACACTAGCTC-TCACATATCTAT
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCA-A-ATCGAA
41136613 GCCGATGCCATG-TCCAAGACA
1 GCCGATGCCATGTTCC-AGACA
41136634 GTCTAAGGTG
Statistics
Matches: 97, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
46 3 0.03
47 33 0.34
48 4 0.04
49 37 0.38
50 20 0.21
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
Found at i:41147024 original size:32 final size:32
Alignment explanation
Indices: 41146983--41147046 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
41146973 TCATAGCCTT
41146983 GTACAAAATGAGTCAAATATTAAAGCAAGCCA
1 GTACAAAATGAGTCAAATATTAAAGCAAGCCA
41147015 GTACAAAATGAGTCAAATATTAAAGCAAGCCA
1 GTACAAAATGAGTCAAATATTAAAGCAAGCCA
41147047 ACACATTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (32 bp):
GTACAAAATGAGTCAAATATTAAAGCAAGCCA
Found at i:41152036 original size:18 final size:18
Alignment explanation
Indices: 41152009--41152043 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41151999 CTACTACCCA
41152009 ATACGCTCGAT-AATCTT
1 ATACGCTCGATGAATCTT
41152026 ATACGGCTCGATGAATCT
1 ATAC-GCTCGATGAATCT
41152044 CAGACTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (18 bp):
ATACGCTCGATGAATCTT
Found at i:41154611 original size:13 final size:13
Alignment explanation
Indices: 41154595--41154627 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
41154585 TTTAATTAAA
*
41154595 TTAGTTAATTAGT
1 TTAGATAATTAGT
41154608 TTAGATAATTAGT
1 TTAGATAATTAGT
41154621 TTA-ATAA
1 TTAGATAA
41154628 ACAAACCTTT
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:41161202 original size:24 final size:24
Alignment explanation
Indices: 41161144--41161226 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
41161134 TTTGGCCCTC
* * *
41161144 TCGAGCTTCCCATT-ATATGGTTCT
1 TCGAGCTTCCCGTTAATA-GCTCCT
41161168 TGCGAGCTTCCCGTTAATAGCTCCT
1 T-CGAGCTTCCCGTTAATAGCTCCT
41161193 TCGAGCTTCCCGTTAATAGCTCCT
1 TCGAGCTTCCCGTTAATAGCTCCT
*
41161217 TTGAGCTTCC
1 TCGAGCTTCC
41161227 AGATCGATCG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
24 33 0.62
25 17 0.32
26 3 0.06
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (24 bp):
TCGAGCTTCCCGTTAATAGCTCCT
Found at i:41161318 original size:26 final size:25
Alignment explanation
Indices: 41161280--41161333 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
41161270 CTTATGAAAG
*
41161280 TCCTATTATATGGCTCTTTGTGAGCT
1 TCCTATTATATGGCTCTCTG-GAGCT
41161306 TCCTAATTA-ATGGCTCTCTGGAGCT
1 TCCT-ATTATATGGCTCTCTGGAGCT
41161331 TCC
1 TCC
41161334 CAATATGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 14 0.54
27 4 0.15
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.41
Consensus pattern (25 bp):
TCCTATTATATGGCTCTCTGGAGCT
Found at i:41161400 original size:24 final size:24
Alignment explanation
Indices: 41161352--41161417 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
41161342 CTTGCTTGGA
* *
41161352 CTTCCCGATATATGGCTATTCAGAG
1 CTTCCCGTTA-ATGGCTCTTCAGAG
*
41161377 CTTCCCGTTAATGGCTCTTTAGAG
1 CTTCCCGTTAATGGCTCTTCAGAG
* * *
41161401 CTACCTGTTATTGGCTC
1 CTTCCCGTTAATGGCTC
41161418 GCATAAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 26 0.74
25 9 0.26
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTCTTCAGAG
Found at i:41173909 original size:18 final size:17
Alignment explanation
Indices: 41173888--41173926 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
41173878 CATTGGACTT
41173888 ATTTAATTTTTAATTTTA
1 ATTTAATTTTTAA-TTTA
41173906 ATTTAATTTTTAATTTA
1 ATTTAATTTTTAATTTA
41173923 ATTT
1 ATTT
41173927 TGGTTGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTAATTTTTAATTTA
Found at i:41173916 original size:12 final size:12
Alignment explanation
Indices: 41173896--41173927 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
41173886 TTATTTAATT
41173896 TTTAA-TTTTAA
1 TTTAATTTTTAA
41173907 TTTAATTTTTAA
1 TTTAATTTTTAA
41173919 TTTAATTTT
1 TTTAATTTT
41173928 GGTTGGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:41175125 original size:40 final size:40
Alignment explanation
Indices: 41175081--41175348 Score: 322
Period size: 40 Copynumber: 6.7 Consensus size: 40
41175071 AATTATTGTA
** * **
41175081 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCTT
1 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
41175121 TGAATGCATATATGTGCCTCTATTTGTACTTTGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
* * * **
41175161 TGAATGCATAGACGT-CCTCCAATTTGTACTTTGGTACCCC
1 TGAATGCACATATGTGCC-CCTGTTTGTACTTTGGTACCCC
41175201 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
41175241 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * * *
41175281 TGAATGCGCATATGTGTCCCTATTTATACTTCGGTATCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
* **
41175321 TGAATGCACATACGTGCCATTGTTTGTA
1 TGAATGCACATATGTGCCCCTGTTTGTA
41175349 ATTTAATACT
Statistics
Matches: 196, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.01
40 192 0.98
41 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:41175280 original size:20 final size:20
Alignment explanation
Indices: 41175183--41175282 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
41175173 CGTCCTCCAA
41175183 TTTGTACTTTGGTACCCCTG
1 TTTGTACTTTGGTACCCCTG
** * * *
41175203 AATGCACATAT-GTGCCCCTG
1 TTTGTAC-TTTGGTACCCCTG
41175223 TTTGTACTTTGGTACCCCTG
1 TTTGTACTTTGGTACCCCTG
** * * *
41175243 AATGCACATAT-GTGCCCCTG
1 TTTGTAC-TTTGGTACCCCTG
41175263 TTTGTACTTTGGTACCCCTG
1 TTTGTACTTTGGTACCCCTG
41175283 AATGCGCATA
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
19 4 0.07
20 48 0.86
21 4 0.07
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (20 bp):
TTTGTACTTTGGTACCCCTG
Found at i:41178390 original size:72 final size:72
Alignment explanation
Indices: 41178263--41178411 Score: 228
Period size: 72 Copynumber: 2.1 Consensus size: 72
41178253 CCATTTCTAA
*
41178263 TTGTA-TTTAGATTAAATGTTATACTATGTCCTTACTAAGCTATGTAAGCTTATGAGTTTTTGTG
1 TTGTAGTTTAGATTAAATGTTATACTATGTCCTTACTAAGCTATGTAAGCTCATGAGTTTTTGTG
41178327 GATTATT
66 GATTATT
* * * * *
41178334 TTGTAGTTTAGATTAAATGTTTTACTATGTCTTTACTAAGCTTTTTAAGCTCATGAGTTTTTTTG
1 TTGTAGTTTAGATTAAATGTTATACTATGTCCTTACTAAGCTATGTAAGCTCATGAGTTTTTGTG
*
41178399 GATTGTT
66 GATTATT
41178406 TTGTAG
1 TTGTAG
41178412 ATAATCGTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 5 0.07
72 65 0.93
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.50
Consensus pattern (72 bp):
TTGTAGTTTAGATTAAATGTTATACTATGTCCTTACTAAGCTATGTAAGCTCATGAGTTTTTGTG
GATTATT
Found at i:41180154 original size:36 final size:36
Alignment explanation
Indices: 41180107--41180175 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
41180097 AGTATGCACG
*
41180107 TAATATAGTGTCAAATGATGAAGAAATATGTATACA
1 TAATATAGTGTCAAATGAAGAAGAAATATGTATACA
* *
41180143 TAATATTGTGTCAAATGAAGAAGAAATGTGTAT
1 TAATATAGTGTCAAATGAAGAAGAAATATGTAT
41180176 TAAAGTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (36 bp):
TAATATAGTGTCAAATGAAGAAGAAATATGTATACA
Found at i:41184862 original size:40 final size:40
Alignment explanation
Indices: 41184815--41184950 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
41184805 TTATTGTATG
* *
41184815 AATGCACATATGTGCCCCTGTTTGTACTTCGGTACCTCT-
1 AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
* * *
41184854 AATCGCACATATGTGCTCCTATTTGTACTTCACTACCCCTA
1 AAT-GCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
* * * * *
41184895 AATGCACATACGTACCCTTGTTTGTACTTCAGTACCCTTG
1 AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
**
41184935 AATGCGTATATGTGCC
1 AATGCACATATGTGCC
41184951 TGTAACACCC
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 3 0.04
40 72 0.92
41 3 0.04
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (40 bp):
AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
Found at i:41190380 original size:50 final size:49
