Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 90 of 284
Found at i:29779526 original size:58 final size:59
Alignment explanation
Indices: 29779428--29779546 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
29779418 ACGATGAGGG
29779428 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCAGTAGA
1 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCAGTAGA
*
29779487 AAAACATCTCAAAATTGGGAAAACAAC-AAACATAAAGAAACCCAAAAACTTCGGTAGA
1 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCAGTAGA
29779545 AA
1 AA
29779547 CTGAATGGAG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 32 0.54
59 27 0.46
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.13
Consensus pattern (59 bp):
AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCAGTAGA
Found at i:29784163 original size:28 final size:28
Alignment explanation
Indices: 29784107--29784178 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
29784097 GTCGGGGTAG
29784107 AGGGAGAAAAGGGAAGGAAAAGGAAAGAA
1 AGGGAGAAAAGGGAAGGAAAA-GAAAGAA
29784136 AGGGA-AAAAGGGGAAGGAAAA-AATAGAAA
1 AGGGAGAAAA-GGGAAGGAAAAGAA-AG-AA
29784165 AGTGGAG-AAAGGGA
1 AG-GGAGAAAAGGGA
29784179 GCTAGGAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
27 2 0.05
28 6 0.16
29 24 0.63
30 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (28 bp):
AGGGAGAAAAGGGAAGGAAAAGAAAGAA
Found at i:29784509 original size:20 final size:19
Alignment explanation
Indices: 29784468--29784519 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
29784458 TCACTTCTCT
**
29784468 CACGCCCGTGTGGTCTCCCA
1 CACGCCCGTGT-GTCTAACA
29784488 CACGCCCGTGTGTCTGAACA
1 CACGCCCGTGTGTCT-AACA
*
29784508 CACGCCTGTGTG
1 CACGCCCGTGTG
29784520 CCTTGCCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.13, C:0.38, G:0.27, T:0.21
Consensus pattern (19 bp):
CACGCCCGTGTGTCTAACA
Found at i:29785636 original size:46 final size:48
Alignment explanation
Indices: 29785569--29785668 Score: 150
Period size: 46 Copynumber: 2.1 Consensus size: 48
29785559 AAATGGCCGA
*
29785569 CCTAGAATTAAAGGTAAGTCACTATC-CTC-ATCCATGAAACCTCAAG
1 CCTAGAATTAAAGGTAAGTCACTATCTCTCAATCCAAGAAACCTCAAG
29785615 CCTAGAATTAAAGGTAAGTCACTATCTCTCAAGAATCCAAGAAACCTCAAG
1 CCTAGAATTAAAGGTAAGTCACTATCTCTC---AATCCAAGAAACCTCAAG
29785666 CCT
1 CCT
29785669 TACTTACAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
46 26 0.54
47 3 0.06
51 19 0.40
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (48 bp):
CCTAGAATTAAAGGTAAGTCACTATCTCTCAATCCAAGAAACCTCAAG
Found at i:29785774 original size:31 final size:33
Alignment explanation
Indices: 29785719--29785780 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
29785709 TCAAATCTCT
*
29785719 TATATCAAAATCTATTGATCCAAATACATTTCA
1 TATATCAAAATCTATTGATCCAAATAAATTTCA
29785752 TATATC-AAATAC-ATT-ATCCAAATAAATTT
1 TATATCAAAAT-CTATTGATCCAAATAAATTT
29785781 TTTTTCCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 13 0.48
32 7 0.26
33 7 0.26
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (33 bp):
TATATCAAAATCTATTGATCCAAATAAATTTCA
Found at i:29786213 original size:15 final size:15
Alignment explanation
Indices: 29786193--29786221 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29786183 TTGTTTGGCT
29786193 CAATTTCCAAATTTC
1 CAATTTCCAAATTTC
29786208 CAATTTCCAAATTT
1 CAATTTCCAAATTT
29786222 TCATGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (15 bp):
CAATTTCCAAATTTC
Found at i:29789618 original size:16 final size:16
Alignment explanation
Indices: 29789587--29789630 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
29789577 TTTAAAAATT
* *
29789587 ATAAAAATATTTAAAA
1 ATAAAAAAATTCAAAA
29789603 ATAAAAAAATTCAAAA
1 ATAAAAAAATTCAAAA
*
29789619 TTCAAAAAAATT
1 AT-AAAAAAATT
29789631 ATAAGAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAAAATTCAAAA
Found at i:29789865 original size:30 final size:30
Alignment explanation
Indices: 29789808--29789865 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29789798 TTTTTTTTTT
* * *
29789808 AAAAAAATATGTGAATAGGCTGATTTTTGA
1 AAAAAAAAACGTGAATAGACTGATTTTTGA
* *
29789838 AAAAAAAAACGTGAATAGATTGTTTTTT
1 AAAAAAAAACGTGAATAGACTGATTTTT
29789866 CAAAGACATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.34
Consensus pattern (30 bp):
AAAAAAAAACGTGAATAGACTGATTTTTGA
Found at i:29790621 original size:29 final size:29
Alignment explanation
Indices: 29790589--29790733 Score: 168
Period size: 29 Copynumber: 5.0 Consensus size: 29
29790579 TGCACCACTG
* *
29790589 TTTTACAGATTTTATAGTTTTGTCACTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* **
29790618 TTTTCCAGATTTTACAGTTTTGCCACTGG
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* * *
29790647 TTTTCCAGATTTTATAATTCTGCCATTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* * *
29790676 TTTT-CAGATATTACTA-TTTTGCTACTAG
1 TTTTCCAGATTTTA-TAGTTTTGCCACTAT
29790704 TTTTCCAGATTTTATAGTTTTGCCACTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
29790733 T
1 T
29790734 CTTAAAAAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
28 22 0.23
29 72 0.77
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (29 bp):
TTTTCCAGATTTTATAGTTTTGCCACTAT
Found at i:29790710 original size:57 final size:58
Alignment explanation
Indices: 29790583--29790733 Score: 200
Period size: 57 Copynumber: 2.6 Consensus size: 58
29790573 TGACCATGCA
* * *
29790583 CCACT-GTTTTACAGATTTTATAGTTTTGTCACTATTTTTCCAGATTTTACAGTTTTG
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTACAGTTTTG
* * * *
29790640 CCACTGGTTTTCCAGATTTTATAATTCTGCCATTATTTTT-CAGATATTACTA-TTTTG
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTAC-AGTTTTG
*
29790697 CTACTAGTTTTCCAGATTTTATAGTTTTGCCACTATT
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATT
29790734 CTTAAAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
57 51 0.63
58 30 0.37
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (58 bp):
CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTACAGTTTTG
Found at i:29791413 original size:135 final size:135
Alignment explanation
Indices: 29791171--29791430 Score: 369
Period size: 135 Copynumber: 1.9 Consensus size: 135
29791161 GCAAAAGCAT
* * *
29791171 ATTCCAACTGCGTCCATTTTACCGTGCAAGCACAACCCTTTGACAGCTTTTATCTGTGAGTATGT
1 ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTTTATCTGCGAGTATGT
* * *
29791236 TGTGCTTCCACGGCAATTGACAGATTTTATCTGCATTATATGTGTGTGTTGTGTATCCACTGAAA
66 TGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACTGAAA
29791301 AATAG
131 AATAG
* * ** * *
29791306 ATTCCAACTGCATCTATTTTATCGTGTGAGCACAACCCTTTAATAGCTTTGT-TTTGCGAGTATG
1 ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTT-TATCTGCGAGTATG
* * *
29791370 TTGTGCTTCCATGGCTATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC
65 TTGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC
29791431 AACAAAAGCA
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
135 108 0.99
136 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (135 bp):
ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTTTATCTGCGAGTATGT
TGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACTGAAA
AATAG
Found at i:29791515 original size:136 final size:135
Alignment explanation
Indices: 29791232--29791520 Score: 314
Period size: 135 Copynumber: 2.1 Consensus size: 135
29791222 ATCTGTGAGT
* * *
29791232 ATGTTGTGCTTCCACGGCAATTGACAGATTTTATCTGCATTATATGTGTGTGTTGTGTATCCACT
1 ATGTTGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACT
* * ** * ***
29791297 GAAAAATAGATTCCAACTGCATCTATTTTATCGTGTGAGCACAACCCTTTAATAGCTTTGTTTTG
66 AAAAAACAGATTCCAACTGCATCTATTTTATCGTACGAGCACAACCCTCTAATAGCTTTGTCCAG
*
29791362 CGAGT
131 CGAGC
* * *
29791367 ATGTTGTGCTTCCATGGCTATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC-
1 ATGTTGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACT
* * * * * * *
29791431 AACAAAAGCAGATTCCAACTTCGT-TCCTTTTATTGTACGAGCAGAATCCTCTGATAGCTTT-TA
66 AA-AAAA-CAGATTCCAACTGCATCT-ATTTTATCGTACGAGCACAACCCTCTAATAGCTTTGT-
*
29791494 CCAGCTAGC
127 CCAGCGAGC
29791503 ATGTTGTGCTTCCACGGC
1 ATGTTGTGCTTCCACGGC
29791521 CAGTGGCAGT
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
134 1 0.01
135 64 0.51
136 61 0.48
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (135 bp):
ATGTTGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACT
AAAAAACAGATTCCAACTGCATCTATTTTATCGTACGAGCACAACCCTCTAATAGCTTTGTCCAG
CGAGC
