Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 111 of 295
Found at i:33375009 original size:29 final size:29
Alignment explanation
Indices: 33374976--33375039 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33374966 TAATCCACCA
33374976 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33375005 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33375035 CCCAA
1 CCCAA
33375040 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:33375013 original size:30 final size:30
Alignment explanation
Indices: 33374983--33375039 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33374973 CCACCCAACT
33374983 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33375012 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33375040 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33381860 original size:27 final size:27
Alignment explanation
Indices: 33381825--33381876 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33381815 CCACTGAATC
* *
33381825 GGGGAATCATCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
33381852 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
33381877 TTTCATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:33381950 original size:69 final size:71
Alignment explanation
Indices: 33381835--33381984 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
33381825 GGGGAATCAT
* *
33381835 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
33381899 ATATCG
66 ATATCG
***
33381905 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
33381969 GATATCG
65 GATATCG
33381976 CACTTAGCA
1 CACTTAGCA
33381985 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 20 0.27
70 23 0.32
71 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:33382088 original size:104 final size:103
Alignment explanation
Indices: 33381904--33382126 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
33381894 AATGGATATC
33381904 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
33381969 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
33382007 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33382072 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
33382111 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
33382127 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:33382487 original size:29 final size:29
Alignment explanation
Indices: 33382454--33382517 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33382444 TAATCCACCA
33382454 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33382483 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33382513 CCCAA
1 CCCAA
33382518 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:33382491 original size:30 final size:30
Alignment explanation
Indices: 33382461--33382517 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33382451 CCACCCAACT
33382461 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33382490 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33382518 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33389474 original size:104 final size:104
Alignment explanation
Indices: 33389352--33389575 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
33389342 AATGGATATC
33389352 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33389417 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
33389456 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33389521 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
33389560 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
33389576 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:33389937 original size:29 final size:29
Alignment explanation
Indices: 33389904--33389967 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33389894 TAATCCACCA
33389904 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33389933 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33389963 CCCAA
1 CCCAA
33389968 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:33389941 original size:30 final size:30
Alignment explanation
Indices: 33389911--33389967 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33389901 CCACCCAACT
33389911 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33389940 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33389968 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33396749 original size:26 final size:26
Alignment explanation
Indices: 33396713--33396764 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
33396703 CACCACTGAA
* *
33396713 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
33396739 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
33396765 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:33396838 original size:70 final size:71
Alignment explanation
Indices: 33396725--33396874 Score: 248
Period size: 70 Copynumber: 2.1 Consensus size: 71
33396715 GGGGAATCAT
* *
33396725 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
33396789 ATATCG
66 ATATCG
***
33396795 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
33396860 ATATCG
66 ATATCG
33396866 CACTTAGCA
1 CACTTAGCA
33396875 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 44 0.59
71 30 0.41
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
ATATCG
Found at i:33396978 original size:104 final size:103
Alignment explanation
Indices: 33396794--33397016 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
33396784 AATGGATATC
33396794 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
33396859 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
33396897 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33396962 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
33397001 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
33397017 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:33397378 original size:29 final size:29
Alignment explanation
Indices: 33397345--33397408 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33397335 TAATCCACCA
33397345 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33397374 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33397404 CCCAA
1 CCCAA
33397409 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:33397382 original size:30 final size:30
Alignment explanation
Indices: 33397352--33397408 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33397342 CCACCCAACT
33397352 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33397381 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33397409 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33399022 original size:21 final size:21
Alignment explanation
Indices: 33398996--33399037 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
33398986 AAATGATAGC
**
33398996 AAAAAAAAGTAAAA-AAAACA
1 AAAAAAAAACAAAACAAAACA
33399016 AAAAAAAAACAAAACAAAACA
1 AAAAAAAAACAAAACAAAACA
33399037 A
1 A
33399038 GAAAGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAAAAACAAAACAAAACA
Found at i:33408572 original size:19 final size:20
Alignment explanation
Indices: 33408548--33408586 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33408538 TACTAAACTG
33408548 GTTTTTAT-TAATTTATTAA
1 GTTTTTATGTAATTTATTAA
*
33408567 GTTTTTATGTATTTTATTAA
1 GTTTTTATGTAATTTATTAA
33408587 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (20 bp):
GTTTTTATGTAATTTATTAA
Found at i:33425490 original size:31 final size:28
Alignment explanation
Indices: 33425434--33425496 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
33425424 TAGATATTTA
*
33425434 TTATTTATTATTATTAAATAAAAGATGT
1 TTATTTATGATTATTAAATAAAAGATGT
* *
33425462 TTATTTGATGATTAATTAAATTATAAGATTT
1 TTATTT-ATGATT-ATTAAA-TAAAAGATGT
33425493 TTAT
1 TTAT
33425497 GAGGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 5 0.17
30 6 0.21
31 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (28 bp):
TTATTTATGATTATTAAATAAAAGATGT
Found at i:33427257 original size:12 final size:12
Alignment explanation
Indices: 33427234--33427264 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
33427224 TATGAGAAAG
33427234 TGAAATTATGAAT
1 TGAAA-TATGAAT
33427247 TGAAATATGAAT
1 TGAAATATGAAT
33427259 TGAAAT
1 TGAAAT
33427265 TGAGATATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:33427548 original size:14 final size:15
Alignment explanation
Indices: 33427529--33427562 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33427519 TTGAGATATA