Alignment explanation
Indices: 41190215--41190453 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 49
41190205 ATTGTGAGTA
* * * *
41190215 CACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATA-TGGTAGGT
* * * * * * *
41190265 CGCATGTGTAGTAGTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCA-AT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCATATG--GT-AGGT
*
41190316 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTATATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGGT-AGGT
** * *
41190366 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGGTAGGT
* * * *
41190415 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
41190454 GATAGCTTCG
Statistics
Matches: 156, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
49 41 0.26
50 75 0.48
51 39 0.25
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGGTAGGT
Found at i:41197465 original size:50 final size:50
Alignment explanation
Indices: 41197390--41197615 Score: 217
Period size: 50 Copynumber: 4.5 Consensus size: 50
41197380 TGAGTACACG
* * *
41197390 TGTGTAGTACTAAGTGCAGGCTACTACTTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * ** *
41197440 TGTGTAGTAGTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
41197491 TGTGTAGTACTAAGTGCAGGCTACTGCGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * * *
41197541 TGTGTAGTACTAAGTGCAGGATACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
41197590 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
41197616 TGCGTATCAG
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 32 0.22
50 70 0.49
51 33 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:41203256 original size:40 final size:40
Alignment explanation
Indices: 41203202--41203404 Score: 221
Period size: 40 Copynumber: 5.1 Consensus size: 40
41203192 GGATGATAAT
* * * * *
41203202 CGGGCTACGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTT
1 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATA-TC
*
41203242 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
41203282 CGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATC
1 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATC
* * * *
41203322 CGGGCTAAGCCTCGAAGGTATTTGTGCGAGTTACCATAAC
1 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATC
* * * *
41203362 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CTATATC
41203402 CGG
1 CGG
41203405 TTAAATTCTG
Statistics
Matches: 136, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 133 0.98
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:41203338 original size:80 final size:80
Alignment explanation
Indices: 41203197--41203404 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 80
41203187 TATTCGGATG
* * * * * *
41203197 ATAATCGGGCTACGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCCGAAGGC
*
41203261 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACC
* *
41203277 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCTCGAAGGTA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
41203342 TTTGTGCGAGTTACC
66 TTTGTGCGAGTTACC
*
41203357 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
41203405 TTAAATTCTG
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 113 0.97
81 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACC
Found at i:41211303 original size:40 final size:40
Alignment explanation
Indices: 41211248--41211436 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
41211238 GATGATAACT
* *
41211248 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
41211288 GGGCTAAGCCCCGAAGGCATTTGTGTGAGTTACTATAAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
* *
41211328 GGGCTATGTCCCGAA-GCATTCGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
41211367 GGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAA--CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-C-TAATTCC
* * *
41211407 GGGCTATGTCCCGAAGGCATTCGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
41211437 AGCTATATCC
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 30 0.24
40 88 0.70
41 3 0.02
42 1 0.01
43 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:41211380 original size:79 final size:80
Alignment explanation
Indices: 41211242--41211448 Score: 294
Period size: 79 Copynumber: 2.6 Consensus size: 80
41211232 TATTCGGATG
* * * * *
41211242 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCCGAAGGC
* *
41211306 ATTTGTGTGAGTTACT
65 ATTTGTGCGAGTTACC
*
41211322 ATAATCGGGCTATGTCCCGAA-GCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
41211386 TTTGTGCGAGTTACC
66 TTTGTGCGAGTTACC
*
41211401 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
41211449 TTAAATTCCA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
79 73 0.64
80 41 0.36
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACC
Found at i:41213913 original size:46 final size:46
Alignment explanation
Indices: 41213863--41214038 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
41213853 TGGTTGAGCA
41213863 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41213909 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
41213954 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
41214002 -CCCAAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41214039 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 58 0.53
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41214019 original size:93 final size:93
Alignment explanation
Indices: 41213860--41214031 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
41213850 GGATGGTTGA
* * *
41213860 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
41213925 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41213953 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
*
41214017 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
41214032 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41221842 original size:30 final size:28
Alignment explanation
Indices: 41221806--41221865 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 28
41221796 AAAAGGAAGT
*
41221806 TTTGGCACTAAGTGTGCGATTCAAACTAGC
1 TTTGGCACTAAGTGTACGATT--AACTAGC
41221836 TTTGGCACTAAGTGTACGATTAACTAGC
1 TTTGGCACTAAGTGTACGATTAACTAGC
41221864 TT
1 TT
41221866 CGACTATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 9 0.31
30 20 0.69
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (28 bp):
TTTGGCACTAAGTGTACGATTAACTAGC
Found at i:41228176 original size:228 final size:228
Alignment explanation
Indices: 41227779--41228236 Score: 891
Period size: 228 Copynumber: 2.0 Consensus size: 228
41227769 CTCTTCGCTA
41227779 TTACCGAGCCAACTTATTTAGAGCTAACTTTAGAATTATGATCTACTTTTCATTTACAGGTGATG
1 TTACCGAGCCAACTTATTTAGAGCTAACTTTAGAATTATGATCTACTTTTCATTTACAGGTGATG
41227844 TGACGAACAATGATGACCTAGGCACCATTCACTTTCGATTAGGCGCTCTAGTTCGTGCGATGAGT
66 TGACGAACAATGATGACCTAGGCACCATTCACTTTCGATTAGGCGCTCTAGTTCGTGCGATGAGT
*
41227909 GTCCCAGAGTTTGGATTTGCTCTGGGATTTACACCGATGAGTTTGTGGAGGAGGAGGACATGAAT
131 GTCCCAGAGTTTGGAGTTGCTCTGGGATTTACACCGATGAGTTTGTGGAGGAGGAGGACATGAAT
41227974 GCACTACCATGCAATATCCACATCTCCCCCTCC
196 GCACTACCATGCAATATCCACATCTCCCCCTCC
41228007 TTACCGAGCCATA-TTATTTAGAGCTAACTTTAGAATTATGATCTACTTTTCATTTACAGGTGAT
1 TTACCGAGCCA-ACTTATTTAGAGCTAACTTTAGAATTATGATCTACTTTTCATTTACAGGTGAT
41228071 GTGACGAACAATGATGACCTAGGCACCATTCACTTTCGATTAGGCGCTCTAGTTCGTGCGATGAG
65 GTGACGAACAATGATGACCTAGGCACCATTCACTTTCGATTAGGCGCTCTAGTTCGTGCGATGAG
41228136 TGTCCCAGAGTTTGGAGTTGCTCTGGGATTTACACCGATGAGTTTGTGGAGGAGGAGGACATGAA
130 TGTCCCAGAGTTTGGAGTTGCTCTGGGATTTACACCGATGAGTTTGTGGAGGAGGAGGACATGAA
41228201 TGCACTACCATGCAATATCCACATCTCCCCCTCC
195 TGCACTACCATGCAATATCCACATCTCCCCCTCC
41228235 TT
1 TT
41228237 GTGCTGGAAG
Statistics
Matches: 228, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