Found at i:29791528 original size:136 final size:135
Alignment explanation
Indices: 29791232--29791529 Score: 314
Period size: 136 Copynumber: 2.2 Consensus size: 135
29791222 ATCTGTGAGT
* * * *
29791232 ATGTTGTGCTTCCACGGCAATTGACAGATTTTATCTGCATTATATGTGTGTGTTGTGTATCCACT
1 ATGTTGTGCTTCCACGGCAATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACT
* * ** * ***
29791297 GAAAAATAGATTCCAACTGCATCTATTTTATCGTGTGAGCACAACCCTTTAATAGCTTTGTTTTG
66 AAAAAACAGATTCCAACTGCATCTATTTTATCGTACGAGCACAACCCTCTAATAGCTTTGTCCAG
*
29791362 CGAGT
131 CGAGC
* *
29791367 ATGTTGTGCTTCCATGGCTATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC-
1 ATGTTGTGCTTCCACGGCAATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACT
* * * * * * *
29791431 AACAAAAGCAGATTCCAACTTCGT-TCCTTTTATTGTACGAGCAGAATCCTCTGATAGCTTT-TA
66 AA-AAAA-CAGATTCCAACTGCATCT-ATTTTATCGTACGAGCACAACCCTCTAATAGCTTTGT-
*
29791494 CCAGCTAGC
127 CCAGCGAGC
* *
29791503 ATGTTGTGCTTCCACGGCCAGTGGCAG
1 ATGTTGTGCTTCCACGGCAATTGGCAG
29791530 TGAAAACTGC
Statistics
Matches: 133, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
134 1 0.01
135 64 0.48
136 68 0.51
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (135 bp):
ATGTTGTGCTTCCACGGCAATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACT
AAAAAACAGATTCCAACTGCATCTATTTTATCGTACGAGCACAACCCTCTAATAGCTTTGTCCAG
CGAGC
Found at i:29791910 original size:37 final size:37
Alignment explanation
Indices: 29791826--29791911 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
29791816 TTTATCGTAT
* * * **
29791826 TGAATTGATTGATATGCAAGAGTGTTTGTTATTATGT
1 TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
* * *
29791863 TAAATAGATTGATATGCAAAACTGTTTGTCATTGTAC
1 TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
29791900 TGAATTGATTGA
1 TGAATTGATTGA
29791912 CATGTGAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (37 bp):
TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
Found at i:29793025 original size:3 final size:3
Alignment explanation
Indices: 29793017--29793060 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
29793007 TATAACTGAA
29793017 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29793061 AAGAAACCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29804662 original size:15 final size:15
Alignment explanation
Indices: 29804642--29804671 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29804632 TATTCATAAG
29804642 TAAACAATAAATTCA
1 TAAACAATAAATTCA
29804657 TAAACAATAAATTCA
1 TAAACAATAAATTCA
29804672 AGATAATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACAATAAATTCA
Found at i:29810762 original size:17 final size:18
Alignment explanation
Indices: 29810714--29810773 Score: 86
Period size: 19 Copynumber: 3.3 Consensus size: 18
29810704 AATCTTTAAG
*
29810714 GATATGCAATCTTGGATAT
1 GATAT-CAATCTTAGATAT
29810733 GATATGCAATCTTAGATAT
1 GATAT-CAATCTTAGATAT
29810752 GATAT-AATCTTAGATAT
1 GATATCAATCTTAGATAT
29810769 GATAT
1 GATAT
29810774 GATATGATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 17 0.43
19 23 0.57
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (18 bp):
GATATCAATCTTAGATAT
Found at i:29810772 original size:5 final size:5
Alignment explanation
Indices: 29810764--29810804 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
29810754 TATAATCTTA
29810764 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
29810805 CAATCTTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:29814413 original size:26 final size:26
Alignment explanation
Indices: 29814377--29814431 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
29814367 GAAATGCCCG
*
29814377 TCATGGAACATTTACGTAAACCATTA
1 TCATGGAACATTTACCTAAACCATTA
*
29814403 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAAACCATTA
29814429 TCA
1 TCA
29814432 ATTTGTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (26 bp):
TCATGGAACATTTACCTAAACCATTA
Found at i:29815110 original size:12 final size:13
Alignment explanation
Indices: 29815095--29815132 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
29815085 AATTCTATTA
29815095 TTCTTTC-TTTCT
1 TTCTTTCTTTTCT
29815107 TTCTTTCTTTTCT
1 TTCTTTCTTTTCT
29815120 TT-TTTCATTTTCT
1 TTCTTTC-TTTTCT
29815133 AATATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTCTTTTCT
Found at i:29819261 original size:25 final size:25
Alignment explanation
Indices: 29819233--29819290 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
29819223 AAATTGATAT
*
29819233 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGACATTGTTGAGA
*
29819258 TTCAGCAGAGAAGACATTGTTGAGA
1 TTCAGCAAAGAAGACATTGTTGAGA
29819283 TTC-GCAAA
1 TTCAGCAAA
29819291 CTCAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGACATTGTTGAGA
Found at i:29820109 original size:24 final size:23
Alignment explanation
Indices: 29820042--29820109 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
29820032 TTTTAATAAT
* *
29820042 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
29820064 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
29820088 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
29820110 ATTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:29820172 original size:59 final size:62
Alignment explanation
Indices: 29819997--29820165 Score: 204
Period size: 63 Copynumber: 2.7 Consensus size: 62
29819987 ATACTATTTT
* ** *
29819997 TTAATATTATATATTATAATTTTTATT-CATTCATATTTTAATAATAATTATATT-AAGAATGTT
1 TTAA-ATTATATATTATTATCATTATTAAATT-ATA-TTTAATAATAATTATATTAAAGAATG-T
29820060 A
62 A
* *
29820061 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAGTATG-A
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
*
29820122 TTAAATTATTTATTATT-T-ATTATTAAATTATATTTAATAATAAT
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAAT
29820166 CCTATTATAA
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 25 0.26
60 1 0.01
61 17 0.18
62 18 0.19
63 29 0.30
64 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (62 bp):
TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
Found at i:29820360 original size:46 final size:44
Alignment explanation
Indices: 29820274--29820361 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 44
29820264 ATATCATTCC
* *
29820274 ATTCAACCAAACACAAGAATACTATTACAGTTCTGTTCCATTTT
1 ATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCATTTT
*
29820318 ATTCAACCAAACAGC-TGAATTACTGATTACAGCTCTATTCCATT
1 ATTCAACCAAACA-CAAGAA-TACT-ATTACAGCTCTATTCCATT
29820362 ACAGCTCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 16 0.42
45 5 0.13
46 17 0.45
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (44 bp):
ATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCATTTT
Found at i:29820364 original size:16 final size:16
Alignment explanation
Indices: 29820343--29820397 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
29820333 TGAATTACTG
29820343 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
29820359 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
29820375 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
29820391 ATTACAG
1 ATTACAG
29820398 TGAACCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:29822874 original size:18 final size:18
Alignment explanation
Indices: 29822853--29822887 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29822843 ATTCTGTAAT
*
29822853 TAGTTTGAATTTAATTTC
1 TAGTTTAAATTTAATTTC
*
29822871 TAGTTTAAATTTGATTT
1 TAGTTTAAATTTAATTT
29822888 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (18 bp):
TAGTTTAAATTTAATTTC
Found at i:29823789 original size:14 final size:15
Alignment explanation
Indices: 29823767--29823795 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29823757 ATTTATCCAT
29823767 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
29823782 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
29823796 AATCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:29825842 original size:27 final size:28
Alignment explanation
Indices: 29825758--29825855 Score: 137
Period size: 27 Copynumber: 3.5 Consensus size: 28
29825748 CATGAGATTG
* *
29825758 GCACTAAGTGTGCG-GCTTTAAATTGTATA
1 GCACTAAGTGTGCGAG-TTT-GATTATATA
29825787 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29825815 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29825842 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29825856 GACTTAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 24 0.37