33427529 GAAATAA-AATTTAT
1 GAAATAATAATTTAT
*
33427543 GAAATAATGATTTAT
1 GAAATAATAATTTAT
33427558 GAAAT
1 GAAAT
33427563 GGTTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
GAAATAATAATTTAT
Found at i:33431813 original size:261 final size:261
Alignment explanation
Indices: 33431349--33431870 Score: 990
Period size: 261 Copynumber: 2.0 Consensus size: 261
33431339 TCTGAACTCT
33431349 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCGCAAAGGTTCCAAACATTA
1 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCGCAAAGGTTCCAAACATTA
33431414 TGGAGCTACAAGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
66 TGGAGCTACAAGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
*
33431479 GGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTTAGCCTCTCCTCCTTAG
131 AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTTAGCCTCTCCTCCTTAG
33431544 CTACCCGATACGGGTCTAGATCTAGATGGCGCTATCCCTTGAACGAGATCTGGCTCATTACTTTC
196 CTACCCGATACGGGTCTAGATCTAGATGGCGCTATCCCTTGAACGAGATCTGGCTCATTACTTTC
33431609 A
261 A
33431610 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCGCAAAGGTTCCAAACATTA
1 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCGCAAAGGTTCCAAACATTA
* * *
33431675 TGGAGCTATAGGAACCGGTTGGGGATTAAGAGGGGATGGAGGCTGTTAAGCAGTCAAATTCATTT
66 TGGAGCTACAAGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
33431740 AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTTAGCCTCTCCTCCTTAG
131 AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTTAGCCTCTCCTCCTTAG
* *
33431805 TTACCCGATACGGGTCTAGATCTAGATGGCGCTGTCCCTTGAACGAGATCTGGCTCATTACTTTC
196 CTACCCGATACGGGTCTAGATCTAGATGGCGCTATCCCTTGAACGAGATCTGGCTCATTACTTTC
33431870 A
261 A
33431871 ACCTCATCAG
Statistics
Matches: 255, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 255 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (261 bp):
TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCGCAAAGGTTCCAAACATTA
TGGAGCTACAAGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTTAGCCTCTCCTCCTTAG
CTACCCGATACGGGTCTAGATCTAGATGGCGCTATCCCTTGAACGAGATCTGGCTCATTACTTTC
A
Found at i:33435755 original size:13 final size:12
Alignment explanation
Indices: 33435728--33435764 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
33435718 TTTCTCATTA
33435728 TTCTTTATTTCTT
1 TTCTTT-TTTCTT
33435741 TTCTTTTTTC-T
1 TTCTTTTTTCTT
33435752 TT-TTTTTTCTT
1 TTCTTTTTTCTT
33435763 TT
1 TT
33435765 TATCATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 6 0.26
12 4 0.17
13 6 0.26
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:33438608 original size:20 final size:19
Alignment explanation
Indices: 33438570--33438625 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
33438560 AAATAAAAAA
33438570 TTTATAA-TTTTAAATTTG
1 TTTATAATTTTTAAATTTG
*
33438588 TTTATAATTTTTATGATTTG
1 TTTATAATTTTTA-AATTTG
*
33438608 TTTATAATTTTAAAATTT
1 TTTATAATTTTTAAATTT
33438626 TAAAAGAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.21
19 9 0.27
20 17 0.52
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTAAATTTG
Found at i:33438617 original size:11 final size:11
Alignment explanation
Indices: 33438578--33438617 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
33438568 AATTTATAAT
33438578 TTTA-AATTTG
1 TTTATAATTTG
33438588 TTTATAA-TT-
1 TTTATAATTTG
*
33438597 TTTATGATTTG
1 TTTATAATTTG
33438608 TTTATAATTT
1 TTTATAATTT
33438618 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.24
10 8 0.32
11 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTATAATTTG
Found at i:33441365 original size:152 final size:152
Alignment explanation
Indices: 33441089--33441389 Score: 379
Period size: 152 Copynumber: 2.0 Consensus size: 152
33441079 GATGTGACAT
* *
33441089 TGATACATACACAGATGGGGTGAAATTTACTACATTCCATTCACCGAAGGTGCCAATTTCTAAAT
1 TGATACATACACAGAGGGGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAAT
* * * * * *
33441154 TTGGAAACTCAATTGACTTGCGATAACTTTTTAGATAGGATTCTAATATTTCTAGGTCAATATTT
66 TTGGAAAATCAATTGAATTGCGACAACTTTTTAGATAGGATACTAACATTTCTAGGTCAATATGT
*
33441219 CCTCATATCGATTGAAGATATG
131 CCTCATATCGATCGAAGATATG
* * * * * * * *
33441241 TGATACATATACGGAGGGGGTGAAATTTATTAAATTCCATTCATCGAAGGTGTCGATTTTTAAGT
1 TGATACATACACAGAGGGGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAAT
* * * *
33441306 TTGGAAAATCAATTGAATTGTGACAACTTTTTGGATTGGATAC-AGACATTTCTGGGTCAATATG
66 TTGGAAAATCAATTGAATTGCGACAACTTTTTAGATAGGATACTA-ACATTTCTAGGTCAATATG
* *
33441370 TCTTCATATTGATCGAAGAT
130 TCCTCATATCGATCGAAGAT
33441390 CTATCTCTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
151 1 0.01
152 124 0.99
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (152 bp):
TGATACATACACAGAGGGGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAAT
TTGGAAAATCAATTGAATTGCGACAACTTTTTAGATAGGATACTAACATTTCTAGGTCAATATGT
CCTCATATCGATCGAAGATATG
Found at i:33443763 original size:20 final size:20
Alignment explanation
Indices: 33443740--33443777 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33443730 CGATGCTTTT
**
33443740 TGTTAATTTTTAGTTTTTAG
1 TGTTAATTGGTAGTTTTTAG
33443760 TGTTAATTGGTAGTTTTT
1 TGTTAATTGGTAGTTTTT
33443778 CTTACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TGTTAATTGGTAGTTTTTAG
Found at i:33445084 original size:13 final size:14
Alignment explanation
Indices: 33445066--33445095 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33445056 CTATGTGTTC
33445066 TTTA-TTTTATTTT
1 TTTATTTTTATTTT
33445079 TTTATTTTTATTTT
1 TTTATTTTTATTTT
33445093 TTT
1 TTT
33445096 CACAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:33453940 original size:12 final size:12
Alignment explanation
Indices: 33453923--33453965 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
33453913 GAAATATAAA
33453923 ATTATTTAGTAC
1 ATTATTTAGTAC
* *
33453935 ATTATTGAGTAAG
1 ATTATTTAGT-AC
*
33453948 ATCATTTAGTAC
1 ATTATTTAGTAC
33453960 ATTATT
1 ATTATT
33453966 GAATATTTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (12 bp):
ATTATTTAGTAC
Found at i:33453941 original size:28 final size:27
Alignment explanation
Indices: 33453898--33453968 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
33453888 TACACTATTT
* *
33453898 TTTAGTAGAATTATTGAAATATAAAATTA
1 TTTAGTA-CATTATTGAAA-ATAAAATCA
* *
33453927 TTTAGTACATTATTG--AGTAAGATCA
1 TTTAGTACATTATTGAAAATAAAATCA
33453952 TTTAGTACATTATTGAA
1 TTTAGTACATTATTGAA
33453969 TATTTTGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 21 0.58
26 1 0.03
28 7 0.19
29 7 0.19
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (27 bp):
TTTAGTACATTATTGAAAATAAAATCA
Found at i:33457331 original size:24 final size:24
Alignment explanation
Indices: 33457298--33457353 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
33457288 TTTATTTTTA
33457298 TATAAA-TAAA-AAATAAAATTAAT
1 TATAAATTAAAGAAA-AAAATTAAT
*
33457321 TATAAATTAAAGGAAAAAATTAAT
1 TATAAATTAAAGAAAAAAATTAAT
*
33457345 T-TTAATTAA
1 TATAAATTAA
33457354 GGTAATCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 13 0.45
24 14 0.48
25 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
TATAAATTAAAGAAAAAAATTAAT
Found at i:33461357 original size:28 final size:28
Alignment explanation
Indices: 33461325--33461378 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
33461315 TTGTATGTGA
33461325 GTAAATATGTATTAGTTGAATAAGTTGT
1 GTAAATATGTATTAGTTGAATAAGTTGT
33461353 GTAAATATGTATTAGTTGAATAAGTT
1 GTAAATATGTATTAGTTGAATAAGTT
33461379 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (28 bp):
GTAAATATGTATTAGTTGAATAAGTTGT
Found at i:33470270 original size:64 final size:64
Alignment explanation
Indices: 33470169--33470296 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
33470159 TCCCAAGCTA
33470169 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTGGCTTGGCTTCTGTCACTTTCCTCTC
1 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTGGCTTGGCTTCTGTCACTTTCCTCTC
* * * *
33470233 CTTTGCATTCATTAGATGTCTCATCTGCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTGGCTTGGCTTCTGTCACTTTCCTCTC
33470297 AATCATCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.41
Consensus pattern (64 bp):
CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTGGCTTGGCTTCTGTCACTTTCCTCTC
Found at i:33471014 original size:13 final size:11
Alignment explanation
Indices: 33470997--33471027 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33470987 ATTTTCTATA
33470997 TATATATTTTT
1 TATATATTTTT
*
33471008 GATATATTTTT
1 TATATATTTTT
33471019 TATATATTT