228 227 1.00
229 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (228 bp):
TTACCGAGCCAACTTATTTAGAGCTAACTTTAGAATTATGATCTACTTTTCATTTACAGGTGATG
TGACGAACAATGATGACCTAGGCACCATTCACTTTCGATTAGGCGCTCTAGTTCGTGCGATGAGT
GTCCCAGAGTTTGGAGTTGCTCTGGGATTTACACCGATGAGTTTGTGGAGGAGGAGGACATGAAT
GCACTACCATGCAATATCCACATCTCCCCCTCC
Found at i:41229005 original size:16 final size:15
Alignment explanation
Indices: 41228984--41229029 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
41228974 TCCTCCTATT
41228984 TTTTTATTTAGTCTTA
1 TTTTTATTTA-TCTTA
*
41229000 TTTTTATTTTATTTTA
1 TTTTTA-TTTATCTTA
*
41229016 TTTTTATTTTTCTT
1 TTTTTATTTATCTT
41229030 TTGATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 6 0.23
16 16 0.62
17 4 0.15
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTATTTATCTTA
Found at i:41229011 original size:5 final size:5
Alignment explanation
Indices: 41229001--41229068 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
41228991 TTAGTCTTAT
* *
41229001 TTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA
41229052 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
41229069 GCAAGACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
5 26 0.50
6 19 0.37
7 4 0.08
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:41229013 original size:11 final size:11
Alignment explanation
Indices: 41228997--41229068 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
41228987 TTATTTAGTC
41228997 TTATTTTTATT
1 TTATTTTTATT
41229008 TTA-TTTTATTT
1 TTATTTTTA-TT
*
41229019 TTATTTTTCTT
1 TTATTTTTATT
41229030 TTGATTTTTATT
1 TT-ATTTTTATT
**
41229042 TTCATTTCAATT
1 TT-ATTTTTATT
41229054 TTATTATTTTATT
1 TTA-T-TTTTATT
41229067 TT
1 TT
41229069 GCAAGACATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 5 0.10
11 13 0.27
12 24 0.49
13 7 0.14
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:41229038 original size:7 final size:6
Alignment explanation
Indices: 41228997--41229048 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
41228987 TTATTTAGTC
* *
41228997 TTATTT TTA-TT TTA-TT TTATTT TTATTT TTCTTT TGATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
41229043 TCATTT
1 TTATTT
41229049 CAATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:41231882 original size:13 final size:13
Alignment explanation
Indices: 41231866--41231890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41231856 TTAAATCAGT
41231866 TAATTAGTTTAAA
1 TAATTAGTTTAAA
41231879 TAATTAGTTTAA
1 TAATTAGTTTAA
41231891 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:41235883 original size:6 final size:6
Alignment explanation
Indices: 41235855--41235919 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
41235845 AATAAAATTG
* * * *
41235855 AAATGA AAATGA AAATGA AAATAA AAATAA ATAAT-A TAATAA ATAATAAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA AAATAA A-AAT-AA
*
41235905 AAATAA GAATAA AAA
1 AAATAA AAATAA AAA
41235920 GATAGGAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 3 0.06
6 35 0.70
7 9 0.18
8 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:41235895 original size:12 final size:11
Alignment explanation
Indices: 41235873--41235910 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
41235863 ATGAAAATGA
41235873 AAATAA-AAAT
1 AAATAATAAAT
41235883 AAATAATATAAT
1 AAATAATA-AAT
41235895 AAATAATAAA-
1 AAATAATAAAT
41235905 AAATAA
1 AAATAA
41235911 GAATAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 12 0.46
11 3 0.12
12 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:41241461 original size:93 final size:93
Alignment explanation
Indices: 41241349--41241519 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41241339 GCCCCTAAGT
* *
41241349 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41241414 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
41241442 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41241507 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41241520 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41241516 original size:46 final size:46
Alignment explanation
Indices: 41241344--41241516 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
41241334 AACCCGCCCC
* * * *
41241344 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
41241390 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
41241438 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
41241483 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41241517 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:41241973 original size:30 final size:30
Alignment explanation
Indices: 41241939--41241998 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41241929 ATTTAATACG
41241939 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41241969 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41241999 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41249036 original size:93 final size:93
Alignment explanation
Indices: 41248928--41249098 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
41248918 GCCCCTAAGT
*
41248928 GAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41248992 ACGAGTTCGGATGCCTAGTTGCATCTCAC
65 ACGAGTTCGGATGCCTAGTTGCATCTCAC
* ** *
41249021 GAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41249086 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41249099 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTGCATCTCAC
Found at i:41249091 original size:46 final size:46
Alignment explanation
Indices: 41248923--41249091 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
41248913 AACCCGCCCC
* * * *
41248923 TAAGTGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTAGGACATTTGCATCCA
* *
41248969 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTAGGA---C-ATTTGCATCCA
* * *
41249017 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTAGGACATTTGCATCCA
41249062 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
41249092 CGGATGCTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 5 0.05
46 52 0.50
47 28 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTAGGACATTTGCATCCA
Found at i:41249114 original size:46 final size:45
Alignment explanation
Indices: 41248925--41249114 Score: 147
Period size: 46 Copynumber: 4.1 Consensus size: 45
41248915 CCCGCCCCTA
* * * * * *
41248925 AGTGAACTCGAACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCATCCATCT
*
41248971 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTGCATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A--TCCATCT
* * * *
41249018 CA-CGAACTCGGACTCAACTCAACGAGTTTGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CATCCATCT
*
41249064 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCCAT-CT
41249110 AGTGA
1 AGTGA
41249115 CATGTCACTT
Statistics
Matches: 115, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 4 0.03
46 63 0.55
47 31 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCCATCT
Found at i:41249551 original size:30 final size:30
Alignment explanation
Indices: 41249517--41249576 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41249507 ATTTAATACG
41249517 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41249547 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41249577 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41256589 original size:46 final size:46
Alignment explanation
Indices: 41256418--41256589 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
41256408 AACCCGCCCC
* * * * *
41256418 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
41256464 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
41256512 TCA-CGAA-TCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
41256556 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41256590 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 3 0.03