28 23 0.35
29 17 0.26
30 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29825869 original size:29 final size:27
Alignment explanation
Indices: 29825758--29825869 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
29825748 CATGAGATTG
* *
29825758 GCACTAAGTGTGCGGCTTTAAATTGTATA
1 GCACTAAGTGTGCGAC-TT-AATTATATA
* *
29825787 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
29825815 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
29825842 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
29825870 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:29860454 original size:13 final size:13
Alignment explanation
Indices: 29860436--29860473 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
29860426 TCGACAAGGA
29860436 CACGGCCGTGTGC
1 CACGGCCGTGTGC
29860449 CACGGCCGTGTGC
1 CACGGCCGTGTGC
*
29860462 CACGCCCGTGTG
1 CACGGCCGTGTG
29860474 AAGGTGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.39, G:0.37, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:29862300 original size:20 final size:21
Alignment explanation
Indices: 29862248--29862300 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
29862238 TACAGGATTT
* *
29862248 TGCACTTCGGTGCCTCTGATC
1 TGCACTTCAGTGCCCCTGATC
* *
29862269 -GCACATCTGTGCCCCTG-TC
1 TGCACTTCAGTGCCCCTGATC
29862288 TGCACTTCAGTGC
1 TGCACTTCAGTGC
29862301 TTCTATTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.11, C:0.36, G:0.23, T:0.30
Consensus pattern (21 bp):
TGCACTTCAGTGCCCCTGATC
Found at i:29867940 original size:23 final size:24
Alignment explanation
Indices: 29867893--29867936 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
29867883 TAACTAAGTC
29867893 TACTTACTTTTCTAACTTAATTCT
1 TACTTACTTTTCTAACTTAATTCT
29867917 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
29867937 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCT
Found at i:29870432 original size:13 final size:13
Alignment explanation
Indices: 29870395--29870443 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
29870385 AAGTCAGATC
*
29870395 TAAAAAAATAAAA
1 TAAAAAATTAAAA
* *
29870408 GAAAGTAATTAAAA
1 TAAA-AAATTAAAA
*
29870422 TAAAAAATTAAGA
1 TAAAAAATTAAAA
29870435 TAAAAAATT
1 TAAAAAATT
29870444 TAATTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:29874874 original size:11 final size:11
Alignment explanation
Indices: 29874854--29874887 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
29874844 TTTATCTTTC
29874854 ATCC-AAAAAT
1 ATCCAAAAAAT
29874864 ATCCAAAAAAT
1 ATCCAAAAAAT
29874875 ATCCAAAAAAT
1 ATCCAAAAAAT
29874886 AT
1 AT
29874888 AAAATACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (11 bp):
ATCCAAAAAAT
Found at i:29877012 original size:14 final size:14
Alignment explanation
Indices: 29876979--29877051 Score: 74
Period size: 14 Copynumber: 5.2 Consensus size: 14
29876969 TGAGTATTTG
*
29876979 TATCTGTATTTATA
1 TATCTGTATCTATA
* * *
29876993 TTTCTGCATCTGTA
1 TATCTGTATCTATA
*
29877007 TATCTGTATCCATA
1 TATCTGTATCTATA
29877021 TATCTGTATCTATA
1 TATCTGTATCTATA
* * *
29877035 TTTCTATATCTGTA
1 TATCTGTATCTATA
29877049 TAT
1 TAT
29877052 GGGGTGGGAT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (14 bp):
TATCTGTATCTATA
Found at i:29878991 original size:20 final size:20
Alignment explanation
Indices: 29878945--29878985 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29878935 ATTTCCGAGG
29878945 TAATCCTCATTGACTTTGTC
1 TAATCCTCATTGACTTTGTC
29878965 TAATCCTCATTGACTTTGTC
1 TAATCCTCATTGACTTTGTC
29878985 T
1 T
29878986 TTTCCTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATCCTCATTGACTTTGTC
Found at i:29879514 original size:13 final size:13
Alignment explanation
Indices: 29879496--29879520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29879486 AACCCTAAAT
29879496 TTTCCTTTCTTTC
1 TTTCCTTTCTTTC
29879509 TTTCCTTTCTTT
1 TTTCCTTTCTTT
29879521 TTCCTCTATT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCCTTTCTTTC
Found at i:29885920 original size:13 final size:13
Alignment explanation
Indices: 29885904--29885936 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29885894 TTTAATTAAA
*
29885904 TTAGTTAATTAGT
1 TTAGATAATTAGT
29885917 TTAGATAATTAGT
1 TTAGATAATTAGT
29885930 TTA-ATAA
1 TTAGATAA
29885937 ACAAACCCTT
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:29894364 original size:17 final size:17
Alignment explanation
Indices: 29894342--29894378 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
29894332 AGTCGCTATT
*
29894342 AGTTTTGCTACAGTCTC
1 AGTTTTACTACAGTCTC
*
29894359 AGTTTTACTACAGTTTC
1 AGTTTTACTACAGTCTC
29894376 AGT
1 AGT
29894379 ATACACTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (17 bp):
AGTTTTACTACAGTCTC
Found at i:29897903 original size:17 final size:18
Alignment explanation
Indices: 29897861--29897906 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
29897851 TTTTCTTACA
29897861 AAACTAATTTCATATCTC
1 AAACTAATTTCATATCTC
* * *
29897879 AATC-AATTTC-TATTTT
1 AAACTAATTTCATATCTC
29897895 AAACTAATTTCA
1 AAACTAATTTCA
29897907 ACTCTCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 7 0.32
17 12 0.55
18 3 0.14
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (18 bp):
AAACTAATTTCATATCTC
Found at i:29898226 original size:13 final size:13
Alignment explanation
Indices: 29898208--29898232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29898198 AACCCTAAAT
29898208 TTTCCTTTCTTTC
1 TTTCCTTTCTTTC
29898221 TTTCCTTTCTTT
1 TTTCCTTTCTTT
29898233 TTCCCCTATT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCCTTTCTTTC
Found at i:29898865 original size:6 final size:6
Alignment explanation
Indices: 29898854--29898917 Score: 121
Period size: 6 Copynumber: 10.8 Consensus size: 6
29898844 AGGACTTAAG
29898854 TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA
1 TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA
29898902 TCTGTA TCTGT- TCTGT
1 TCTGTA TCTGTA TCTGT
29898918 TATATGAGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.09
6 53 0.91
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.52
Consensus pattern (6 bp):
TCTGTA
Found at i:29906054 original size:27 final size:27
Alignment explanation
Indices: 29906023--29906200 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
29906013 TAAATTGTAC
29906023 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29906050 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29906076 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29906104 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
29906132 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29906159 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29906186 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29906201 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:29906137 original size:82 final size:81
Alignment explanation
Indices: 29906024--29906179 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
29906014 AAATTGTACA
*
29906024 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
29906088 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29906105 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
29906170 TGCGAGTTGA
65 TGCGAATTGA
29906180 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29906191 original size:82 final size:81
Alignment explanation
Indices: 29906020--29906200 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
29906010 GATTAAATTG
*
29906020 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
29906085 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29906101 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
29906165 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29906183 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29906201 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29909072 original size:18 final size:20
Alignment explanation
Indices: 29909049--29909086 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
29909039 ACGTGGCAGT
29909049 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
29909067 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
29909087 GGATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:29909123 original size:17 final size:17
Alignment explanation
Indices: 29909103--29909136 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29909093 AAATAGATTT