1 TATATATTT
33471028 AAAAGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TATATATTTTT
Found at i:33473355 original size:32 final size:32
Alignment explanation
Indices: 33473289--33473356 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
33473279 TTTTTGTTAA
* *
33473289 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
33473321 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
33473353 TGTT
1 TGTT
33473357 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:33473382 original size:27 final size:27
Alignment explanation
Indices: 33473352--33473424 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
33473342 TGTCTTGATT
33473352 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
33473379 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
33473411 TTGTTGGATATTGA
1 TTGTTAGATATTGA
33473425 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:33473404 original size:32 final size:32
Alignment explanation
Indices: 33473365--33473425 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
33473355 TTAGATATTG
33473365 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
33473397 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
33473426 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:33474442 original size:22 final size:21
Alignment explanation
Indices: 33474414--33474475 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
33474404 GACAAAATTG
33474414 TTGTTATCATGTGGTGTAATA
1 TTGTTATCATGTGGTGTAATA
* *
33474435 TTAGTTATGCACT-TGG-ATAATG
1 TT-GTTAT-CA-TGTGGTGTAATA
*
33474457 TTGTTATTATGTGGTGTAA
1 TTGTTATCATGTGGTGTAA
33474476 CACTAATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
21 10 0.31
22 11 0.34
23 5 0.16
24 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (21 bp):
TTGTTATCATGTGGTGTAATA
Found at i:33474443 original size:46 final size:43
Alignment explanation
Indices: 33474376--33474475 Score: 155
Period size: 46 Copynumber: 2.3 Consensus size: 43
33474366 GATACTTTTA
33474376 ATGTGGTGTAATATTAGTTATGCACTTGGACAAAATTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGG--AAAA-TGTTGTTATC
* *
33474422 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTATT
1 ATGTGGTGTAATATTAGTTATGCACTTGGAAAATGTTGTTATC
33474465 ATGTGGTGTAA
1 ATGTGGTGTAA
33474476 CACTAATGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
43 20 0.38
44 3 0.06
46 29 0.56
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (43 bp):
ATGTGGTGTAATATTAGTTATGCACTTGGAAAATGTTGTTATC
Found at i:33474473 original size:43 final size:43
Alignment explanation
Indices: 33474376--33474498 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
33474366 GATACTTTTA
*
33474376 ATGTGGTGTAATATTAGTTATGCACTTGGACAAAATTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGG--ATAA-TGTTGTTATC
*
33474422 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTATT
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTATC
* * * * *
33474465 ATGTGGTGTAACACTAATGATGCATTTGGATAAT
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAAT
33474499 ATTATTAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
43 38 0.54
44 3 0.04
46 29 0.41
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (43 bp):
ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTATC
Found at i:33474685 original size:18 final size:19
Alignment explanation
Indices: 33474659--33474694 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33474649 TTGAGTATTA
33474659 TTATATATTTA-AAATAAT
1 TTATATATTTATAAATAAT
*
33474677 TTATTTATTTATAAATAA
1 TTATATATTTATAAATAA
33474695 ATCATTGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATATTTATAAATAAT
Found at i:33474930 original size:15 final size:14
Alignment explanation
Indices: 33474897--33474956 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
33474887 CCAGAAAAGT
* *
33474897 AAATCATTTTCCTG
1 AAATTATTTTCCAG
33474911 AAATTATTTTCCAAG
1 AAATTATTTTCC-AG
33474926 AAATTATTTTCCAG
1 AAATTATTTTCCAG
*
33474940 AAATTATTTTCCGG
1 AAATTATTTTCCAG
33474954 AAA
1 AAA
33474957 ACATTTTACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 29 0.69
15 13 0.31
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:33481405 original size:8 final size:8
Alignment explanation
Indices: 33481394--33481421 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33481384 TTAAAAATTC
33481394 AAAATAAT
1 AAAATAAT
33481402 AAAATAAT
1 AAAATAAT
33481410 AAAATAAT
1 AAAATAAT
33481418 AAAA
1 AAAA
33481422 GCTGATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:33482085 original size:16 final size:16
Alignment explanation
Indices: 33482059--33482092 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
33482049 ATCATAGTTT
33482059 AATTAATTTAAACCTTA
1 AATTAATTTAAA-CTTA
33482076 AATTAA-TTAAACTTA
1 AATTAATTTAAACTTA
33482091 AA
1 AA
33482093 ACCTTGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATTTAAACTTA
Found at i:33498266 original size:14 final size:15
Alignment explanation
Indices: 33498244--33498284 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
33498234 AACTAAATTA
33498244 TTAAAATTAATAAAT-
1 TTAAAATTAA-AAATG
33498259 TT-AAATTAAAAATG
1 TTAAAATTAAAAATG
33498273 TTAAAATTAAAA
1 TTAAAATTAAAA
33498285 TTGTGTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAAAATTAAAAATG
Found at i:33498745 original size:169 final size:165
Alignment explanation
Indices: 33498489--33498789 Score: 383
Period size: 169 Copynumber: 1.8 Consensus size: 165
33498479 AAATTTAAGC
* *
33498489 TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAGAGAAACTTTTA
1 TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAAAGAAAATTTTA
* * * * *
33498554 AATTTAAACTAAATACTAAAATTAAAAAATTTAAATTTCGAATTTAAAATAA-AAATATTAAAAT
66 AATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAAAAATAAAAAATAAAAT
33498618 TAAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
131 TAAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
* * *
33498653 TTTAAACTATA-TTTTTAAAGGATAAATAAGAAAACATATTACTT-AAATTAAATTTTAAATGAA
1 TTTAAACTATATTTTTTAAAGGAGAAAT-A-AAAACATATTATTTGAAA-T--A-TATAAA-GAA
* * * * *
33498716 AATTTTAACTTTAAACTAAATATTAAAATTAATAATTTTAAACTTATAATTTAAAAAAATAAAAA
59 AATTTTAAATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAAAAATAAAAA
33498781 ATAAAATTA
124 ATAAAATTA
33498790 TGTTACGGAT
Statistics
Matches: 114, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
163 15 0.13
164 15 0.13
165 14 0.12
167 1 0.01
168 4 0.04
169 53 0.46
170 12 0.11
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (165 bp):
TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAAAGAAAATTTTA
AATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAAAAATAAAAAATAAAAT
TAAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
Found at i:33498776 original size:27 final size:27
Alignment explanation
Indices: 33498725--33498777 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
33498715 AAATTTTAAC
*
33498725 TTTAAACTAAATATTAAAATTAATAAT
1 TTTAAACTAAATATTAAAATAAATAAT
33498752 TTTAAACTTATAAT-TTAAAA-AAATAA
1 TTTAAAC-TA-AATATTAAAATAAATAA
33498778 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 12 0.52
28 8 0.35
29 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAAACTAAATATTAAAATAAATAAT
Found at i:33500459 original size:24 final size:24
Alignment explanation
Indices: 33500421--33500482 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
33500411 ATATTTTTTT
*
33500421 AAAAATTATACATAAAAAATA-CTA
1 AAAAATTA-AAATAAAAAATATCTA
* *
33500445 AAAATATTAAAATAAATATTATCTA
1 AAAA-ATTAAAATAAAAAATATCTA
*
33500470 ACAAATTAAAATA
1 AAAAATTAAAATA
33500483 TATATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 22 0.69
25 10 0.31
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAATTAAAATAAAAAATATCTA
Found at i:33500667 original size:31 final size:31
Alignment explanation
Indices: 33500629--33500689 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
33500619 TCTTAAATGG
* *
33500629 TAGCAAAATAGTGAA-AAAAAGAAGAAGAAAA
1 TAGCAAAAAAGT-AATAAAAAGAACAAGAAAA
33500660 TAGCAAAAAAGTAATAAAAAGAACAAGAAA
1 TAGCAAAAAAGTAATAAAAAGAACAAGAAA
33500690 GCAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.69, C:0.05, G:0.16, T:0.10
Consensus pattern (31 bp):
TAGCAAAAAAGTAATAAAAAGAACAAGAAAA
Found at i:33501324 original size:31 final size:29
Alignment explanation
Indices: 33501260--33501324 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
33501250 ACATTTTGCG