46 81 0.77
47 3 0.03
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:41257042 original size:28 final size:28
Alignment explanation
Indices: 41257002--41257057 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
41256992 ATTTAATACG
41257002 AACTTTGAAAATTACACTTTTGCCCCTA
1 AACTTTGAAAATTACACTTTTGCCCCTA
* *
41257030 AACTTTTATAATTACACTTTTGCCCCTA
1 AACTTTGAAAATTACACTTTTGCCCCTA
41257058 GGCTCGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (28 bp):
AACTTTGAAAATTACACTTTTGCCCCTA
Found at i:41267942 original size:24 final size:24
Alignment explanation
Indices: 41267890--41267939 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
41267880 AAAAGTTTAA
41267890 TTTACAAAATGGTATTTAAACTTT
1 TTTACAAAATGGTATTTAAACTTT
41267914 TTTAC-AAATGGTATTTAAACTTT
1 TTTACAAAATGGTATTTAAACTTT
41267937 TTT
1 TTT
41267940 TACTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
TTTACAAAATGGTATTTAAACTTT
Found at i:41269428 original size:9 final size:9
Alignment explanation
Indices: 41269416--41269475 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
41269406 CTATGCAAAA
*
41269416 CATGCATTT
1 CATGCATTC
*
41269425 CATGCATCC
1 CATGCATTC
*
41269434 CATGCAATC
1 CATGCATTC
*
41269443 CATGCATTT
1 CATGCATTC
**
41269452 CATGCAAAC
1 CATGCATTC
*
41269461 CATGCACTC
1 CATGCATTC
41269470 CATGCA
1 CATGCA
41269476 ATGTGCTGCA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (9 bp):
CATGCATTC
Found at i:41269428 original size:27 final size:27
Alignment explanation
Indices: 41269408--41269466 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
41269398 CATGCGTTCT
41269408 ATGCAAAACATGCATTTCATGCATCCC
1 ATGCAAAACATGCATTTCATGCATCCC
** **
41269435 ATGCAATCCATGCATTTCATGCAAACC
1 ATGCAAAACATGCATTTCATGCATCCC
41269462 ATGCA
1 ATGCA
41269467 CTCCATGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (27 bp):
ATGCAAAACATGCATTTCATGCATCCC
Found at i:41269455 original size:18 final size:18
Alignment explanation
Indices: 41269433--41269477 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
41269423 TTCATGCATC
*
41269433 CCATGCAATCCATGCATT
1 CCATGCAATCCATGCACT
* *
41269451 TCATGCAAACCATGCACT
1 CCATGCAATCCATGCACT
41269469 CCATGCAAT
1 CCATGCAAT
41269478 GTGCTGCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.24
Consensus pattern (18 bp):
CCATGCAATCCATGCACT
Found at i:41269471 original size:27 final size:27
Alignment explanation
Indices: 41269416--41269475 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
41269406 CTATGCAAAA
**
41269416 CATGCATTTCATGCATCCCATGCAATC
1 CATGCATTTCATGCAAACCATGCAATC
*
41269443 CATGCATTTCATGCAAACCATGCACTC
1 CATGCATTTCATGCAAACCATGCAATC
41269470 CATGCA
1 CATGCA
41269476 ATGTGCTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (27 bp):
CATGCATTTCATGCAAACCATGCAATC
Found at i:41272697 original size:27 final size:27
Alignment explanation
Indices: 41272666--41272843 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
41272656 TAAATTGTAC
41272666 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41272693 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
41272719 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41272747 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41272775 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41272802 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
41272829 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41272844 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41272780 original size:82 final size:81
Alignment explanation
Indices: 41272667--41272817 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
41272657 AAATTGTACA
* *
41272667 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41272731 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
41272748 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
41272813 TGCGA
65 TGCGA
41272818 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:41280755 original size:27 final size:27
Alignment explanation
Indices: 41280724--41280901 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
41280714 TAAATTGTAC
41280724 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41280751 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
41280777 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41280805 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41280833 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41280860 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
41280887 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41280902 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41280838 original size:82 final size:81
Alignment explanation
Indices: 41280725--41280875 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
41280715 AAATTGTACA
* *
41280725 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41280789 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
41280806 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
41280871 TGCGA
65 TGCGA
41280876 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:41284372 original size:21 final size:21
Alignment explanation
Indices: 41284342--41284383 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
41284332 CCCATTGTAG
* *
41284342 ACCTTTTGTCATCAAGAGAGC
1 ACCTTCTGTCATCAAAAGAGC
41284363 ACCTTCTGTCATCAAAAGAGC
1 ACCTTCTGTCATCAAAAGAGC
41284384 TAGCCCAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (21 bp):
ACCTTCTGTCATCAAAAGAGC
Found at i:41287046 original size:148 final size:148
Alignment explanation
Indices: 41286784--41287056 Score: 365
Period size: 148 Copynumber: 1.8 Consensus size: 148
41286774 CGTTTTAGTC
*
41286784 AAATCAGAATAGTGGTTTTGAAACCACAAATCCGAGGTCAAAAAATTATTTGAATATTATTTTAA
1 AAATCAGAATAGTGGCTTTGAAACCACAAATCCGAGGTCAAAAAATTATTTGAATATTATTTTAA
* * *
41286849 GTGTTTACAGCATGATAACATGTATGTGTGAAAATTTCATGAAGTAATTTTATCATTTGAATTAT
66 GTGTTTACAGCATGATAACATATATGTGTGAAAATTTCATGAAGAAATTTTAACATTTGAATTAT
41286914 AACAGCCCAGTTTTACCT
131 AACAGCCCAGTTTTACCT
* * * *
41286932 AAATCAGAATAGTGGCTTTGGAACCACAAATCTGAGGTCAGAAAATTATTTTAATATTAGTTTT-
1 AAATCAGAATAGTGGCTTTGAAACCACAAATCCGAGGTCAAAAAATTATTTGAATATTA-TTTTA
* * * * *
41286996 GGTGTTTATAGCATG-TGA-ATATATGTATGTGAAAATTTCGTG-GGCAAATTTTAACATTTGA
65 AGTGTTTACAGCATGATAACATATATG--TGTGAAAATTTCATGAAG-AAATTTTAACATTTGA
41287057 GTGCTTAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
146 6 0.06
147 3 0.03
148 95 0.88
149 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (148 bp):
AAATCAGAATAGTGGCTTTGAAACCACAAATCCGAGGTCAAAAAATTATTTGAATATTATTTTAA
GTGTTTACAGCATGATAACATATATGTGTGAAAATTTCATGAAGAAATTTTAACATTTGAATTAT
AACAGCCCAGTTTTACCT
Found at i:41288115 original size:40 final size:40
Alignment explanation
Indices: 41288056--41288133 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
41288046 ACTATGTTTG
* *
41288056 GCACTTAATGTGCGTATCGAGATAGATTAAGCTATATAAA
1 GCACTTAATGTGCGAATCGAAATAGATTAAGCTATATAAA
* **
41288096 GCACTTAGTGTGCGAATCGAAATAGATTTGGCTATATA
1 GCACTTAATGTGCGAATCGAAATAGATTAAGCTATATA
41288134 TATGGCTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (40 bp):
GCACTTAATGTGCGAATCGAAATAGATTAAGCTATATAAA
Found at i:41288150 original size:42 final size:41
Alignment explanation
Indices: 41288054--41288152 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
41288044 CGACTATGTT
* *
41288054 TGGCACTTAATGTGCGTATCGAGATAGATTAAGCTATATAA
1 TGGCACTTAATGTGCGAATCGAAATAGATTAAGCTATATAA
* * **
41288095 -AGCACTTAGTGTGCGAATCGAAATAGATTTGGCTATATATA
1 TGGCACTTAATGTGCGAATCGAAATAGATTAAGCTATATA-A
* *
41288136 TGGCTCTTACTGTGCGA
1 TGGCACTTAATGTGCGA
41288153 GAGTGAGATA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 33 0.70
41 1 0.02
42 13 0.28