29909103 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
29909120 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
29909137 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:29910008 original size:31 final size:29
Alignment explanation
Indices: 29909939--29910012 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
29909929 ACAAAATAAT
**
29909939 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
29909968 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
29909999 AACAAAAGTGACTA
1 AACATAAGTGACTA
29910013 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:29911697 original size:20 final size:21
Alignment explanation
Indices: 29911672--29911711 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29911662 AGTCTTTATC
*
29911672 AATTTT-TATATAAATTTTAA
1 AATTTTCTAAATAAATTTTAA
*
29911692 AATTTTCTAAATAAGTTTTA
1 AATTTTCTAAATAAATTTTA
29911712 CTAATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
AATTTTCTAAATAAATTTTAA
Found at i:29913743 original size:22 final size:23
Alignment explanation
Indices: 29913701--29913743 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
29913691 ACCAAAGAAT
*
29913701 AAAATGAATAATATAAACAATTC
1 AAAATGAATAATAGAAACAATTC
29913724 AAAATGAATAAT-GAAACAAT
1 AAAATGAATAATAGAAACAAT
29913744 ATTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATGAATAATAGAAACAATTC
Found at i:29914218 original size:22 final size:22
Alignment explanation
Indices: 29914134--29914305 Score: 134
Period size: 22 Copynumber: 7.5 Consensus size: 22
29914124 AACTTAAAAC
*
29914134 AAATAA-TAATAAAACAATTTT
1 AAATAAGTAATAAAACAATTTA
* * *
29914155 AAATAAAT-A-AAAAGAGTTTA
1 AAATAAGTAATAAAACAATTTA
*
29914175 AAATTAGGTATATAAAACAATTTA
1 AAA-TAAGTA-ATAAAACAATTTA
*
29914199 AAATAAGTAATAGAACAATTTA
1 AAATAAGTAATAAAACAATTTA
* *
29914221 AAATAAATAATACATGAAAGAATTTAA
1 AAATAAGTAAT--A--AAACAATTT-A
*
29914248 AAATAAGGTATATAAAAAAATTTA
1 AAATAA-GTA-ATAAAACAATTTA
* *
29914272 AAATAAGTATTAGAACAATTTA
1 AAATAAGTAATAAAACAATTTA
*
29914294 AAATAAATAATA
1 AAATAAGTAATA
29914306 CATGAAAGAA
Statistics
Matches: 120, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.09
21 10 0.08
22 43 0.36
23 9 0.08
24 20 0.17
25 8 0.07
26 7 0.06
27 8 0.07
28 2 0.02
29 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATAAGTAATAAAACAATTTA
Found at i:29914225 original size:66 final size:68
Alignment explanation
Indices: 29914134--29914303 Score: 220
Period size: 73 Copynumber: 2.5 Consensus size: 68
29914124 AACTTAAAAC
* * * * *
29914134 AAATAA-TAATAAAACAATTTTAAATAAATAA-AAAGAGTTT-AAAATTAGGTATATAAAACAAT
1 AAATAAGTAATAGAACAATTTAAAATAAATAAGAAAGAATTTAAAAATAAGGTATATAAAAAAAT
29914196 TTA
66 TTA
29914199 AAATAAGTAATAGAACAATTTAAAATAAATAATACATGAAAGAATTTAAAAATAAGGTATATAAA
1 AAATAAGTAATAGAACAATTTAAAAT--A-AATA-A-GAAAGAATTTAAAAATAAGGTATATAAA
29914264 AAAATTTA
61 AAAATTTA
*
29914272 AAATAAGTATTAGAACAATTTAAAATAAATAA
1 AAATAAGTAATAGAACAATTTAAAATAAATAA
29914304 TACATGAAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
65 6 0.07
66 17 0.19
68 1 0.01
69 5 0.05
70 5 0.05
71 1 0.01
72 8 0.09
73 48 0.53
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (68 bp):
AAATAAGTAATAGAACAATTTAAAATAAATAAGAAAGAATTTAAAAATAAGGTATATAAAAAAAT
TTA
Found at i:29914244 original size:26 final size:25
Alignment explanation
Indices: 29914193--29914358 Score: 125
Period size: 26 Copynumber: 6.7 Consensus size: 25
29914183 TATATAAAAC
* *
29914193 AATTTAAAATAAGTAAT--AG-AAC
1 AATTTAAAATAAATAATACAGAAAG
29914215 AATTTAAAATAAATAATACATGAAAG
1 AATTTAAAATAAATAATACA-GAAAG
*
29914241 AATTTAAAAATAAGGTATATA-A-AAA-
1 AATTT-AAAATAA-ATA-ATACAGAAAG
* * *
29914266 AATTTAAAATAAGT-AT-TAG-AAC
1 AATTTAAAATAAATAATACAGAAAG
29914288 AATTTAAAATAAATAATACATGAAAG
1 AATTTAAAATAAATAATACA-GAAAG
*
29914314 AATTTAAAATAAATAATATAGAAAG
1 AATTTAAAATAAATAATACAGAAAG
**
29914339 CGCTTTAAAATAAAATAATA
1 -AATTTAAAAT-AAATAATA
29914359 AAACAGTTTA
Statistics
Matches: 119, Mismatches: 9, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.04
22 29 0.24
23 4 0.03
24 9 0.08
25 12 0.10
26 39 0.33
27 15 0.13
28 3 0.03
29 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (25 bp):
AATTTAAAATAAATAATACAGAAAG
Found at i:29914261 original size:73 final size:73
Alignment explanation
Indices: 29914165--29914322 Score: 273
Period size: 73 Copynumber: 2.2 Consensus size: 73
29914155 AAATAAATAA
* * *
29914165 AAAGAGTTT-AAAATTAGGTATATAAAACAATTTAAAATAAGTAATAGAACAATTTAAAATAAAT
1 AAAGAATTTAAAAATAAGGTATATAAAAAAATTTAAAATAAGTAATAGAACAATTTAAAATAAAT
29914229 AATACATG
66 AATACATG
*
29914237 AAAGAATTTAAAAATAAGGTATATAAAAAAATTTAAAATAAGTATTAGAACAATTTAAAATAAAT
1 AAAGAATTTAAAAATAAGGTATATAAAAAAATTTAAAATAAGTAATAGAACAATTTAAAATAAAT
29914302 AATACATG
66 AATACATG
29914310 AAAGAATTTAAAA
1 AAAGAATTTAAAA
29914323 TAAATAATAT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 8 0.10
73 73 0.90
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (73 bp):
AAAGAATTTAAAAATAAGGTATATAAAAAAATTTAAAATAAGTAATAGAACAATTTAAAATAAAT
AATACATG
Found at i:29916109 original size:46 final size:45
Alignment explanation
Indices: 29915960--29916205 Score: 180
Period size: 45 Copynumber: 5.5 Consensus size: 45
29915950 GTTTGACTAT
* ** * * *
29915960 AACTTCAGGGAGATAAGGTTTGTAATCTTTAGTCTACTCCACTGC
1 AACTTCAGAGAGATAAGACTTGTTATCTTTAGTCTGCTCCTCTGC
*
29916005 AACTTCAGGGAGATAAGACTTGTTATCTTTAGTCTGCTCCTCTGC
1 AACTTCAGAGAGATAAGACTTGTTATCTTTAGTCTGCTCCTCTGC
* ** *
29916050 AACTTCAGAGAGATAAGACTTGTTTATTTTTA-TCCTGCTTTTCTGT
1 AACTTCAGAGAGATAAGACTTG-TTATCTTTAGT-CTGCTCCTCTGC
* * * ** * *
29916096 AATTTTAGAGAGATAATGA--TGGTGGC-TTCGATCTGCTCCACTGC
1 AACTTCAGAGAGATAA-GACTTGTTATCTTTAG-TCTGCTCCTCTGC
* * * * * *
29916140 AACTTCAGGGAGATAAGA-TCTGCTATCTTCAGTCTACTCCACTAC
1 AACTTCAGAGAGATAAGACT-TGTTATCTTTAGTCTGCTCCTCTGC
29916185 AACTTCA-AGGAGATAAGACTT
1 AACTTCAGA-GAGATAAGACTT
29916206 TAACTTCAAC
Statistics
Matches: 159, Mismatches: 32, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
43 4 0.03
44 22 0.14
45 97 0.61
46 34 0.21
47 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (45 bp):
AACTTCAGAGAGATAAGACTTGTTATCTTTAGTCTGCTCCTCTGC
Found at i:29921598 original size:21 final size:22
Alignment explanation
Indices: 29921569--29921611 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
29921559 TAAAAATCCC
29921569 AAATATCGAGT-CACACAGCCAT
1 AAATATCGA-TCCACACAGCCAT
*
29921591 AAAT-TCGATCCACACTGCCAT
1 AAATATCGATCCACACAGCCAT
29921612 GCGACACGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (22 bp):
AAATATCGATCCACACAGCCAT
Found at i:29923905 original size:5 final size:5
Alignment explanation
Indices: 29923895--29923945 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
29923885 TCCATTTATT
* *
29923895 TTTTA TTTTA TTTTA TTTTA TTTTTGT TTTTA TTTTTG TTTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA -TTTTA TTTTA TTTTA
29923942 TTTT
1 TTTT
29923946 TCTTAAGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.11
5 22 0.58
6 12 0.32
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:29923910 original size:10 final size:11
Alignment explanation
Indices: 29923889--29923940 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
29923879 TTTGAGTCCA
29923889 TTTATTTTTTAT
1 TTTA-TTTTTAT
29923901 TTTA-TTTTAT
1 TTTATTTTTAT
*
29923911 TTTATTTTTGTT
1 TTTATTTTT-AT
*
29923923 TTTATTTTTGT
1 TTTATTTTTAT
29923934 TTTATTT
1 TTTATTT
29923941 ATTTTTCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 10 0.28
11 12 0.33
12 14 0.39
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:29923928 original size:27 final size:27
Alignment explanation
Indices: 29923894--29923946 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
29923884 GTCCATTTAT
29923894 TTTTTA-TTTTATTTTATTTTATTTTTG
1 TTTTTATTTTTATTTTA-TTTATTTTTG
*
29923921 TTTTTATTTTTGTTTTATTTATTTTT
1 TTTTTATTTTTATTTTATTTATTTTT
29923947 CTTAAGACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (27 bp):
TTTTTATTTTTATTTTATTTATTTTTG
Found at i:29927903 original size:33 final size:33
Alignment explanation
Indices: 29927861--29927925 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
29927851 AGAGAAAGTC
*
29927861 CATGAGGAAGTCATGACATACAGAGGTGAAGGT
1 CATGAGGAAGTCATGACATACAAAGGTGAAGGT
*
29927894 CATGGGGAAGTCATGACATACAAAGGTGAAGG
1 CATGAGGAAGTCATGACATACAAAGGTGAAGG
29927926 AGGTTGTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.34, T:0.17