* * *
33501260 TATAAAATTGCACAAAATCAAAGTTAATA
1 TATAAAATTACACAAAAACAAAATTAATA
*
33501289 TATAAAATTACACAATAAACTAAAATTCATA
1 TATAAAATTACACAA-AAAC-AAAATTAATA
33501320 TATAA
1 TATAA
33501325 TTTTGAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 3 0.10
31 13 0.43
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (29 bp):
TATAAAATTACACAAAAACAAAATTAATA
Found at i:33504674 original size:4 final size:4
Alignment explanation
Indices: 33504667--33504699 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
33504657 GTGTGTTGTT
*
33504667 TGTA TGTA TGTA TGTA TGTT TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
33504700 ATACGGATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (4 bp):
TGTA
Found at i:33507560 original size:20 final size:20
Alignment explanation
Indices: 33507531--33507584 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
33507521 AACAGGAGTC
33507531 ACACGCCCATGTGGTTTGGG
1 ACACGCCCATGTGGTTTGGG
* *
33507551 ACATGCCCATATGGTTTGGG
1 ACACGCCCATGTGGTTTGGG
*
33507571 ACACGCCCGTGTGG
1 ACACGCCCATGTGG
33507585 GCAAGTTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.24
Consensus pattern (20 bp):
ACACGCCCATGTGGTTTGGG
Found at i:33510239 original size:4 final size:4
Alignment explanation
Indices: 33510230--33510446 Score: 163
Period size: 4 Copynumber: 55.2 Consensus size: 4
33510220 ACAGGATTTT
* *
33510230 TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * ** * * * **
33510278 TATA TGTA TGCA TGCA TACA TGTA --TA TATA TGTA TGCA TGCA TACA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * *
33510324 TGCA TATA TGAA TGCA TATA TGTA TGTA TGGA TGCA TGCA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
33510372 TATA TGTA TGTA TG-- TGTG TGTA TGTA TGTA TGTA TGTA TGTA TATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
33510418 TGTA TGTA TGTA TGTA TGCA TGCA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
33510447 ATTTGTGTGT
Statistics
Matches: 179, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
2 4 0.02
4 175 0.98
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.43
Consensus pattern (4 bp):
TGTA
Found at i:33510303 original size:26 final size:26
Alignment explanation
Indices: 33510274--33510332 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
33510264 TATGTATGTA
33510274 TATATATATGTATGCATGCATACATG
1 TATATATATGTATGCATGCATACATG
33510300 TATATATATGTATGCATGCATACATG
1 TATATATATGTATGCATGCATACATG
*
33510326 CATATAT
1 TATATAT
33510333 GAATGCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (26 bp):
TATATATATGTATGCATGCATACATG
Found at i:33513263 original size:165 final size:165
Alignment explanation
Indices: 33512991--33513314 Score: 639
Period size: 165 Copynumber: 2.0 Consensus size: 165
33512981 ATTCGTGCAT
*
33512991 CTCGACCGTCGTGATAATTATCAATGGCACCTTGACATGCCAGACATTGCGATTAGCCAAAAATT
1 CTCGACCGTCATGATAATTATCAATGGCACCTTGACATGCCAGACATTGCGATTAGCCAAAAATT
33513056 TGATCGGGATGTATTCTTGAATTCTCGGATCACTGTTAGAATCCATTTAAAATATAGTACGAAAT
66 TGATCGGGATGTATTCTTGAATTCTCGGATCACTGTTAGAATCCATTTAAAATATAGTACGAAAT
33513121 TATAAAATTTATTAAATAACTAATATTAATGGCAC
131 TATAAAATTTATTAAATAACTAATATTAATGGCAC
33513156 CTCGACCGTCATGATAATTATCAATGGCACCTTGACATGCCAGACATTGCGATTAGCCAAAAATT
1 CTCGACCGTCATGATAATTATCAATGGCACCTTGACATGCCAGACATTGCGATTAGCCAAAAATT
33513221 TGATCGGGATGTATTCTTGAATTCTCGGATCACTGTTAGAATCCATTTAAAATATAGTACGAAAT
66 TGATCGGGATGTATTCTTGAATTCTCGGATCACTGTTAGAATCCATTTAAAATATAGTACGAAAT
33513286 TATAAAATTTATTAAATAACTAATATTAA
131 TATAAAATTTATTAAATAACTAATATTAA
33513315 ATTTCAAATC
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 158 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (165 bp):
CTCGACCGTCATGATAATTATCAATGGCACCTTGACATGCCAGACATTGCGATTAGCCAAAAATT
TGATCGGGATGTATTCTTGAATTCTCGGATCACTGTTAGAATCCATTTAAAATATAGTACGAAAT
TATAAAATTTATTAAATAACTAATATTAATGGCAC
Found at i:33515340 original size:17 final size:17
Alignment explanation
Indices: 33515318--33515411 Score: 56
Period size: 17 Copynumber: 5.5 Consensus size: 17
33515308 ATTTTAATAG
33515318 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
33515335 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* ** *
33515352 --TAGTATTTTA-TTGA
1 TTTAATATTAAATTTAA
33515366 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T--TTAA
33515385 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
33515403 TTTAATATT
1 TTTAATATT
33515412 GATCTTGTAG
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
14 5 0.08
15 4 0.07
16 10 0.17
17 21 0.35
18 4 0.07
19 3 0.05
20 13 0.22
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:33517814 original size:70 final size:71
Alignment explanation
Indices: 33517681--33517824 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 71
33517671 AATGTTTTTA
*
33517681 AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAACATACTTTAAA
1 AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTT-AA
*
33517746 AGTAATT
65 AGAAATT
* * * **
33517753 AATAAAACTT-G-AAAAAATTACTTAATACATAAAATATTACTTCAAGCATGAAAATGTTTTAAA
1 AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTTAAA
33517816 GAAATT
66 GAAATT
33517822 AAT
1 AAT
33517825 TCATTTAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 11 0.17
70 43 0.66
71 1 0.02
72 10 0.15
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (71 bp):
AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTTAAA
GAAATT
Found at i:33526426 original size:19 final size:18
Alignment explanation
Indices: 33526398--33526436 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
33526388 TGCAATGCTA
33526398 TAAATATAAATATAAAATT
1 TAAATATAAAT-TAAAATT
* *
33526417 TAAATTTAAATTTAAATT
1 TAAATATAAATTAAAATT
33526435 TA
1 TA
33526437 TTAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATATAAATTAAAATT
Found at i:33526434 original size:6 final size:6
Alignment explanation
Indices: 33526398--33526436 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
33526388 TGCAATGCTA
* *
33526398 TAAATA TAAATAT AAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAAT-T TAAATT TAAATT TAAATT TAAATT TA
33526437 TTAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:33526927 original size:17 final size:18
Alignment explanation
Indices: 33526907--33526951 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
33526897 ATTTTTAAAA
33526907 AAAATTAAAAACT-TATG
1 AAAATTAAAAACTCTATG
* *
33526924 AAAAATAAAAACTCTTTG
1 AAAATTAAAAACTCTATG
33526942 -AAATTAAAAA
1 AAAATTAAAAA
33526952 AAATACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAATTAAAAACTCTATG
Found at i:33535190 original size:43 final size:43
Alignment explanation
Indices: 33535123--33535208 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
33535113 TCAAACAAAC
* *
33535123 TAAACATAAAAATTTCACAAAAATTTAAATATT-ACTAACAATT
1 TAAACATAAAAATTTCACAAAAATTAAAAT-TTCAATAACAATT
33535166 TAAACATAAAAA-TTC-CAAGCAAATTAAAATTTCAATAACAATT
1 TAAACATAAAAATTTCACAA--AAATTAAAATTTCAATAACAATT
33535209 CCAGACAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 3 0.08
42 5 0.13
43 30 0.79
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (43 bp):
TAAACATAAAAATTTCACAAAAATTAAAATTTCAATAACAATT
Found at i:33536404 original size:15 final size:15
Alignment explanation
Indices: 33536384--33536413 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33536374 CAAGAATGGG
33536384 TTTACAAGTAACGAA
1 TTTACAAGTAACGAA
33536399 TTTACAAGTAACGAA
1 TTTACAAGTAACGAA
33536414 ACCAACCAAT
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:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
TTTACAAGTAACGAA
Found at i:33538510 original size:22 final size:22
Alignment explanation
Indices: 33538483--33538524 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33538473 TTAACCCAAA
33538483 TCAATTACCCAAATAATTAAAC
1 TCAATTACCCAAATAATTAAAC
* *
33538505 TCAATTACCCCATTAATTAA
1 TCAATTACCCAAATAATTAA
33538525 TCAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (22 bp):
TCAATTACCCAAATAATTAAAC
Found at i:33539577 original size:12 final size:12
Alignment explanation
Indices: 33539560--33539585 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33539550 TCACTGATGG
33539560 TGATGAGATGAT
1 TGATGAGATGAT
33539572 TGATGAGATGAT
1 TGATGAGATGAT
33539584 TG
1 TG
33539586 TCCATCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (12 bp):
TGATGAGATGAT
Found at i:33540913 original size:25 final size:25
Alignment explanation