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (41 bp):
TGGCACTTAATGTGCGAATCGAAATAGATTAAGCTATATAA
Found at i:41292646 original size:30 final size:30
Alignment explanation
Indices: 41292589--41292646 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
41292579 TTTTCGAGCA
**
41292589 TAGGGGAAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGAAAAATGGTCATTTTACCAAAGTC
*
41292619 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGAAAAATGGTCATTTTACCAAAG
41292647 ATGTGAATTT
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:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAATGGTCATTTTACCAAAGTC
Found at i:41293151 original size:94 final size:90
Alignment explanation
Indices: 41292989--41293345 Score: 248
Period size: 94 Copynumber: 3.9 Consensus size: 90
41292979 TTTGTGCGCC
* ** * * * *
41292989 AGTGTAAGACATGTCTGGGACATGCTTTGGCCT---ATGAGAGCCACTGTAAGACCATGTTTGGG
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTACAATGATAGCTAGTGTAAGACCATGTCTGGG
* *
41293051 GCATGGCATCGGCATCCAGACGAAG-GCT
65 ACATGGCATCGGCAT-AAGA-G-AGTGCT
41293079 AGTGTAAGACATGTCTAGGACATGCATCAGCCATACAATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCT-GGACATGCATCAGCC-TACAATGATAGCTAGTGTAAGACCATGTCTGG
* * *
41293144 GACATGGCATTGGTATAGAGATGAGTGCC
64 GACATGGCATCGGCATA-AGA-GAGTGCT
* * * * *
41293173 AGTGTAAGACATTTATGGGACATGCATCGGCCT-CGATAGAGATAGCTAGTGTAAGA-CGTGTCT
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTAC-A-A-TGATAGCTAGTGTAAGACCATGTCT
* * *
41293236 AGGACA-CGCATCGGC-TAAGAGTTGTGCT
62 GGGACATGGCATCGGCATAAGAG-AGTGCT
* * * *
41293264 AATGTAAGACATGTCTGGCACATGCATCAGCACGCGTA-TATGAGAG-TCAGTGTAAGACCGTGT
1 AGTGTAAGACATGTCTGG-ACATGCATCAG--C-C-TACAATGATAGCT-AGTGTAAGACCATGT
*
41293327 CTGAGACATGGCATCGGCA
60 CTGGGACATGGCATCGGCA
41293346 ATATGTCCCA
Statistics
Matches: 211, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
90 31 0.15
91 32 0.15
92 16 0.08
93 23 0.11
94 92 0.44
95 17 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGACATGCATCAGCCTACAATGATAGCTAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCATAAGAGAGTGCT
Found at i:41293224 original size:47 final size:46
Alignment explanation
Indices: 41292989--41293291 Score: 193
Period size: 47 Copynumber: 6.6 Consensus size: 46
41292979 TTTGTGCGCC
* * *
41292989 AGTGTAAGACATGTCTGGGACATGCTTTGGCCT-AT-GAG--AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATAGAGATAGCT
* * * * *
41293031 ACTGTAAGACCATGTTTGGGGCATGGCATCGGCATC-CAGACGA-AGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCATAGA-GATA-GCT
* * *
41293079 AGTGTAAGACATGTCTAGGACATGCATCAGCCATACA-A-TGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-T-CATAGAGATAGCT
* *
41293125 AGTGTAAGACCATGTCTGGGACATGGCATTGG--T-ATAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCATAGAGAT-A--GCT
* *
41293173 AGTGTAAGACATTTATGGGACATGCATCGGCCTCGATAGAGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ATAGAGATAGCT
* * * * *
41293220 AGTGTAAGACGTGTCTAGGACACGCATCGG-CT-A-AGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATAGAGAT-AGCT
* *
41293264 AATGTAAGACATGTCTGGCACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
41293292 AGCACGCGTA
Statistics
Matches: 202, Mismatches: 36, Indels: 44
0.72 0.13 0.16
Matches are distributed among these distances:
42 8 0.04
43 18 0.09
44 35 0.17
45 6 0.03
46 31 0.15
47 66 0.33
48 29 0.14
49 1 0.00
50 8 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATAGAGATAGCT
Found at i:41301225 original size:28 final size:28
Alignment explanation
Indices: 41301194--41301288 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
41301184 GAGCCACTAA
*
41301194 GCCCAATCTCTTTCATATGGCCCATTAG
1 GCCCAATCACTTTCATATGGCCCATTAG
* *
41301222 GCCCAATCACATTT-TTGTGGCCCATTAG
1 GCCCAATCAC-TTTCATATGGCCCATTAG
* *
41301250 GCCTAAATCACATTCATATGG-CCATTAG
1 GCC-CAATCACTTTCATATGGCCCATTAG
41301278 GCCCAAATCAC
1 GCCC-AATCAC
41301289 ATTTACAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
28 42 0.76
29 13 0.24
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
GCCCAATCACTTTCATATGGCCCATTAG
Found at i:41301289 original size:28 final size:29
Alignment explanation
Indices: 41301205--41301291 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 29
41301195 CCCAATCTCT
41301205 TTCATATGGCCCATTAGGCCC-AATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
** * *
41301233 TTTTTGTGGCCCATTAGGCCTAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
41301262 TTCATATGG-CCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
41301290 TT
1 TT
41301292 TACAGTCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 37 0.74
29 13 0.26
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCACA
Found at i:41301388 original size:9 final size:9
Alignment explanation
Indices: 41301374--41301399 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
41301364 AGCCTATCGG
41301374 GCCCATTTA
1 GCCCATTTA
41301383 GCCCATTTA
1 GCCCATTTA
41301392 GCCCATTT
1 GCCCATTT
41301400 CGGCCCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.35
Consensus pattern (9 bp):
GCCCATTTA
Found at i:41305017 original size:48 final size:48
Alignment explanation
Indices: 41304965--41305060 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
41304955 TACACAGAGT
41304965 AAACATTTAAGCTTAGTAAGTTCATATAACATA-ATATTTAACTAACTA
1 AAACATTTAAGCTTAGTAAGTTCATATAACATAGA-ATTTAACTAACTA
41305013 AAACATTTAAGCTTAGTAAGTTCATATAACATAGAATTTAACTAACTA
1 AAACATTTAAGCTTAGTAAGTTCATATAACATAGAATTTAACTAACTA
41305061 TTTCTTCAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (48 bp):
AAACATTTAAGCTTAGTAAGTTCATATAACATAGAATTTAACTAACTA
Found at i:41305459 original size:25 final size:25
Alignment explanation
Indices: 41305430--41305489 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
41305420 AACGAGCCAT
*
41305430 GAATCGGTATGCTC-TCACGAGCTGTA
1 GAATCGGTAAGCTCAT-ACGAGCTG-A
*
41305456 -AATCGATAAGCTCATACGAGCTGA
1 GAATCGGTAAGCTCATACGAGCTGA
41305480 GAATCGGTAA
1 GAATCGGTAA
41305490 TCCCTAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GAATCGGTAAGCTCATACGAGCTGA
Found at i:41309792 original size:37 final size:37
Alignment explanation
Indices: 41309750--41309822 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
41309740 CACTTAAGAA
**
41309750 TAACAAGCATCGATCTGAGGGCTTGAAACTCAGATAG
1 TAACAAGCATCGATCCAAGGGCTTGAAACTCAGATAG
41309787 TAACAAGCATCGATCCAAGGGCTTGAAACTCAGATA
1 TAACAAGCATCGATCCAAGGGCTTGAAACTCAGATA
41309823 AGACAGCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (37 bp):
TAACAAGCATCGATCCAAGGGCTTGAAACTCAGATAG
Found at i:41313573 original size:14 final size:13
Alignment explanation
Indices: 41313545--41313586 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
41313535 ATGTTTAAAG
*
41313545 ACTTTTATTTATT
1 ACTTTTATTTTTT
41313558 ACTTTTATGTTTTT
1 ACTTTTAT-TTTTT
41313572 ACTTTTATCTTTTT
1 ACTTTTAT-TTTTT
41313586 A
1 A
41313587 AAACTACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (13 bp):
ACTTTTATTTTTT
Found at i:41321698 original size:37 final size:37
Alignment explanation
Indices: 41321648--41321726 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
41321638 TTATTACGAA
* * *
41321648 GTCTTACCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
41321685 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
41321722 GTCTT
1 GTCTT
41321727 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:41321923 original size:47 final size:47
Alignment explanation
Indices: 41321845--41322333 Score: 825
Period size: 47 Copynumber: 10.4 Consensus size: 47
41321835 CCCTTCGGGA
* * * * * * * *