Consensus pattern (33 bp):
CATGAGGAAGTCATGACATACAAAGGTGAAGGT
Found at i:29933345 original size:43 final size:42
Alignment explanation
Indices: 29933276--29933427 Score: 191
Period size: 43 Copynumber: 3.6 Consensus size: 42
29933266 CACTAAAGAC
* * * * *
29933276 AACGCCGCTAAAGAACATAACCTTTAGCGACACTTTCCCCACA
1 AACGCCGCTAAAGAACATGACATTTAGCG-CGCTTTTCACACA
*
29933319 AACGCCGCTAAAGAACATGACATTTAGCGGTGCTTTTCACACA
1 AACGCCGCTAAAGAACATGACATTTAGC-GCGCTTTTCACACA
* * *
29933362 AACGCCGCTATAGAACA-GACCTTTAG-GCGCTTTTCTCACA
1 AACGCCGCTAAAGAACATGACATTTAGCGCGCTTTTCACACA
29933402 AACGCCGCTAAAGAACATGACATTTA
1 AACGCCGCTAAAGAACATGACATTTA
29933428 AAAAATTATT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.29
41 7 0.07
42 8 0.08
43 51 0.54
44 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.22
Consensus pattern (42 bp):
AACGCCGCTAAAGAACATGACATTTAGCGCGCTTTTCACACA
Found at i:29937660 original size:15 final size:15
Alignment explanation
Indices: 29937644--29937686 Score: 61
Period size: 14 Copynumber: 2.8 Consensus size: 15
29937634 AATATTAAAA
29937644 TTTTAAGTTTTTTAAT
1 TTTTAA-TTTTTTAAT
29937660 TTTTAA-TTTTTAAT
1 TTTTAATTTTTTAAT
29937674 TTTTAAATTTTTT
1 TTTT-AATTTTTT
29937687 TGAAGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.48
15 2 0.08
16 11 0.44
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTAATTTTTTAAT
Found at i:29937669 original size:6 final size:7
Alignment explanation
Indices: 29937652--29937685 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
29937642 AATTTTAAGT
29937652 TTTTTAA
1 TTTTTAA
29937659 TTTTTAA
1 TTTTTAA
29937666 TTTTTAA
1 TTTTTAA
29937673 TTTTTAAA
1 TTTTT-AA
29937681 TTTTT
1 TTTTT
29937686 TTGAAGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:29938658 original size:7 final size:7
Alignment explanation
Indices: 29938648--29938673 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29938638 ACCCCAAACT
29938648 TAAACCA
1 TAAACCA
29938655 TAAACCA
1 TAAACCA
29938662 TAAACCA
1 TAAACCA
29938669 TAAAC
1 TAAAC
29938674 TCTGATCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCA
Found at i:29938750 original size:14 final size:14
Alignment explanation
Indices: 29938733--29938764 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
29938723 CCATAGACAT
*
29938733 TAAACCTTAAATCC
1 TAAACCTTAAACCC
29938747 TAAACCTTAAACCC
1 TAAACCTTAAACCC
29938761 TAAA
1 TAAA
29938765 ATAAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:29939075 original size:40 final size:40
Alignment explanation
Indices: 29939023--29939140 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 40
29939013 GCATTTTTAG
*
29939023 AAAAA-CGCCGCTAATGCTC-AGTCTATAGCAGTGTTTTTC
1 AAAAAGCGCCGCTAATGCTCGA-TCTATAGCAGCGTTTTTC
* * * *
29939062 AAAAAGCGTCGCTAATGCTCGATCTTTAGCTGCATTTTTC
1 AAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTC
* *
29939102 AAAAAGAGCCGCTAATGCTCGATCTATAGCGGCGTTTTT
1 AAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTT
29939141 TTATCCAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 5 0.07
40 61 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTC
Found at i:29939974 original size:83 final size:84
Alignment explanation
Indices: 29939834--29939995 Score: 247
Period size: 83 Copynumber: 1.9 Consensus size: 84
29939824 GGGCCTGATT
* *
29939834 GTAACGGATGGCCTTCGTGTGTGCATCTCAAGTTATGTTTGAGCATTTTTCGAGGTGAAACCAAG
1 GTAACGGATGGCCTTCGAGTGTGCATCTCAAGTTATGTTTGAGCATTTGTCGAGGTGAAACCAAG
29939899 G-GGTAGAGAGGATTTTCA
66 GAGGTAGAGAGGATTTTCA
* * * *
29939917 GTAACGGATGGCCTTCGAGTGTGCATCTCAGGTTGCT-TTTGAGCATTTGTCGGGGTGAAACCAG
1 GTAACGGATGGCCTTCGAGTGTGCATCTCAAGTT-ATGTTTGAGCATTTGTCGAGGTGAAACCAA
29939981 GGAGGTAGAGAGGAT
65 GGAGGTAGAGAGGAT
29939996 CTTAACTTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
83 58 0.82
84 13 0.18
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (84 bp):
GTAACGGATGGCCTTCGAGTGTGCATCTCAAGTTATGTTTGAGCATTTGTCGAGGTGAAACCAAG
GAGGTAGAGAGGATTTTCA
Found at i:29943739 original size:22 final size:23
Alignment explanation
Indices: 29943697--29943739 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
29943687 ACCAAAGAAT
*
29943697 AAAATGAATAATATAAACAATTC
1 AAAATGAATAATAGAAACAATTC
29943720 AAAATGAATAAT-GAAACAAT
1 AAAATGAATAATAGAAACAAT
29943740 ATTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATGAATAATAGAAACAATTC
Found at i:29944060 original size:27 final size:27
Alignment explanation
Indices: 29944027--29944088 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
29944017 TCAAAATTAA
29944027 ATAATATACAAAAAAACTTAAAAATAG
1 ATAATATACAAAAAAACTTAAAAATAG
* *** * *
29944054 ATGATATATGTAAAAACTTTAGAATAG
1 ATAATATACAAAAAAACTTAAAAATAG
29944081 ATAATATA
1 ATAATATA
29944089 TATAAGTGTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (27 bp):
ATAATATACAAAAAAACTTAAAAATAG
Found at i:29944089 original size:27 final size:27
Alignment explanation
Indices: 29944038--29944089 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
29944028 TAATATACAA
*
29944038 AAAAACTTAAAAATAGATGATATATGT
1 AAAAACTTAAAAATAGATAATATATGT
* *
29944065 AAAAACTTTAGAATAGATAATATAT
1 AAAAACTTAAAAATAGATAATATAT
29944090 ATAAGTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAAACTTAAAAATAGATAATATATGT
Found at i:29944214 original size:22 final size:22
Alignment explanation
Indices: 29944130--29944295 Score: 113
Period size: 22 Copynumber: 7.1 Consensus size: 22
29944120 AACTTAAAAC
*
29944130 AAAT-AATAATAAAACAATTTT
1 AAATAAATAATAAAACAATTTA
* *
29944151 AAATAAAT-A-AAAAGAGTTTA
1 AAATAAATAATAAAACAATTTA
**
29944171 AAATTAGGTATATAAAACAATTTA
1 AAA-TAAATA-ATAAAACAATTTA
* *
29944195 AAATAAGTAATAGAACAATTTA
1 AAATAAATAATAAAACAATTTA
*
29944217 AAATAAATAATACATGAAAGAATTTA
1 AAATAAATAAT--A--AAACAATTTA
*
29944243 AAATAAATAATATAGAAATCACTTTAA
1 AAATAAAT-A-ATA-AAA-CAATTT-A
*
29944270 AAATAAAATAATAAAACAGTTTA
1 AAAT-AAATAATAAAACAATTTA
29944293 AAA
1 AAA
29944296 CATAGGGTCA
Statistics
Matches: 116, Mismatches: 15, Indels: 26
0.74 0.10 0.17
Matches are distributed among these distances:
20 11 0.09
21 8 0.07
22 25 0.22
23 10 0.09
24 18 0.16
25 7 0.06
26 24 0.21
27 7 0.06
28 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.28
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:29944268 original size:26 final size:26
Alignment explanation
Indices: 29944185--29944282 Score: 98
Period size: 26 Copynumber: 3.8 Consensus size: 26
29944175 TAGGTATATA
*
29944185 AAACAATTTAAAATAAGTAAT--A-G
1 AAACAATTTAAAATAAATAATACATG
29944208 -AACAATTTAAAATAAATAATACATG
1 AAACAATTTAAAATAAATAATACATG
* *
29944233 AAAGAATTTAAAATAAATAATATA-G
1 AAACAATTTAAAATAAATAATACATG
*
29944258 AAATCACTTTAAAAATAAAATAATA
1 AAA-CAATTT-AAAAT-AAATAATA
29944283 AAACAGTTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
22 19 0.30
24 1 0.02
25 5 0.08
26 25 0.40
27 5 0.08
28 8 0.13
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (26 bp):
AAACAATTTAAAATAAATAATACATG
Found at i:29947888 original size:46 final size:46
Alignment explanation
Indices: 29947821--29947993 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
29947811 TGTAACCCGC
*
29947821 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
29947867 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * *
29947917 --TTCA-CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
29947960 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
29947994 AGATGCTCAA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:29947955 original size:93 final size:93
Alignment explanation
Indices: 29947829--29947999 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29947819 GCCCATAAGT
* *
29947829 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
29947894 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
* *
29947922 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
29947987 CGAGTTCAGATGC
66 CGAGTTCAGATGC
29948000 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:29954453 original size:42 final size:42
Alignment explanation
Indices: 29954406--29954526 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
29954396 CACACAATCC
*
29954406 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACG-GTCT
1 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCT-T
* * * *
29954448 GCGACACGGTCGTGTTTATCAAGTTAGAGAGTTACACGCCTT
1 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCTT
* * * *
29954490 ACGACACAATCATGTG-ATCTAAGTCGGTGAGTTACAC
1 GCGACACAGTCGTGTGTATC-AAGTCAGTGAGTTACAC
29954527 TGTTTAAGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.05
42 60 0.94
43 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (42 bp):
GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCTT
Found at i:29955774 original size:37 final size:37
Alignment explanation
Indices: 29955723--29955796 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
29955713 GTACAATTGA
*
29955723 GGTAACACAGCCTGAATTTAGCACATTCAAGGTAAAC
1 GGTAACACAGCCTGAATTCAGCACATTCAAGGTAAAC
* * *
29955760 GGTAACACATCCTGAATTCGGCATATTCAAGGTAAAC
1 GGTAACACAGCCTGAATTCAGCACATTCAAGGTAAAC
29955797 AATACTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (37 bp):
GGTAACACAGCCTGAATTCAGCACATTCAAGGTAAAC
Found at i:29956038 original size:11 final size:12
Alignment explanation
Indices: 29956022--29956050 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29956012 ATCATTTTTT
29956022 AAAAAA-TTGAA
1 AAAAAACTTGAA
29956033 AAAAAACTTGAA
1 AAAAAACTTGAA
29956045 AAAAAA
1 AAAAAA
29956051 ATTAGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAACTTGAA
Found at i:29956622 original size:21 final size:20
Alignment explanation
Indices: 29956597--29956658 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
29956587 CCAAATTGAT
29956597 TTTATTTAGTTTTATATTTTA
1 TTTATTT-GTTTTATATTTTA
* *
29956618 TTTATTTCTATTTCTATTTCTA
1 TTTATTTGT-TTTATATTT-TA
* *
29956640 TTTTTTTGTTTTTTATTTT
1 TTTATTTGTTTTATATTTT
29956659 TGTTTTCGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTATTTGTTTTATATTTTA
Found at i:29956693 original size:22 final size:21
Alignment explanation
Indices: 29956648--29956693 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
29956638 TATTTTTTTG
*
29956648 TTTTTTATTTTTGTTTTCGTT
1 TTTTTTATTTTTGTTTTCGCT
* *
29956669 TTTTTTCTTCTTTGTTTTTGCT
1 TTTTTTATT-TTTGTTTTCGCT
29956691 TTT
1 TTT
29956694 GCTTTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (21 bp):
TTTTTTATTTTTGTTTTCGCT
Found at i:29956716 original size:17 final size:17
Alignment explanation
Indices: 29956596--29956725 Score: 63
Period size: 17 Copynumber: 7.7 Consensus size: 17
29956586 ACCAAATTGA
*
29956596 TTTTA-TTTAGTTTTAT
1 TTTTATTTTATTTTTAT
*
29956612 ATTTTA-TTTATTTCTAT
1 -TTTTATTTTATTTTTAT
*
29956629 TTCTATTTCTATTTTT-T
1 TTTTATTT-TATTTTTAT
* *
29956646 TGTT-TTTTATTTTTGT
1 TTTTATTTTATTTTTAT
** * *
29956662 TTTCGTTTTTTTTCTTCT
1 TTTTATTTTATTT-TTAT
* ** **
29956680 TTGT-TTTTGCTTTTGC
1 TTTTATTTTATTTTTAT
29956696 TTTTATTTTTATTTTTAT
1 TTTTA-TTTTATTTTTAT
29956714 TTTTATTTTATT
1 TTTTATTTTATT
29956726 ATGCATTGTA
Statistics
Matches: 85, Mismatches: 21, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
15 7 0.08
16 15 0.18
17 39 0.46
18 24 0.28
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTATTTTATTTTTAT
Found at i:29956725 original size:5 final size:6
Alignment explanation
Indices: 29956696--29956722 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
29956686 TTGCTTTTGC
29956696 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
29956723 ATTATGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:29958678 original size:41 final size:41
Alignment explanation
Indices: 29958648--29958908 Score: 375
Period size: 41 Copynumber: 6.4 Consensus size: 41
29958638 CATTTTTTAC
*
29958648 TAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
29958688 TAAAACGCCGCTAAAAACCAGAGTATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * *
29958729 TAAAACGCCGCTAAAAACCAGAGTATTAGCGGTGCTTTCT-A
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-TGG
* * *
29958770 TAAAATGCCGCTAAAAA-CAGGGCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * *
29958810 TAAAACACCGCTAAAAACCAGAGCATTACCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
29958851 TAAAACGTCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
29958892 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
29958909 TCCCATAACC
Statistics
Matches: 197, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 49 0.25
41 148 0.75
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:29958733 original size:81 final size:82
Alignment explanation
Indices: 29958648--29958908 Score: 391
Period size: 81 Copynumber: 3.2 Consensus size: 82
29958638 CATTTTTTAC
*
29958648 TAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGT
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
29958712 ATTAGCGGCGCTTTAGG
66 ATTAGCGGCGCTTTAGG
* * ** * *
29958729 TAAAACGCCGCTAAAAACCAGAGTATTAGCGGTGCTTTCTATAAAATGCCGCTAAAAA-CAGGGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
*
29958793 ATTAGCGGCGCTTTGGG
66 ATTAGCGGCGCTTTAGG
* * * *
29958810 TAAAACACCGCTAAAAACCAGAGCATTACCGGCGCTTTGGGTAAAACGTCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
*
29958875 ATTAGCGGCGCTTTTGG
66 ATTAGCGGCGCTTTAGG
29958892 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
29958909 TCCCATAACC
Statistics
Matches: 158, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
81 86 0.54
82 72 0.46
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (82 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
ATTAGCGGCGCTTTAGG
Found at i:29958795 original size:122 final size:122
Alignment explanation
Indices: 29958648--29958908 Score: 407
Period size: 122 Copynumber: 2.1 Consensus size: 122
29958638 CATTTTTTAC
* *
29958648 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGTA
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACACCGCTAAAAACCAGAGCA
* * *
29958713 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGTGCTTTCT-A
66 TTACCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-TGA
* * *
29958770 TAAAATGCCGCTAAAAACAGGGCATTAGCGGCGCTTTGGGTAAAACACCGCTAAAAACCAGAGCA
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACACCGCTAAAAACCAGAGCA
* * *
29958835 TTACCGGCGCTTTGGGTAAAACGTCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
66 TTACCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
29958892 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
29958909 TCCCATAACC
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
121 1 0.01
122 125 0.99
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (122 bp):
TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACACCGCTAAAAACCAGAGCA
TTACCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
Found at i:29959088 original size:14 final size:14
Alignment explanation
Indices: 29959066--29959105 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29959056 TTAATTATCA
* *
29959066 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
29959080 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
29959094 ATATGGTTTAAG
1 TTATGGTTTAAG
29959106 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:29959859 original size:15 final size:15
Alignment explanation
Indices: 29959839--29959870 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29959829 TTTAATTTAG
*
29959839 AAGATAAATGTATAT
1 AAGATAAATATATAT
29959854 AAGATAAATATATAT
1 AAGATAAATATATAT
29959869 AA
1 AA
29959871 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:29959909 original size:24 final size:24
Alignment explanation
Indices: 29959842--29959909 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
29959832 AATTTAGAAG
* *
29959842 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
29959867 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
29959891 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
29959910 GTGGTTTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:29961480 original size:18 final size:17
Alignment explanation
Indices: 29961459--29961501 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
29961449 ATCTTAATGA
29961459 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
29961477 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
29961494 TCGATGAT
1 T-GATGAT
29961502 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:29963526 original size:133 final size:133
Alignment explanation
Indices: 29963288--29963539 Score: 486
Period size: 133 Copynumber: 1.9 Consensus size: 133
29963278 TGGTGATTCC
29963288 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
29963353 TGGACTTAGATTGATTTAAGAGTTTAATGTTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
29963418 TAT
131 TAT