Indices: 33540892--33540938 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33540882 TTTTATATTA
33540892 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAATATAATT
33540917 ATATTAATATTAAATAAA-ATAA
1 ATATTAATATTAAATAAATATAA
33540939 AAATCCCGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAATT
Found at i:33547292 original size:307 final size:307
Alignment explanation
Indices: 33546731--33547347 Score: 1225
Period size: 307 Copynumber: 2.0 Consensus size: 307
33546721 AAGCTTTCAT
*
33546731 CAAGCTTCAACAAAGCCGGTGGATGATTCTTGGTAAAGAAGAGAAATTCTCTTTCATTCCATGAA
1 CAAGCTACAACAAAGCCGGTGGATGATTCTTGGTAAAGAAGAGAAATTCTCTTTCATTCCATGAA
33546796 CTTTTCCTTTTATACTAAATTTAAGTTAATTAAATCAATTAATTAAACATTAGATTAATATTAAT
66 CTTTTCCTTTTATACTAAATTTAAGTTAATTAAATCAATTAATTAAACATTAGATTAATATTAAT
33546861 CACACTTAAGAAATATAACACTATCGTTCACTTTAACATGTTCAAGATGGTTTATTTTCCATTTT
131 CACACTTAAGAAATATAACACTATCGTTCACTTTAACATGTTCAAGATGGTTTATTTTCCATTTT
33546926 AGACCATTGGTTAATTGCAACTTTAAGTCCCTATGATTTTGGCCAATTAAAAACTTATAGTGATA
196 AGACCATTGGTTAATTGCAACTTTAAGTCCCTATGATTTTGGCCAATTAAAAACTTATAGTGATA
33546991 AGACTTTTACAATTTAGTCCCTGTACCTTAATTAAGTAATTAATAGA
261 AGACTTTTACAATTTAGTCCCTGTACCTTAATTAAGTAATTAATAGA
33547038 CAAGCTACAACAAAGCCGGTGGATGATTCTTGGTAAAGAAGAGAAATTCTCTTTCATTCCATGAA
1 CAAGCTACAACAAAGCCGGTGGATGATTCTTGGTAAAGAAGAGAAATTCTCTTTCATTCCATGAA
33547103 CTTTTCCTTTTATACTAAATTTAAGTTAATTAAATCAATTAATTAAACATTAGATTAATATTAAT
66 CTTTTCCTTTTATACTAAATTTAAGTTAATTAAATCAATTAATTAAACATTAGATTAATATTAAT
33547168 CACACTTAAGAAATATAACACTATCGTTCACTTTAACATGTTCAAGATGGTTTATTTTCCATTTT
131 CACACTTAAGAAATATAACACTATCGTTCACTTTAACATGTTCAAGATGGTTTATTTTCCATTTT
33547233 AGACCATTGGTTAATTGCAACTTTAAGTCCCTATGATTTTGGCCAATTAAAAACTTATAGTGATA
196 AGACCATTGGTTAATTGCAACTTTAAGTCCCTATGATTTTGGCCAATTAAAAACTTATAGTGATA
33547298 AGACTTTTACAATTTAGTCCCTGTACCTTAATTAAGTAATTAATAGA
261 AGACTTTTACAATTTAGTCCCTGTACCTTAATTAAGTAATTAATAGA
33547345 CAA
1 CAA
33547348 AACTAAGGAC
Statistics
Matches: 309, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
307 309 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (307 bp):
CAAGCTACAACAAAGCCGGTGGATGATTCTTGGTAAAGAAGAGAAATTCTCTTTCATTCCATGAA
CTTTTCCTTTTATACTAAATTTAAGTTAATTAAATCAATTAATTAAACATTAGATTAATATTAAT
CACACTTAAGAAATATAACACTATCGTTCACTTTAACATGTTCAAGATGGTTTATTTTCCATTTT
AGACCATTGGTTAATTGCAACTTTAAGTCCCTATGATTTTGGCCAATTAAAAACTTATAGTGATA
AGACTTTTACAATTTAGTCCCTGTACCTTAATTAAGTAATTAATAGA
Found at i:33550039 original size:31 final size:31
Alignment explanation
Indices: 33550001--33550066 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
33549991 GTTAAAATGG
**
33550001 GCCCATGCAGCCTGCTTATGTGGCCCCAGAC
1 GCCCATGCAGCCTGCCCATGTGGCCCCAGAC
*
33550032 GCCCATGCAGCCTGCCCGTGTGGCCCCAGAC
1 GCCCATGCAGCCTGCCCATGTGGCCCCAGAC
33550063 GCCC
1 GCCC
33550067 GTATGGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.14, C:0.44, G:0.27, T:0.15
Consensus pattern (31 bp):
GCCCATGCAGCCTGCCCATGTGGCCCCAGAC
Found at i:33554706 original size:40 final size:40
Alignment explanation
Indices: 33554662--33554741 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
33554652 GTTACAAGTA
33554662 AGAAATTTATTGTCAGTCGTTTCAATAATTATCAAATGGT
1 AGAAATTTATTGTCAGTCGTTTCAATAATTATCAAATGGT
33554702 AGAAATTTATTGTCAGTCGTTTCAATAATTATCAAATGGT
1 AGAAATTTATTGTCAGTCGTTTCAATAATTATCAAATGGT
33554742 TGATGGTCGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (40 bp):
AGAAATTTATTGTCAGTCGTTTCAATAATTATCAAATGGT
Found at i:33558355 original size:18 final size:18
Alignment explanation
Indices: 33558332--33558367 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33558322 ATAAAATAAA
33558332 AAAATTAA-AATATATATT
1 AAAATTAAGAAT-TATATT
33558350 AAAATTAAGAATTATATT
1 AAAATTAAGAATTATATT
33558368 TTTTGAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATTAAGAATTATATT
Found at i:33565001 original size:20 final size:20
Alignment explanation
Indices: 33564976--33565013 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33564966 CTCTTTGCCA
33564976 TTTCTTTCTT-TCTTTTTCTT
1 TTTCTTT-TTCTCTTTTTCTT
33564996 TTTCTTTTTCTCTTTTTC
1 TTTCTTTTTCTCTTTTTC
33565014 CCAAACACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTCTCTTTTTCTT
Found at i:33567801 original size:29 final size:29
Alignment explanation
Indices: 33567761--33567849 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 29
33567751 AATGTATGTG
*
33567761 TATATACAATATATATGTGGGTTTTGTTA
1 TATATATAATATATATGTGGGTTTTGTTA
* *
33567790 TATATATAATATATAAATACGTGGGTCTTGATA
1 TATATATAATATAT--AT--GTGGGTTTTGTTA
* *
33567823 TATA-ATATATATGTATATGGGTTTTGT
1 TATATATA-ATATATATGTGGGTTTTGT
33567850 AGTGCTTGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
29 21 0.44
31 4 0.08
32 3 0.06
33 20 0.42
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (29 bp):
TATATATAATATATATGTGGGTTTTGTTA
Found at i:33579466 original size:47 final size:48
Alignment explanation
Indices: 33579403--33579498 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 48
33579393 AAACAAAATA
* *
33579403 TTGTTGACAAATTCAACTAGCTGAAGAT-TTTATTGTTGTAAAAACAT
1 TTGTTGACAAATTCAACTAGCTGAAGATGGTTATTGTGGTAAAAACAT
* *
33579450 TTGTTGACAAATTCAACTAGTTGAAGATGGTTATTGTGGTAAGAACAT
1 TTGTTGACAAATTCAACTAGCTGAAGATGGTTATTGTGGTAAAAACAT
33579498 T
1 T
33579499 GACTTGGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 27 0.61
48 17 0.39
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (48 bp):
TTGTTGACAAATTCAACTAGCTGAAGATGGTTATTGTGGTAAAAACAT
Found at i:33579996 original size:29 final size:29
Alignment explanation
Indices: 33579954--33580012 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
33579944 CACGCTCGTG
33579954 TGCCATGGCCATGGGAAAACTAGGAAGGT
1 TGCCATGGCCATGGGAAAACTAGGAAGGT
33579983 TGCCATGGCCATGGGAAAACTAGGAAGGT
1 TGCCATGGCCATGGGAAAACTAGGAAGGT
33580012 T
1 T
33580013 ACTAACTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.19
Consensus pattern (29 bp):
TGCCATGGCCATGGGAAAACTAGGAAGGT
Found at i:33584977 original size:26 final size:27
Alignment explanation
Indices: 33584917--33584969 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
33584907 CAAAATTGAT
* *
33584917 AAATGACTGTTATGCCCCTATGAGGTA
1 AAATGACTCTTATGCCCCTATGAGATA
*
33584944 AAATGACTCTTATGCCCTTATGAGAT
1 AAATGACTCTTATGCCCCTATGAGAT
33584970 GTATGACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
AAATGACTCTTATGCCCCTATGAGATA
Found at i:33585136 original size:66 final size:66
Alignment explanation
Indices: 33585030--33585161 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
33585020 TATTATGATA
*
33585030 TGTTGCATGGGGATGAGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTGTAATT
1 TGTTGCATGGGGATGAGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
33585095 T
66 T
33585096 TGTTGCATGGGGATGAGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
1 TGTTGCATGGGGATGAGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
33585161 T
66 T
33585162 CTATTTAGTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (66 bp):
TGTTGCATGGGGATGAGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
T
Found at i:33596672 original size:15 final size:16
Alignment explanation
Indices: 33596646--33596691 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
33596636 CGAATTTTAG
*
33596646 AAATTTATAAATA-AA
1 AAATTTAAAAATATAA
*
33596661 ATATTTAAAAATATAA
1 AAATTTAAAAATATAA
*
33596677 AAATTCAAAAA-ATAA
1 AAATTTAAAAATATAA
33596692 TGAATCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATATAA
Found at i:33601697 original size:14 final size:14
Alignment explanation
Indices: 33601678--33601708 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33601668 TTTAAAGAAA
33601678 AATCTTATAGTACC
1 AATCTTATAGTACC
*
33601692 AATCTTATAGTGCC
1 AATCTTATAGTACC
33601706 AAT
1 AAT
33601709 TAAAATAAAA
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:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (14 bp):
AATCTTATAGTACC
Found at i:33613398 original size:14 final size:15
Alignment explanation
Indices: 33613379--33613416 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
33613369 GTTTGCCAGT
33613379 AAAATATTTTTC-GA
1 AAAATATTTTTCTGA
33613393 AAAATA-TTTTCTGA
1 AAAATATTTTTCTGA
33613407 AAAATGATTT
1 AAAAT-ATTT
33613417 ACTTTTCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 13 0.62
15 1 0.05
16 2 0.10
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (15 bp):
AAAATATTTTTCTGA
Found at i:33621576 original size:26 final size:26