41321845 CTTATCATATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41321892 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41321939 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41321986 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41322033 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41322080 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41322127 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41322174 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41322221 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41322268 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41322315 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41322334 GTCTTGGCTG
Statistics
Matches: 418, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 418 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41325940 original size:40 final size:40
Alignment explanation
Indices: 41325883--41326065 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
41325873 CCAGCATGAT
* *
41325883 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
41325923 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
41325963 TGCTCTTCGGGACTTAGCCCAGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
41326004 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
41326044 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
41326066 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:41326408 original size:29 final size:29
Alignment explanation
Indices: 41326369--41326447 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
41326359 CTTAATAATC
*
41326369 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
41326399 AACTCGCACACTTAGTGTCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
41326428 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41326448 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:41326493 original size:43 final size:43
Alignment explanation
Indices: 41326429--41326531 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
41326419 TGCATTTCAA
41326429 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
41326472 GCCCACACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
41326515 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
41326532 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:41328439 original size:36 final size:37
Alignment explanation
Indices: 41328392--41328469 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 37
41328382 TTATTACGAA
* *
41328392 GTCTTACCCGGACACAA-TCTCCACACG-AATTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGTAATCATCGG
*
41328428 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
41328465 GTCTT
1 GTCTT
41328470 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 23 0.62
37 14 0.38
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
Found at i:41328665 original size:47 final size:47
Alignment explanation
Indices: 41328587--41329167 Score: 982
Period size: 47 Copynumber: 12.4 Consensus size: 47
41328577 CCCTTCGGGA
* * * * * * *
41328587 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41328634 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41328681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41328728 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41328775 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41328822 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41328869 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41328916 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41328963 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41329010 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41329057 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41329104 CTTATCACACATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41329151 CTTATCACATATATACA
1 CTTATCACATATATACA
41329168 ATGTCTTGGC
Statistics
Matches: 510, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 510 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41338055 original size:11 final size:11
Alignment explanation
Indices: 41338039--41338067 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
41338029 TTATGAAATG
41338039 ATTTCGTGAAA
1 ATTTCGTGAAA
41338050 ATTTCGTGAAA
1 ATTTCGTGAAA
41338061 ATTTCGT
1 ATTTCGT
41338068 TTAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:41341064 original size:46 final size:44
Alignment explanation
Indices: 41340924--41341134 Score: 169
Period size: 46 Copynumber: 4.6 Consensus size: 44
41340914 TGAGCTAGTA
** * *
41340924 TAAGACATGTCTGGGACATGCATCGGACATATTATGA-GAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGG-C-TACGA-GATGTGTCAGTG
* * * *
41340970 TAAGGCCATGTCTGGAACATGGCATCGGC-ATTGAGATGAGTGCTAGTG
1 TAA-GACATGTCTGGGACAT-GCATCGGCTA-CGAGATGTGT-C-AGTG
*
41341018 TAAGACATGTCTGGGTCATGCATCGGCCT-CGAGACT-TAAGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGG-CTACGAGA-TGT--GTCAGTG
* *
41341064 TAAGACATGTCTGGGACATGTATCGGCTATGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTG
41341108 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGA-CATGTCTGGGACAT-GCATCG
41341135 ACACATATAT
Statistics
Matches: 137, Mismatches: 13, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
44 12 0.09
45 20 0.15
46 57 0.42
47 32 0.23
48 16 0.12
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTG
Found at i:41349517 original size:27 final size:27
Alignment explanation
Indices: 41349487--41349590 Score: 115
Period size: 27 Copynumber: 3.8 Consensus size: 27
41349477 GGCTGCCAAA
* * *
41349487 ACAGATAATGCGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
41349514 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
41349541 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
41349569 -CACATAATTGTGGC-GTAGCCAC
1 ACAGATAA-TGTGGCAG-AGCCAC
41349591 TAGGACACTT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.03
27 50 0.74
28 16 0.24
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:41349576 original size:54 final size:54
Alignment explanation
Indices: 41349486--41349590 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
41349476 TGGCTGCCAA
* *
41349486 AACAGATAATGCGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCACCAG
1 AACAGATAATGCGACAGAGCCACCAGATACACATAATCGTGGC-GTAGCCACCAG
* * *
41349540 AACAGATATATGTGGCAGAGCCACCAGAT-CACATAATTGTGGCGTAGCCAC
1 AACAGATA-ATGCGACAGAGCCACCAGATACACATAATCGTGGCGTAGCCAC
41349591 TAGGACACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 1 0.02
54 26 0.59
55 17 0.39
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (54 bp):
AACAGATAATGCGACAGAGCCACCAGATACACATAATCGTGGCGTAGCCACCAG
Found at i:41368567 original size:13 final size:13
Alignment explanation
Indices: 41368549--41368579 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
41368539 TCATGTCCTT
*
41368549 CACACGGTTGAGA
1 CACACGGTCGAGA
41368562 CACACGGTCGAGA
1 CACACGGTCGAGA
41368575 CACAC
1 CACAC
41368580 TGCCGTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.10
Consensus pattern (13 bp):
CACACGGTCGAGA
Found at i:41370183 original size:42 final size:42
Alignment explanation
Indices: 41370060--41370183 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 42
41370050 AGTACTGTAC
* *
41370060 CAATGCCATATCCCAGACATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAT
* * *
41370102 CAATGCCAATAGCCTAGCTATGGTCTTACATG-AAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATAT
* *
41370145 CGATGCCATATCCCAGATATGGTTTTACATGTAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
41370184 GTAACCCCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAT
Found at i:41382674 original size:42 final size:43
Alignment explanation
Indices: 41382575--41382695 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
41382565 GCTCGTATAG
* * * * *
41382575 TGCCAATGTCCCAGACATGGTCATACATGTAATCAAATATTGA
1 TGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATTGA
* *
41382618 TGCC-ACTGTCCCAGACAGGGTTTTACACGAAATCAAGTA-TGA