29963421 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
29963486 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
29963540 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:29965891 original size:16 final size:17
Alignment explanation
Indices: 29965853--29965891 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
29965843 AAATTAATTT
*
29965853 CATAACTTACATAATCCA
1 CATAACTTACATAA-CAA
29965871 CATAACTTACATAA-AA
1 CATAACTTACATAACAA
29965887 CATAA
1 CATAA
29965892 ATATATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (17 bp):
CATAACTTACATAACAA
Found at i:29969660 original size:25 final size:28
Alignment explanation
Indices: 29969611--29969661 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
29969601 GGTTCGTTAG
29969611 GATGTAGATGAAGATATTTACGATTTAT
1 GATGTAGATGAAGATATTTACGATTTAT
*
29969639 GATGTAG-T-AAGAT-TTTATGATTT
1 GATGTAGATGAAGATATTTACGATTT
29969662 TTTATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 5 0.23
27 1 0.05
28 7 0.32
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (28 bp):
GATGTAGATGAAGATATTTACGATTTAT
Found at i:29971353 original size:21 final size:21
Alignment explanation
Indices: 29971327--29971370 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
29971317 TCAACTTAGA
29971327 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
29971348 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
29971369 GC
1 GC
29971371 AGAGCAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.57, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:29971719 original size:43 final size:43
Alignment explanation
Indices: 29971672--29972083 Score: 372
Period size: 43 Copynumber: 9.6 Consensus size: 43
29971662 CTGGGCAAAT
* *
29971672 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * *
29971715 TAGCGGCATTTTTTACAAAAGCGCCGCTAAAAGTTCAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * *
29971758 TAGCAGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* *
29971801 TAGCGGCG-TTTTTATAAAAGCGCCGCCAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * *
29971843 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * * *
29971886 TAGTGGCG-TTTTTATAAAAAACGTCGCTAAAGGTCCTGATCT-
1 TAGCGGCGTTTTTTAT-AAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * * *
29971928 TTGCCGGCGTTTTTT-TAAGAGCACCGCTAAAGGTCCTGGTCTT
1 TAG-CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * * *
29971971 TGGTGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * *
29972013 TAGCGGCGCTTTTTTA-AAAAACGCTGCT-AAAG-ATCGTGGTCTT
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTA-C-TGGTCTA
* *
29972056 TAGCGGCGTTTTTTCTTAAAAACGCCGC
1 TAGCGGCGTTTTTT-ATAAAAGCGCCGC
29972084 GAACTTTTGT
Statistics
Matches: 321, Mismatches: 37, Indels: 21
0.85 0.10 0.06
Matches are distributed among these distances:
42 122 0.38
43 184 0.57
44 15 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
Found at i:29971839 original size:85 final size:85
Alignment explanation
Indices: 29971672--29972068 Score: 345
Period size: 85 Copynumber: 4.7 Consensus size: 85
29971662 CTGGGCAAAT
* *
29971672 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTACAAAAGC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGC-GTTTTTATAAAAGC
* *
29971737 GCCGCTAAAAGTTCAGGTCTA
65 GCCGCCAAAAGTACAGGTCTA
* *
29971758 TAGCAGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTATAAAAGCG
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTATAAAAGCG
29971823 CCGCCAAAAGTACAGGTCTA
66 CCGCCAAAAGTACAGGTCTA
* * * * * * * *
29971843 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGCGTTTTTATAAAAAAC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTAT-AAAAGC
* * * * * *
29971908 GTCGCTAAAGGTCCTGATCT-
65 GCCGCCAAAAGTACAGGTCTA
* * * * * * * * * * * *
29971928 TTGCCGGCGTTTTTT-TAAGAGCACCGCTAAAGGTCCTGGTCTTTGGTGGCGTTTTTTTAAGAGC
1 TAG-CGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTATAAAAGC
* * * * *
29971992 GCCGCTAAAGGTCCTGGTCTT
65 GCCGCCAAAAGTACAGGTCTA
* * *
29972013 TAGCGGCGCTTTTTTAAAAAA-CGCTGCT-AAAG-ATCGTGGTCTTTAGCGGCGTTTTT
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTA-C-AGGTCTATAGCGGCGTTTTT
29972069 TCTTAAAAAC
Statistics
Matches: 264, Mismatches: 40, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
84 31 0.12
85 153 0.58
86 80 0.30
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (85 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTATAAAAGCG
CCGCCAAAAGTACAGGTCTA
Found at i:29976517 original size:6 final size:6
Alignment explanation
Indices: 29976506--29976560 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
29976496 TAAGAGTAAC
29976506 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT
29976554 AAGAAT A
1 AAGAAT A
29976561 GTAATAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGAAT
Found at i:29988948 original size:26 final size:28
Alignment explanation
Indices: 29988890--29988948 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
29988880 CTTTGGCATT
29988890 TATTTTTGTCATTGATATTAGCTGCAGG
1 TATTTTTGTCATTGATATTAGCTGCAGG
*
29988918 T-TTTTT-TCATTGGTATTAGCTGCA-G
1 TATTTTTGTCATTGATATTAGCTGCAGG
29988943 TATTTT
1 TATTTT
29988949 ACGGAACCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 21 0.72
27 5 0.17
28 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.53
Consensus pattern (28 bp):
TATTTTTGTCATTGATATTAGCTGCAGG
Found at i:29989653 original size:18 final size:17
Alignment explanation
Indices: 29989625--29989659 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29989615 ATTATTAAGA
*
29989625 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
29989642 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
29989660 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:29989873 original size:44 final size:45
Alignment explanation
Indices: 29989824--29989914 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
29989814 ACCTCTATTC
* * *
29989824 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
29989868 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
29989913 CA
1 CA
29989915 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:29989916 original size:16 final size:16
Alignment explanation
Indices: 29989895--29989963 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
29989885 GATTAGCTAT
29989895 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29989911 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
29989928 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
*
29989944 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
29989960 TACA
1 TACA
29989964 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 32 0.67
17 16 0.33
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29989937 original size:33 final size:32
Alignment explanation
Indices: 29989895--29989963 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
29989885 GATTAGCTAT
29989895 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
29989928 TACACCTCTAATCTAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
29989960 TACA
1 TACA
29989964 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:29999256 original size:14 final size:14
Alignment explanation
Indices: 29999237--29999268 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
29999227 TAGCCGTTCA
29999237 TCTCCTCCTCCCAT
1 TCTCCTCCTCCCAT
29999251 TCTCCTCCTCCCAT
1 TCTCCTCCTCCCAT
29999265 TCTC
1 TCTC
29999269 TTTGATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.56, G:0.00, T:0.38
Consensus pattern (14 bp):
TCTCCTCCTCCCAT
Found at i:29999345 original size:6 final size:6
Alignment explanation
Indices: 29999334--29999360 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
29999324 TTACCATCTC
29999334 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
29999361 GCCACAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:30006764 original size:46 final size:46
Alignment explanation
Indices: 30006712--30006985 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
30006702 AGTGTGCTCT
* *
30006712 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30006758 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30006804 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
30006850 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
30006896 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
30006942 ATGATA-GAAAATGAGTAAGAGCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