Alignment explanation
Indices: 33621546--33621601 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
33621536 GACCCTGTGA
33621546 AGAGGAATGAGATTTGCCTGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAG
33621572 AGAGGAATGAGATTTGCCTGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAG
33621598 AGAG
1 AGAG
33621602 AAAGAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.36, T:0.18
Consensus pattern (26 bp):
AGAGGAATGAGATTTGCCTGAGAAAG
Found at i:33631046 original size:20 final size:20
Alignment explanation
Indices: 33631021--33631058 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33631011 TTATTATTTT
*
33631021 TTGAAAGTTGAGTGACTAAA
1 TTGAAAATTGAGTGACTAAA
33631041 TTGAAAATTGAGTGACTA
1 TTGAAAATTGAGTGACTA
33631059 TTGGTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (20 bp):
TTGAAAATTGAGTGACTAAA
Found at i:33631454 original size:21 final size:19
Alignment explanation
Indices: 33631429--33631472 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
33631419 CAACTAATTT
33631429 AAAAATTATAAAAATATTCAA
1 AAAAATTATAAAAATA--CAA
*
33631450 AAAAATTTTAAAAATACAA
1 AAAAATTATAAAAATACAA
33631469 AAAA
1 AAAA
33631473 CATAGCATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
21 15 0.68
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAAAATACAA
Found at i:33633948 original size:25 final size:23
Alignment explanation
Indices: 33633919--33633984 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 23
33633909 TACAATATTC
33633919 TATTTTTATAATTTTTAATATCTTA
1 TATTTTTATAATTTTT-ATAT-TTA
*
33633944 TATTTATATAATTTTCTATATTTA
1 TATTTTTATAATTTT-TATATTTA
33633968 TACTTTTCT-TAATTTTT
1 TA-TTTT-TATAATTTTT
33633985 TTGATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 6 0.17
25 28 0.78
26 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTTTTATAATTTTTATATTTA
Found at i:33635539 original size:18 final size:18
Alignment explanation
Indices: 33635513--33635586 Score: 130
Period size: 18 Copynumber: 4.1 Consensus size: 18
33635503 ATTGTTTCTC
*
33635513 AAAAGTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
33635531 AAAATTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
33635549 AAAATTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
*
33635567 AAAATTGCTTTTGAGCAA
1 AAAATTGCTTTTGGGCAA
33635585 AA
1 AA
33635587 GCTAAAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (18 bp):
AAAATTGCTTTTGGGCAA
Found at i:33636434 original size:13 final size:12
Alignment explanation
Indices: 33636400--33636435 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
33636390 AGGTTTCTTA
*
33636400 AAATGGAAATGG
1 AAATAGAAATGG
33636412 AAATAGAAATGG
1 AAATAGAAATGG
33636424 AAATAAGAAATG
1 AAAT-AGAAATG
33636436 ATATATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (12 bp):
AAATAGAAATGG
Found at i:33637932 original size:64 final size:64
Alignment explanation
Indices: 33637853--33637982 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
33637843 TGAGTCCGGG
33637853 ATTATAGCTGGATGCTGAGTCGATGATCGAATCGCTAAGTGCCTAACCTGTACACGAAAAAACA
1 ATTATAGCTGGATGCTGAGTCGATGATCGAATCGCTAAGTGCCTAACCTGTACACGAAAAAACA
33637917 ATTATAGCTGGATGCTGAGTCGATGATCGAATCGCTAAGTGCCTAACCTGTACACGAAAAAACA
1 ATTATAGCTGGATGCTGAGTCGATGATCGAATCGCTAAGTGCCTAACCTGTACACGAAAAAACA
33637981 AT
1 AT
33637983 ACCGTACTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (64 bp):
ATTATAGCTGGATGCTGAGTCGATGATCGAATCGCTAAGTGCCTAACCTGTACACGAAAAAACA
Found at i:33645206 original size:46 final size:47
Alignment explanation
Indices: 33645142--33645270 Score: 188
Period size: 46 Copynumber: 2.8 Consensus size: 47
33645132 GTGCGAATAA
* * * *
33645142 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGTGA-GAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
33645188 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
* * *
33645235 TATCTTGATTTGGCTACGGGACATGGTATAGATACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
33645271 TATCAAATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
46 39 0.52
47 36 0.48
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
Found at i:33646307 original size:18 final size:18
Alignment explanation
Indices: 33646284--33646327 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
33646274 AACCAATATG
33646284 TCAATCATAATTTGCATT
1 TCAATCATAATTTGCATT
33646302 TCAATCATAATTTGCATT
1 TCAATCATAATTTGCATT
33646320 TCACATCA
1 TCA-ATCA
33646328 CAAATATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (18 bp):
TCAATCATAATTTGCATT
Found at i:33647770 original size:43 final size:44
Alignment explanation
Indices: 33647715--33647844 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 44
33647705 ATATCATACA
*
33647715 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACATATCG
* * *
33647758 CTGCC-ACTGTCCCAGAAAG-GGTTTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAG-ACGTGGTCTTACATCGTAAACACATATCG
* *
33647801 ATGCCAACATCCCAGACGTGGTCTTACA-C-AAGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATCGTA-AACACATATCG
33647844 A
1 A
33647845 AAATCCTATT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
42 6 0.08
43 61 0.86
44 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACATATCG
Found at i:33648077 original size:10 final size:9
Alignment explanation
Indices: 33648061--33648106 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
33648051 ACTAAACCCC
33648061 TAAACCCAT
1 TAAACCCAT
33648070 TAAAACCC-T
1 T-AAACCCAT
33648079 T-AACCCAT
1 TAAACCCAT
*
33648087 CAAACCCACT
1 TAAACCCA-T
33648097 TAAACCCAT
1 TAAACCCAT
33648106 T
1 T
33648107 TATATCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 5 0.16
8 1 0.03
9 11 0.35
10 14 0.45
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAACCCAT
Found at i:33648078 original size:17 final size:17
Alignment explanation
Indices: 33648053--33648106 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
33648043 ACATTACAAC
33648053 TAAACCCCTAAACCCAT
1 TAAACCCCTAAACCCAT
* *
33648070 TAAAACCCTTAACCCAT
1 TAAACCCCTAAACCCAT
*
33648087 CAAACCCACTTAAACCCAT
1 TAAACCC-C-TAAACCCAT
33648106 T
1 T
33648107 TATATCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 20 0.69
18 1 0.03
19 8 0.28
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAACCCCTAAACCCAT
Found at i:33648734 original size:28 final size:28
Alignment explanation
Indices: 33648690--33648754 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
33648680 ACCTGCAGAG
* **
33648690 AAAAAAAAAGAAGAGAAAGGA-AATTTA
1 AAAAAAAAAGAAAAGAAAAAAGAATTTA
33648717 AAAAAAAAAGCAAAAGAAAAAATGAATTTA
1 AAAAAAAAAG-AAAAGAAAAAA-GAATTTA
33648747 AAAAAAAA
1 AAAAAAAA
33648755 TCTGACTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 8 0.25
30 14 0.44
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (28 bp):
AAAAAAAAAGAAAAGAAAAAAGAATTTA
Found at i:33649191 original size:15 final size:14
Alignment explanation
Indices: 33649173--33649225 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 14
33649163 ATATTATTAT
33649173 TATTATTATTTCTAA
1 TATTATTATTT-TAA
33649188 TATTATTAAGTTTATCAA
1 TATTATT-A-TTT-T-AA
33649206 TATTATTATTTTATA
1 TATTATTATTTTA-A
33649221 TATTA
1 TATTA
33649226 GTATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.03
15 14 0.42
16 4 0.12
17 5 0.15
18 9 0.27
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTATTATTTTAA
Found at i:33649250 original size:18 final size:19
Alignment explanation
Indices: 33649212--33649252 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
33649202 TCAATATTAT
33649212 TATTTTATATATTAGTATA
1 TATTTTATATATTAGTATA
33649231 TATTTTAT-TATATA-TATA
1 TATTTTATATAT-TAGTATA
33649249 TATT
1 TATT
33649253 GTAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATTTTATATATTAGTATA
Found at i:33649532 original size:33 final size:33
Alignment explanation
Indices: 33649495--33649570 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
33649485 TACATAGTCT
* * *
33649495 TATTT-TTATTACTTTATTTCAATATTTTTGTTA
1 TATTTATTATTAC-GTATTTCAATATATTTATTA
* * *
33649528 TATTTGTTTTTTCGTATTTCAATATATTTATTA
1 TATTTATTATTACGTATTTCAATATATTTATTA
33649561 TATTTATTAT
1 TATTTATTAT
33649571 ATAGTAGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (33 bp):
TATTTATTATTACGTATTTCAATATATTTATTA
Found at i:33649676 original size:22 final size:22
Alignment explanation
Indices: 33649645--33649713 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
33649635 TTTAATTACT
33649645 TTATTATTTTTATTATATTTTA