1 TGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAAATATTGA
41382660 TGCCAACGTCCCAGAC-GTGGTCTTACACGTAAATCA
1 TGCCAACGTCCCAGACAG-GGTCTTACACG-AAATCA
41382696 TAAGTCGATG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 27 0.41
43 38 0.58
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
TGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATTGA
Found at i:41390834 original size:49 final size:49
Alignment explanation
Indices: 41390598--41390826 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
41390588 TCTATTGTGA
* * * * *
41390598 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTAT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* * *
41390649 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC--A-AATG
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
41390695 GTGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACTGGATAATT
1 G-GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
41390745 GGTCACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
41390794 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
41390827 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 37 0.24
48 2 0.01
49 77 0.49
50 4 0.03
51 36 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:41393865 original size:15 final size:15
Alignment explanation
Indices: 41393845--41393909 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
41393835 ATATCTTGGG
41393845 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
41393860 TTTCTTTAATCTGGG
1 TTTCTTTATTCTGGA
41393875 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
* *
41393890 TTTCTTTTTTC-GGT
1 TTTCTTTATTCTGGA
41393904 TTTCTT
1 TTTCTT
41393910 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 12 0.29
15 25 0.61
16 4 0.10
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:41395205 original size:42 final size:42
Alignment explanation
Indices: 41395108--41395249 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 42
41395098 AACGTATCTA
* * * *
41395108 ACGTGGTCTTACATGTAATCAAATATCGAAGCCACTGTCCCAG
1 ACGTGGTCTTACATGAAATCAAGTA-CGATGCCAATGTCCCAG
** *
41395151 ATAAT-GTATTACATGAAATCAAGTACGATGCCAATGTCCCAG
1 A-CGTGGTCTTACATGAAATCAAGTACGATGCCAATGTCCCAG
* *
41395193 ACGTGGTCTTACATGTAAATCATAAGT-CGATGCCAACGTCCCAC
1 ACGTGGTCTTACATG-AAATC--AAGTACGATGCCAATGTCCCAG
41395237 ACGTGGTCTTACA
1 ACGTGGTCTTACA
41395250 CGATAACACA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 23 0.28
44 29 0.35
45 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
ACGTGGTCTTACATGAAATCAAGTACGATGCCAATGTCCCAG
Found at i:41397867 original size:26 final size:26
Alignment explanation
Indices: 41397797--41397868 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
41397787 CAACTCACCA
* * *
41397797 CAGCTCGTCAGAGCTTACCGATATAT
1 CAGCTCGTAAGAGCTTACTGACATAT
41397823 CAGCTCGTAAGAGCTTACTGACATAT
1 CAGCTCGTAAGAGCTTACTGACATAT
41397849 CAGCTCGTAAGAGCTTACTG
1 CAGCTCGTAAGAGCTTACTG
41397869 TTTTAAGCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
CAGCTCGTAAGAGCTTACTGACATAT
Found at i:41403592 original size:31 final size:30
Alignment explanation
Indices: 41403557--41403654 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 30
41403547 TTATGGAAAA
41403557 AAGATAACAAAAAAACC-GAATAAAGAAATCC
1 AAGAT-AC-AAAAAACCGGAATAAAGAAATCC
* *
41403588 AAGATACAGAAACCCGGAATAAAGAAATCC
1 AAGATACAAAAAACCGGAATAAAGAAATCC
* *
41403618 -AGAATA-AAAAGATCCAGG-ATAAAGAAACCC
1 AAG-ATACAAAA-AACC-GGAATAAAGAAATCC
41403648 AAGATAC
1 AAGATAC
41403655 GATACTATGC
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
29 11 0.20
30 36 0.64
31 9 0.16
ACGTcount: A:0.58, C:0.17, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGATACAAAAAACCGGAATAAAGAAATCC
Found at i:41403653 original size:15 final size:15
Alignment explanation
Indices: 41403576--41403653 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
41403566 AAAAAACCGA
41403576 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
41403591 ATACAGAAA-CCCGG
1 ATAAAGAAATCCAAG
41403605 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
41403620 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
41403636 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
41403651 ATA
1 ATA
41403654 CGATACTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
14 5 0.10
15 40 0.80
16 5 0.10
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:41422059 original size:39 final size:39
Alignment explanation
Indices: 41421929--41422078 Score: 203
Period size: 40 Copynumber: 3.8 Consensus size: 39
41421919 GGATATAACT
* *
41421929 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTA
*
41421969 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTA
*
41422009 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
* **
41422048 ACTAGTGCAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
41422079 ATTTTCATCC
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
39 33 0.33
40 65 0.65
42 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
Found at i:41428389 original size:34 final size:34
Alignment explanation
Indices: 41428346--41428413 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
41428336 TATGACTAAA
41428346 TGAATAATTGCATATATGCATGTTCTCAAAAATC
1 TGAATAATTGCATATATGCATGTTCTCAAAAATC
41428380 TGAATAATTGCATATATGCATGTTCTCAAAAATC
1 TGAATAATTGCATATATGCATGTTCTCAAAAATC
41428414 ATACTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (34 bp):
TGAATAATTGCATATATGCATGTTCTCAAAAATC
Found at i:41428696 original size:40 final size:40
Alignment explanation
Indices: 41428620--41428843 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
41428610 CAAACTCAAG
* * * * *
41428620 TGCCTTCGGGATTTAG-CTGGATAT-AGCAACTCGCACAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* *
41428659 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
41428699 AGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
41428739 TGCCTTCGGGACTTAGCCTGGATATAATCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * *
41428779 TGCCTTTGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
41428819 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
41428844 CATTCGAATA
Statistics
Matches: 162, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.09
40 145 0.90
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:41432975 original size:47 final size:47
Alignment explanation
Indices: 41432858--41433152 Score: 410
Period size: 47 Copynumber: 6.2 Consensus size: 47
41432848 AATTCTAAAT
41432858 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
41432907 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
41432954 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
41433003 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
41433050 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
41433097 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41433144 TGTGATAAG
1 TGTGATAAG
41433153 TCCCGAAGGG
Statistics
Matches: 220, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
47 137 0.62
49 83 0.38
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:41433005 original size:96 final size:96
Alignment explanation
Indices: 41432861--41433137 Score: 441
Period size: 96 Copynumber: 2.9 Consensus size: 96
41432851 TCTAAATTGT
41432861 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
41432926 CGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
41432957 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
41433022 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* * * ** *
41433053 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
41433116 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
41433138 CATAAATGTG
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 40 0.24
96 129 0.76