30006986 TCATGTCAAA
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 205 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30007292 original size:16 final size:17
Alignment explanation
Indices: 30007271--30007303 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30007261 ATGATGGTGC
30007271 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
30007287 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
30007304 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:30008310 original size:26 final size:26
Alignment explanation
Indices: 30008266--30008323 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
30008256 TTAAACATTC
*
30008266 AATTATAATTTCACATTTCAAGTAAA
1 AATTATAATTTCACATTTCAAGCAAA
30008292 AATTATAATTTCACATTTCAAGCAAA
1 AATTATAATTTCACATTTCAAGCAAA
*
30008318 CATTAT
1 AATTAT
30008324 TCAGACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (26 bp):
AATTATAATTTCACATTTCAAGCAAA
Found at i:30015392 original size:13 final size:13
Alignment explanation
Indices: 30015374--30015398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30015364 GTGCAGACTT
30015374 CACACGCCCATGA
1 CACACGCCCATGA
30015387 CACACGCCCATG
1 CACACGCCCATG
30015399 TCCCTAGGCC
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:0.28, C:0.48, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACGCCCATGA
Found at i:30015910 original size:68 final size:68
Alignment explanation
Indices: 30015835--30016007 Score: 346
Period size: 68 Copynumber: 2.5 Consensus size: 68
30015825 ATTTAACAAA
30015835 ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTGTTTTTTTCTTTAAAACATATGGTTGCT
1 ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTGTTTTTTTCTTTAAAACATATGGTTGCT
30015900 GCC
66 GCC
30015903 ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTGTTTTTTTCTTTAAAACATATGGTTGCT
1 ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTGTTTTTTTCTTTAAAACATATGGTTGCT
30015968 GCC
66 GCC
30015971 ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATT
1 ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATT
30016008 TTTCTTATTC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 105 1.00
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.49
Consensus pattern (68 bp):
ATTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTGTTTTTTTCTTTAAAACATATGGTTGCT
GCC
Found at i:30021593 original size:19 final size:19
Alignment explanation
Indices: 30021551--30021611 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
30021541 CATATCATAT
30021551 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
30021569 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
30021587 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
30021606 CATATC
1 CATATC
30021612 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:30022125 original size:43 final size:42
Alignment explanation
Indices: 30021970--30022126 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
30021960 TGTGTTTTTG
* * *
30021970 TGTAAGACCACGTCTGGGACGTTTGCATCGACT-TATGATTTACA
1 TGTAAGA-CACGTCTGGGAAGTTGGCATCGA-TATTTGA-TTACA
* * * * *
30022014 TGTAGGACAATGTCTAGGAAGTTGGCATC-ATATTTGATTTCG
1 TGTAAGAC-ACGTCTGGGAAGTTGGCATCGATATTTGATTACA
*
30022056 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACAC-GTCTGGGA-AGTTGGCATCGATATTTGATTACA
*
30022099 TGTAAGATCACGTCTGGGACGTTGGCAT
1 TGTAAGA-CACGTCTGGGAAGTTGGCAT
30022127 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 26 0.29
43 40 0.44
44 24 0.27
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACACGTCTGGGAAGTTGGCATCGATATTTGATTACA
Found at i:30024840 original size:14 final size:14
Alignment explanation
Indices: 30024821--30024851 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30024811 TCTCCTTGGC
*
30024821 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
30024835 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
30024849 CGG
1 CGG
30024852 ACCATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:30024934 original size:22 final size:22
Alignment explanation
Indices: 30024892--30024936 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30024882 TTATTAACCC
*
30024892 AAATTAAATTAGATATAAATTA
1 AAATTAAATTAAATATAAATTA
*
30024914 AAATT-AATTAAATTATGAATTA
1 AAATTAAATTAAA-TATAAATTA
30024936 A
1 A
30024937 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATTAAATTAAATATAAATTA
Found at i:30030597 original size:27 final size:27
Alignment explanation
Indices: 30030541--30030597 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
30030531 AAGTTGTTCG
* *
30030541 AAAATAAGAAAAATAAAGTAAATAACT
1 AAAATAAGAAAAATAAAATAAAGAACT
**
30030568 AAAATAAGAAATTTAAGAATAAAGAA-T
1 AAAATAAGAAAAATAA-AATAAAGAACT
30030595 AAA
1 AAA
30030598 TATTCAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (27 bp):
AAAATAAGAAAAATAAAATAAAGAACT
Found at i:30034497 original size:18 final size:18
Alignment explanation
Indices: 30034474--30034522 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
30034464 CGGGATAATG
*
30034474 ATATTGAAATGGAAAATC
1 ATATTGAAATGAAAAATC
* *
30034492 ATATTGAAGTGAAAAATG
1 ATATTGAAATGAAAAATC
*
30034510 ATA-TGGAATGAAA
1 ATATTGAAATGAAA
30034523 TGAAATGTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (18 bp):
ATATTGAAATGAAAAATC
Found at i:30035674 original size:30 final size:30
Alignment explanation
Indices: 30035612--30035675 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
30035602 CACACTGTTA
* * *
30035612 TGTGCCATACATAGGTTTATGGCATAGTCG
1 TGTGCCATACACAGGCTTATGGCATAGCCG
*
30035642 TGTGCCATACACGGGCTTATGGCAT-GACCG
1 TGTGCCATACACAGGCTTATGGCATAG-CCG
30035672 TGTG
1 TGTG
30035676 GTCAGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (30 bp):
TGTGCCATACACAGGCTTATGGCATAGCCG
Found at i:30036708 original size:13 final size:13
Alignment explanation
Indices: 30036690--30036714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30036680 TCCATTGGCT
30036690 TTTCTAATAAAGG
1 TTTCTAATAAAGG
30036703 TTTCTAATAAAG
1 TTTCTAATAAAG
30036715 CAACTTAAAA
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:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTCTAATAAAGG
Found at i:30040619 original size:21 final size:21
Alignment explanation
Indices: 30040575--30040620 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
30040565 ATGCATGAAT
* *
30040575 TTAATTATTTGAAATTTACTA
1 TTAATTATTTAAAATTTACAA
*
30040596 TTAATTATTTAAAATTTTCAA
1 TTAATTATTTAAAATTTACAA
30040617 TTAA
1 TTAA
30040621 CAAATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTATTTAAAATTTACAA
Found at i:30044270 original size:15 final size:15
Alignment explanation
Indices: 30044246--30044276 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30044236 AACTTTATAT
30044246 ATATAAGTTATAATA
1 ATATAAGTTATAATA
*
30044261 ATATATGTTATAATA
1 ATATAAGTTATAATA
30044276 A
1 A
30044277 AAAAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTTATAATA
Found at i:30045188 original size:4 final size:4
Alignment explanation
Indices: 30045179--30045217 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
30045169 AATGTGCATA
30045179 TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
30045218 TTATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:30045604 original size:19 final size:19
Alignment explanation
Indices: 30045569--30045641 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
30045559 AAGATGGCAA
*
30045569 AGATGGGAAAT-AAATATG
1 AGATGAGAAATGAAATATG
30045587 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
* * *
30045606 AAATGATGAAATGAGATGTG
1 AGATGA-GAAATGAAATATG
*
30045626 A-ATTGTGAAATGAAAT
1 AGA-TGAGAAATGAAAT
30045642 CAAGTATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 10 0.22
19 22 0.48
20 14 0.30
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:30055557 original size:21 final size:21
Alignment explanation
Indices: 30055532--30055596 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
30055522 TAGCCTTCGG
30055532 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * * *
30055553 GCTTCAG-TTAGC-GTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
30055571 GCTTCCGTTTAGCACTTATTT
1 GCTTCCGTTTAGCACTTATGT
30055592 GCTTC
1 GCTTC
30055597 AGCTAGACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 7 0.22
19 7 0.22
20 7 0.22
21 11 0.34
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Done.