1 TTATTATTTTTATTATATTTTA
* * *
33649667 TTATTCTTTTTTTTGTATTTTA
1 TTATTATTTTTATTATATTTTA
* ** *
33649689 ATATTATTACTATTAT-TATTA
1 TTATTATTTTTATTATATTTTA
33649710 TTAT
1 TTAT
33649714 CATTGTTAAT
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTATTTTTATTATATTTTA
Found at i:33649762 original size:18 final size:18
Alignment explanation
Indices: 33649741--33649782 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33649731 ATATTTTTGT
* *
33649741 TATATGTATGTATGTATG
1 TATATATATATATGTATG
*
33649759 TATATATATATATGTATT
1 TATATATATATATGTATG
33649777 TATATA
1 TATATA
33649783 ATAGTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (18 bp):
TATATATATATATGTATG
Found at i:33649789 original size:14 final size:16
Alignment explanation
Indices: 33649751--33649791 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
33649741 TATATGTATG
33649751 TATGTATGTATATATATA
1 TATGTAT-T-TATATATA
33649769 TATGTATTTATATA-A
1 TATGTATTTATATATA
33649784 TA-GTATTT
1 TATGTATTT
33649792 TCGGTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 3 0.13
16 6 0.26
17 1 0.04
18 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (16 bp):
TATGTATTTATATATA
Found at i:33649893 original size:3 final size:3
Alignment explanation
Indices: 33649885--33649909 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33649875 CTTAATTTAT
33649885 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
33649910 CACTATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33650133 original size:23 final size:23
Alignment explanation
Indices: 33650106--33650162 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
33650096 ATCTTTTTAG
33650106 TATGTACATATTTTCAATACTAT
1 TATGTACATATTTTCAATACTAT
* * *
33650129 TATGTAAATACTTTTCATTCCTAT
1 TATGTACATA-TTTTCAATACTAT
33650153 TAT-TACATAT
1 TATGTACATAT
33650163 ATACTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 14 0.48
24 14 0.48
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (23 bp):
TATGTACATATTTTCAATACTAT
Found at i:33650145 original size:24 final size:23
Alignment explanation
Indices: 33650106--33650155 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
33650096 ATCTTTTTAG
*
33650106 TATGTACATATTTTCAATACTAT
1 TATGTAAATATTTTCAATACTAT
* *
33650129 TATGTAAATACTTTTCATTCCTAT
1 TATGTAAATA-TTTTCAATACTAT
33650153 TAT
1 TAT
33650156 TACATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (23 bp):
TATGTAAATATTTTCAATACTAT
Found at i:33652583 original size:26 final size:26
Alignment explanation
Indices: 33652554--33652661 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33652544 TGGTACAAAT
33652554 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33652580 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33652606 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33652632 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33652658 TGAT
1 TGAT
33652662 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33655221 original size:39 final size:40
Alignment explanation
Indices: 33655124--33655226 Score: 154
Period size: 39 Copynumber: 2.6 Consensus size: 40
33655114 AGCCCGGTTA
* * *
33655124 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCAGAAT
* *
33655164 TAGTAACTCGCACCAATGCCTTCGAG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCAGAAT
33655203 TAGTAACTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCG
33655227 GATCTTAGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCAGAAT
Found at i:33655264 original size:79 final size:80
Alignment explanation
Indices: 33655124--33655277 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 80
33655114 AGCCCGGTTA
* * *
33655124 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGA
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGA
33655189 G-CTTAGCCCAGAAT
66 GACTTAGCCCAGAAT
** * *
33655203 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
*
33655266 GGGACTTAGCCC
64 GAGACTTAGCCC
33655278 GGACATCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.77
80 12 0.19
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGA
GACTTAGCCCAGAAT
Found at i:33655280 original size:40 final size:40
Alignment explanation
Indices: 33655077--33655280 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
33655067 CGGAATTTAA
** *
33655077 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33655117 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33655157 CCGGATTTAGTAACTCGCACCAATGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33655196 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33655236 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33655276 CCGGA
1 CCGGA
33655281 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33656477 original size:56 final size:56
Alignment explanation
Indices: 33656410--33656641 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
33656400 TATTAGTTTA
33656410 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
33656466 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
33656522 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
33656578 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
33656634 TTGCCCAT
1 TTGCCCAT
33656642 CATCCCTTGT
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:33658839 original size:73 final size:72
Alignment explanation
Indices: 33658744--33658903 Score: 250
Period size: 73 Copynumber: 2.2 Consensus size: 72
33658734 TGATGTTTTT
33658744 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGG
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CACGCTGAGG
33658808 TAATTTCA
65 TAATTTCA
* *
33658816 ATTTCTTTTTGTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGG
*
33658881 TATTTTCA
65 TAATTTCA
*
33658889 ATGTCTGCTTTTCAA
1 ATTTCTG-TTTTCAA
33658904 TTTCTGCTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
72 9 0.11
73 65 0.81
74 6 0.08
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGT
AATTTCA
Found at i:33658902 original size:14 final size:14
Alignment explanation
Indices: 33658883--33658917 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33658873 CGCTGAGGTA
33658883 TTTTCAATGTCTGC
1 TTTTCAATGTCTGC
*
33658897 TTTTCAATTTCTGC
1 TTTTCAATGTCTGC
33658911 TTTTCAA
1 TTTTCAA
33658918 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (14 bp):
TTTTCAATGTCTGC
Found at i:33659146 original size:94 final size:91
Alignment explanation
Indices: 33658829--33659269 Score: 462
Period size: 94 Copynumber: 4.8 Consensus size: 91
33658819 TCTTTTTGTC
* *
33658829 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGG--CACGCTGAGGTATTTTC-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGTACATGCTGAGGTATTTTCAAAT
* * * *
33658891 GTCTGCTTTTCAATTTCTGCT-T--TTCAA
65 -TCTG-TTTTTAATTTAT-TTATAGTTTAA
* *
33658918 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTCAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAAATT
*
33658982 CTGTTTTTATTAATTTATTTATATTTTAA
66 CTG--TTT-TTAATTTATTTATAGTTTAA
33659011 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TACATGCT-GAGGTATTTTCAAA
33659075 TTCTGTTTTTATTTATTTATTTATA-TTTAA
64 TTCTGTTTTTA---ATTTATTTATAGTTTAA
33659105 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TACATGCT-GAGGTATTTTCAAA
* * *
33659169 ATCTGCTTTTCAA---A-TTA-AGTTTCA
64 TTCTG-TTTTTAATTTATTTATAGTTTAA
* * * * * * *
33659193 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGGCTCATATGCTGAGTTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-ACATGCTGAGGTATTTTCAAAT
33659258 TCTGTTTTTAAT
65 TCTGTTTTTAAT
33659270 GTCTGTTTTT
Statistics
Matches: 313, Mismatches: 21, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
87 8 0.03
88 66 0.21
89 60 0.19
90 7 0.02
91 8 0.03
92 4 0.01
93 47 0.15
94 74 0.24
95 39 0.12
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (91 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAAATT
CTGTTTTTAATTTATTTATAGTTTAA
Found at i:33659205 original size:182 final size:185
Alignment explanation
Indices: 33658829--33659267 Score: 469
Period size: 182 Copynumber: 2.4 Consensus size: 185
33658819 TCTTTTTGTC
* * * *
33658829 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAG-GCAC--GCTGAGGTATTTTC-AA
1 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCG-GCTCACATGCTGAGGTATTTTCAAA
* * * *
33658890 TGTCTGCTTTTCA---ATTTCTGCT-T-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
65 T-TCTG-TTTTTATTTATTTAT-TTATATTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