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:41436480 original size:53 final size:53
Alignment explanation
Indices: 41436390--41436495 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
41436380 CAAGTTGAGT
* * *
41436390 CCTCGTTTCATAGGACCTTATGAGGTTACCGAGAGAGTAGGGCCTGTGGCCTA
1 CCTCATTTCATAGGACCTTATGAGGTTACCAAAAGAGTAGGGCCTGTGGCCTA
* *
41436443 CCTCATTTCATAGGACTTTATGAGGTTACCAAAAGAGTAGGGTCTGTGGCCTA
1 CCTCATTTCATAGGACCTTATGAGGTTACCAAAAGAGTAGGGCCTGTGGCCTA
41436496 TCGTTTGGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (53 bp):
CCTCATTTCATAGGACCTTATGAGGTTACCAAAAGAGTAGGGCCTGTGGCCTA
Found at i:41437323 original size:13 final size:13
Alignment explanation
Indices: 41437305--41437329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41437295 GTAAGTGATT
41437305 TTGATGATTTTTC
1 TTGATGATTTTTC
41437318 TTGATGATTTTT
1 TTGATGATTTTT
41437330 GTACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:41438047 original size:48 final size:48
Alignment explanation
Indices: 41437991--41438321 Score: 200
Period size: 48 Copynumber: 6.9 Consensus size: 48
41437981 GCCACATTAT
*
41437991 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * *
41438039 GAGAGCTAGTTTAAGA-CATGTCTCGGATAT-GCATCGGCCTCATGA-A-
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--TGAGAC
*
41438085 GTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGA-
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGAC
* * * * *** *
41438134 G-GTG-TCAGTGTAAGACCATATCTCGGACATGGCATCGACACAAATATGC
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--C
* * * * *
41438183 AAGAGCAAGTGTAAGACCATGTCAGGGACATGGCATCGGCCTCGATGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAC
* * * * * * *
41438232 GATAG-TCAGCGTAATACCATGTTTGGGATATGGCATCGAC-TTCAGAC
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * *
41438279 -ATGAACCAATGTAAGACCATGTCTGGGACATGACATCGGCATT
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
41438322 ATACCCTATG
Statistics
Matches: 212, Mismatches: 50, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
46 24 0.11
47 56 0.26
48 63 0.30
49 35 0.17
50 33 0.16
51 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
Found at i:41438108 original size:94 final size:94
Alignment explanation
Indices: 41437947--41438125 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 94
41437937 GGGTTATTGT
* * * * *
41437947 GAGCTAGTGTAAGACATGCCTGGGACATGCATCTGCCACATTATGAGAGCTAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGCCTCGGACATGCATCGGCCACATGAAGAGAGCCAGTGTAAGACCATG
41438012 TCTAGGACATGGCATCGGCATTGAGACGA
66 TCTAGGACATGGCATCGGCATTGAGACGA
* * * *
41438041 GAGCTAGTTTAAGACATGTCTCGGATATGCATCGGCCTCATGAAGTA-AGCCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGCCTCGGACATGCATCGGCCACATGAAG-AGAGCCAGTGTAAGACCAT
*
41438105 GTCTGGGACATGGCATCGGCA
65 GTCTAGGACATGGCATCGGCA
41438126 CGTATAGAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 73 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGCCTCGGACATGCATCGGCCACATGAAGAGAGCCAGTGTAAGACCATG
TCTAGGACATGGCATCGGCATTGAGACGA
Found at i:41438148 original size:94 final size:96
Alignment explanation
Indices: 41437998--41438319 Score: 274
Period size: 94 Copynumber: 3.4 Consensus size: 96
41437988 TATGAGAGCT
* * *
41437998 AGTGTAAGACCATGTCTAGGACATGGCATCGGCA--T-TGAGACGAGAG-CTAGTTTAAGA-CAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGACG-GTGTC-AGTGTAAGACCAT
* *
41438058 GTCTCGGATAT-GCATCGGCCTCATGAAGTAAGCC
63 GTCTCGGACATGGCATCGACCTCATGAAG-AAGCC
*
41438092 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGA-GGTGTCAGTGTAAGACCATATC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGACGGTGTCAGTGTAAGACCATGTC
*
41438156 TCGGACATGGCATCGACACAAAT-ATGCAAG-AGCA
66 TCGGACATGGCATCGAC-C---TCATG-AAGAAGCC
* * * * *
41438190 AGTGTAAGACCATGTCAGGGACATGGCATCGGCCTCG-AT-GACGATAGTCAGCGTAATACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGTATAGACGGT-GTCAGTGTAAGACCATG
* * * *
41438253 TTTGGGATATGGCATCGACTTCA-GACATGAA-CC
64 TCTCGGACATGGCATCGACCTCATGA-A-GAAGCC
* *
41438286 AATGTAAGACCATGTCTGGGACATGACATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
41438320 TTATACCCTA
Statistics
Matches: 188, Mismatches: 22, Indels: 35
0.77 0.09 0.14
Matches are distributed among these distances:
94 44 0.23
95 18 0.10
96 43 0.23
97 5 0.03
98 38 0.20
99 36 0.19
100 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGACGGTGTCAGTGTAAGACCATGTC
TCGGACATGGCATCGACCTCATGAAGAAGCC
Found at i:41439458 original size:22 final size:21
Alignment explanation
Indices: 41439433--41439473 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
41439423 TTAATATGGT
*
41439433 CACATGGGCATGTTGCCCTTCC
1 CACACGGGCATG-TGCCCTTCC
*
41439455 CACACGGGCGTGTGCCCTT
1 CACACGGGCATGTGCCCTT
41439474 ATCTAACGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.37, G:0.27, T:0.24
Consensus pattern (21 bp):
CACACGGGCATGTGCCCTTCC
Found at i:41449245 original size:16 final size:16
Alignment explanation
Indices: 41449226--41449256 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41449216 CTTCTTCACT
41449226 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41449242 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41449257 TTAGATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41449643 original size:55 final size:53
Alignment explanation
Indices: 41449512--41449644 Score: 178
Period size: 53 Copynumber: 2.5 Consensus size: 53
41449502 CTTACCATTT
*
41449512 CCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATGAACTCACCAATG
* * * * *
41449565 TCATGCCTTGGCATGGTCTTACATGGGA-CCATTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGAGCC-TTGCCTTAT-G-AACTCACCAATG
41449620 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
41449645 ATTTCCTTGC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.03
53 33 0.49
54 1 0.01
55 32 0.47
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATGAACTCACCAATG
Found at i:41449707 original size:55 final size:54
Alignment explanation
Indices: 41449453--41449707 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
41449443 ACACGGGTAC
* * * *
41449453 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
41449502 CTTACC-ATTTCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
41449555 CTCACCAATGT-CATGCCTTGGCATGGTCTTACATGGGA-CCATTGCCTTATAGTAA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * *
41449610 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
41449663 CCTTACCAATTTCCATACCTT-AGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTTCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
41449708 AAACCCTATG
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 41 0.25
54 15 0.09
55 64 0.39
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:41454212 original size:28 final size:29
Alignment explanation
Indices: 41454170--41454284 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
41454160 TACCTGTATT
*
41454170 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
41454198 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
41454227 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
41454256 TGGCCCGTTAAGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
41454284 T
1 T
41454285 TGATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 27 0.36
29 48 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:41454224 original size:57 final size:58
Alignment explanation
Indices: 41454161--41454271 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
41454151 AAATTTACAT
* * *
41454161 ACCTGTATTTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAAGCCCAAATC
* * *
41454218 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAAGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAAGCCCA
41454272 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAAGCCCAAATC
Done.