33658950 AGCCTCAGGACACGCTGAGGTATTTTCAAATTCTGTTTTTATTAATTTATTTATATTTTAA
127 AGCCTCAGGACACGCTGAGGTATTTTCAAAATCTGTCTTTATCAA--TATTTATAGTTTAA
* * * *
33659011 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGCTCACATGCT-GAGGTATTTTCAAA
33659075 TTCTGTTTTTATTTATTTATTTATATTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
65 TTCTGTTTTTATTTATTTATTTATATTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
33659140 CTCGGGTTACATG-TCGAGGTATTTTCAAAATCTG-CTTT-TCAA-A-TTA-AGTTTCA
130 CTCAGG--ACACGCT-GAGGTATTTTCAAAATCTGTCTTTATCAATATTTATAGTTTAA
* * * *
33659193 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGGCTCATATGCTGAGTTATTTTCAATT
1 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAAAT
33659258 TCTGTTTTTA
66 TCTGTTTTTA
33659268 ATGTCTGTTT
Statistics
Matches: 221, Mismatches: 22, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
181 1 0.00
182 110 0.50
183 10 0.05
184 17 0.08
185 4 0.02
186 6 0.03
187 47 0.21
188 4 0.02
189 22 0.10
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (185 bp):
AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAAAT
TCTGTTTTTATTTATTTATTTATATTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGACACGCTGAGGTATTTTCAAAATCTGTCTTTATCAATATTTATAGTTTAA
Found at i:33659830 original size:17 final size:17
Alignment explanation
Indices: 33659805--33659838 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33659795 ATATTACAAC
*
33659805 TAAACCCCTAAACCCAT
1 TAAAACCCTAAACCCAT
*
33659822 TAAAACCCTTAACCCAT
1 TAAAACCCTAAACCCAT
33659839 CAGACCCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAACCCTAAACCCAT
Found at i:33660473 original size:30 final size:31
Alignment explanation
Indices: 33660437--33660500 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
33660427 ACCTGCAGAG
33660437 AAAAAAAAG--AAGAGAAAGAA-AATTTAAAA
1 AAAAAAAAGCAAAG-GAAAGAAGAATTTAAAA
33660466 AAAAAAAAGCAAAGGAAAGAATGAATTTAAAA
1 AAAAAAAAGCAAAGGAAAGAA-GAATTTAAAA
33660498 AAA
1 AAA
33660501 CAATTTGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 9 0.29
30 7 0.23
31 3 0.10
32 12 0.39
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (31 bp):
AAAAAAAAGCAAAGGAAAGAAGAATTTAAAA
Found at i:33661300 original size:116 final size:114
Alignment explanation
Indices: 33661008--33661300 Score: 285
Period size: 116 Copynumber: 2.5 Consensus size: 114
33660998 TATTGTAGTG
* * * *
33661008 TTTTCTATTACTTCATTTTTATATTTTGTTATATTTGCTTTTTTTGCATTACAATATTATTATAT
1 TTTT-TATTACTTTATTTTAATATTTTGTTATATTTGC-TTTTTTGTATTTCAATA-TATTATAT
* * *
33661073 ATGAGTGTATATGTTTTTATGTACGTATATGTATATATATTTATATAGCCTTA
63 ATGAGTGTATATCTTTTTATATAC-TATATGTATATATATTTACATAGCCTTA
* * ** *
33661126 TTTTTATCA-TTT-TTTTAATATTTTATTATACGTGCTTTTTTGTTACTATT-ATTAATATTATA
1 TTTTTATTACTTTATTTTAATATTTTGTTATATTTGCTTTTTTG-TA-T-TTCAAT-ATATTATA
*
33661188 TAAT-AGTGTATA-CTTTTTATCATA-TATATGTATATATATATGTACATAGTCTTA
62 T-ATGAGTGTATATCTTTTTAT-ATACTATATGTATATATAT-T-TACATAGCCTTA
*
33661242 TTTTTATTACTTTATTTCAATATTTTTGTTATATTTG-TTTTTTCGTATTTCAATATATT
1 TTTTTATTACTTTATTTTAATA-TTTTGTTATATTTGCTTTTTT-GTATTTCAATATATT
33661301 TATTATATTT
Statistics
Matches: 143, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
114 22 0.15
115 28 0.20
116 48 0.34
117 14 0.10
118 19 0.13
119 12 0.08
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (114 bp):
TTTTTATTACTTTATTTTAATATTTTGTTATATTTGCTTTTTTGTATTTCAATATATTATATATG
AGTGTATATCTTTTTATATACTATATGTATATATATTTACATAGCCTTA
Found at i:33661394 original size:19 final size:19
Alignment explanation
Indices: 33661371--33661413 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33661361 ATATAATATG
33661371 ATTTTTAAT-TACTTTATT
1 ATTTTTAATATACTTTATT
* *
33661389 ATTTTTAGTATATTTTATT
1 ATTTTTAATATACTTTATT
33661408 ATTTTT
1 ATTTTT
33661414 TTATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTAATATACTTTATT
Found at i:33661409 original size:3 final size:3
Alignment explanation
Indices: 33661384--33661451 Score: 56
Period size: 3 Copynumber: 24.3 Consensus size: 3
33661374 TTTAATTACT
* * * *
33661384 TTA TTA TTT TTA GTA -TA TT- TTA TTA TT- TTT TTA -TA TT- TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
33661427 TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
33661452 CATTGTTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
2 10 0.19
3 42 0.81
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33661418 original size:18 final size:19
Alignment explanation
Indices: 33661352--33661449 Score: 76
Period size: 18 Copynumber: 5.2 Consensus size: 19
33661342 TGTGTATATA
**
33661352 TATTTTTA-TATATAATAT
1 TATTTTTAGTATATTTTAT
* * *
33661370 GATTTTTAAT-TACTTTAT
1 TATTTTTAGTATATTTTAT
33661388 TATTTTTAGTATATTTTAT
1 TATTTTTAGTATATTTTAT
* *
33661407 TATTTTT-TTATATTTTAA
1 TATTTTTAGTATATTTTAT
* *
33661425 TATTATTACTATTATTATTAT
1 TATTTTTAGTA-TATT-TTAT
33661446 TATT
1 TATT
33661450 ATCATTGTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
18 35 0.56
19 17 0.27
20 4 0.06
21 7 0.11
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTAGTATATTTTAT
Found at i:33661504 original size:16 final size:16
Alignment explanation
Indices: 33661479--33661514 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33661469 ATATTTTTGT
*
33661479 TATATGTATGTATGTA
1 TATATATATGTATGTA
*
33661495 TATATATATGTATTTA
1 TATATATATGTATGTA
33661511 TATA
1 TATA
33661515 ATAGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TATATATATGTATGTA
Found at i:33661915 original size:23 final size:23
Alignment explanation
Indices: 33661888--33661944 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
33661878 ATCTTTTTAG
33661888 TATGTACATATTTTCAATACTAT
1 TATGTACATATTTTCAATACTAT
* * *
33661911 TATGTAAATACTTTTCATTCCTAT
1 TATGTACATA-TTTTCAATACTAT
33661935 TAT-TACATAT
1 TATGTACATAT
33661945 ATACTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 14 0.48
24 14 0.48
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (23 bp):
TATGTACATATTTTCAATACTAT
Found at i:33661927 original size:24 final size:23
Alignment explanation
Indices: 33661888--33661937 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
33661878 ATCTTTTTAG
*
33661888 TATGTACATATTTTCAATACTAT
1 TATGTAAATATTTTCAATACTAT
* *
33661911 TATGTAAATACTTTTCATTCCTAT
1 TATGTAAATA-TTTTCAATACTAT
33661935 TAT
1 TAT
33661938 TACATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (23 bp):
TATGTAAATATTTTCAATACTAT
Found at i:33662990 original size:27 final size:27
Alignment explanation
Indices: 33662946--33663078 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
33662936 GTCATCAAAT
*
33662946 ACAGATAT-TGTGGTAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
33662972 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
33662999 TCAGATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
33663026 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
33663053 TCAGATA-ATTGTGGTATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
33663079 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.11
27 82 0.88
28 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:33663079 original size:54 final size:54
Alignment explanation
Indices: 33662947--33663081 Score: 236
Period size: 54 Copynumber: 2.5 Consensus size: 54
33662937 TCATCAAATA
* *
33662947 CAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
*
33663000 CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
33663054 CAGATAATTGTGGTATAGCCACCAGGAC
1 CAGATAATTGTGGTATAGCCACCAGGAC
33663082 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (54 bp):
CAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
Found at i:33671053 original size:27 final size:27
Alignment explanation
Indices: 33671023--33671190 Score: 191
Period size: 27 Copynumber: 6.2 Consensus size: 27
33671013 GTGATGAAGT
*
33671023 CACCAGATACGGAT-ATTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
*
33671050 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCAGAGC
* *
33671077 TACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
* *
33671104 CACCAGGA-CAAAT-ATATGTGACAGAGC
1 CACCA-GATCAGATAAT-TGTGGCAGAGC
*
33671131 CACTAGATCAGATAATTGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
* *
33671158 CACTAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
33671185 CACCAG
1 CACCAG
33671191 GACGCTTCCT
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.08
27 105 0.87
28 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Done.