Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 54 of 84
Found at i:12389105 original size:15 final size:15
Alignment explanation
Indices: 12389082--12389140 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 15
12389072 TGCATTAATA
12389082 AAAAAAAATTAAAAT
1 AAAAAAAATTAAAAT
* *
12389097 AACAAAAATAATAATAT
1 AA-AAAAA-ATTAAAAT
12389114 AAAAAAAATTAGAAAAT
1 AAAAAAAATT--AAAAT
*
12389131 TAAAAAAATT
1 AAAAAAAATT
12389141 TTTTTTTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 4 0.11
16 10 0.29
17 21 0.60
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAAAAAATTAAAAT
Found at i:12389130 original size:34 final size:31
Alignment explanation
Indices: 12389077--12389139 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 31
12389067 TATCATGCAT
12389077 TAATAAAAAAAAATTAAAA-TAACAAAAATAA
1 TAATAAAAAAAAATTAAAATTAA-AAAAATAA
12389108 TAATATAAAAAAAATTAGAAAATTAAAAAAAT
1 TAATA-AAAAAAAATT--AAAATTAAAAAAAT
12389140 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 5 0.18
32 10 0.36
34 10 0.36
35 3 0.11
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (31 bp):
TAATAAAAAAAAATTAAAATTAAAAAAATAA
Found at i:12390081 original size:11 final size:11
Alignment explanation
Indices: 12390065--12390095 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
12390055 GGGATTTGGA
12390065 TGGCTGTAGGG
1 TGGCTGTAGGG
12390076 TGGCTGTA-GG
1 TGGCTGTAGGG
12390086 TGGCTGTAGG
1 TGGCTGTAGG
12390096 CTGGTGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.10, C:0.10, G:0.52, T:0.29
Consensus pattern (11 bp):
TGGCTGTAGGG
Found at i:12390248 original size:3 final size:3
Alignment explanation
Indices: 12390242--12390294 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
12390232 ATTTTTTAAA
** *
12390242 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12390290 ATT AT
1 ATT AT
12390295 ATTGAAATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:12390712 original size:85 final size:87
Alignment explanation
Indices: 12390527--12390715 Score: 222
Period size: 85 Copynumber: 2.2 Consensus size: 87
12390517 CTTACAAATC
* *
12390527 ATGCCCGGAGGTCTTACAGAATCGACTGGAATAATACCGTAAGTTAAAAAATAAGAAATCGATCG
1 ATGCCCGGAGGTCTTACAGAATCGACTGAAATAACACCGTAAG-TAAAAAATAAGAAATCGATCG
* ** *
12390592 GGATAACACCGTGAATCGAATTT
65 AGATAACACCACGAATCAAATTT
* * * * *
12390615 ATGCCCGAAGGTCTTACAGAATTGA-TCGAAATAACACCGTAA-TCAGAAATAA-AAATTGATCG
1 ATGCCCGGAGGTCTTACAGAATCGACT-GAAATAACACCGTAAGTAAAAAATAAGAAATCGATCG
12390677 AGATAACACCACGAATCAAATTT
65 AGATAACACCACGAATCAAATTT
* *
12390700 ATTCTCGGAGGTCTTA
1 ATGCCCGGAGGTCTTA
12390716 GAAATAATGC
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
85 41 0.48
86 8 0.09
87 1 0.01
88 36 0.42
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (87 bp):
ATGCCCGGAGGTCTTACAGAATCGACTGAAATAACACCGTAAGTAAAAAATAAGAAATCGATCGA
GATAACACCACGAATCAAATTT
Found at i:12390851 original size:108 final size:108
Alignment explanation
Indices: 12390619--12390955 Score: 339
Period size: 109 Copynumber: 3.1 Consensus size: 108
12390609 GAATTTATGC
* * * *
12390619 CCGAAGGTCTTACAGAATTGATCGAAATAACACCGTAA-TCAGAAAT-AAAAATTGATC-GAGAT
1 CCGAAGGTCTTACAGAATTGATCGAGATAACACCGCAAGTCAAAAATAAAAAATCGATCAG-GAT
* *
12390681 AACACCACGAATC-AAATTTATTCTCGGAGGTCTTAGAAATAATG
65 AACACCGCGAATCGAAA-TTATGCTCGGAGGTCTTAGAAATAATG
* * *
12390725 CCTGGAGGTCTTATAGAATTGATCGAGATAACACCGCAAGTCAAAAATAAAAAATCGATCAGGAC
1 CC-GAAGGTCTTACAGAATTGATCGAGATAACACCGCAAGTCAAAAATAAAAAATCGATCAGGAT
* *
12390790 AATACCGCGAATCGAAATTATGCGCGGAGGTCTTAG-AATAATG
65 AACACCGCGAATCGAAATTATGCTCGGAGGTCTTAGAAATAATG
* * ** * * *
12390833 CTCGAAGATCTTACAGAATTGA-CTGGGATAACACAACAAGTTAAAAAATAAAGAATCAAT-AGG
1 C-CGAAGGTCTTACAGAATTGATC-GAGATAACACCGCAAG-TCAAAAATAAAAAATCGATCA-G
** *
12390896 GATAACACCGTAAATCGAAATTATGCTCGGAGGTCTT-GAAAGTTATG
62 GATAACACCGCGAATCGAAATTATGCTCGGAGGTCTTAGAAA-TAATG
*
12390943 CTCGGAGGTCTTA
1 C-CGAAGGTCTTA
12390956 TAGATTATGT
Statistics
Matches: 192, Mismatches: 28, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
106 2 0.01
107 33 0.17
108 46 0.24
109 92 0.48
110 19 0.10
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (108 bp):
CCGAAGGTCTTACAGAATTGATCGAGATAACACCGCAAGTCAAAAATAAAAAATCGATCAGGATA
ACACCGCGAATCGAAATTATGCTCGGAGGTCTTAGAAATAATG
Found at i:12390963 original size:22 final size:23
Alignment explanation
Indices: 12390915--12390964 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
12390905 GTAAATCGAA
12390915 ATTATGCTCGGAGGTCTTGAAAG
1 ATTATGCTCGGAGGTCTTGAAAG
*
12390938 -TTATGCTCGGAGGTCTT-ATAG
1 ATTATGCTCGGAGGTCTTGAAAG
12390959 ATTATG
1 ATTATG
12390965 TTTAGAGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (23 bp):
ATTATGCTCGGAGGTCTTGAAAG
Found at i:12391180 original size:121 final size:122
Alignment explanation
Indices: 12390970--12391278 Score: 496
Period size: 121 Copynumber: 2.5 Consensus size: 122
12390960 TTATGTTTAG
* * *
12390970 AGGTCTTACAAATCTTAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATAAAACTTT-AAAAT
1 AGGTCTTACAAATCTCAAAATCTTTGAATGCTCATCATAATCAGAGGCAATGAAACTTTAAAAAT
* * **
12391034 TTGAAAATATTTTAATCTTGAAAGTCGTGTGCAGAGGTTTTTAGAGATTATGCCCGA
66 TTGAAAATATTCTAATCTTGAAAGTCGTGCGCAGAGACTTTTAGAGATTATGCCCGA
*
12391091 AGGTCTTACAAATCTCAAAATCTTTGAATGCTCATCATAATCAGAGGCAATGAAATTTTAAAAAT
1 AGGTCTTACAAATCTCAAAATCTTTGAATGCTCATCATAATCAGAGGCAATGAAACTTTAAAAAT
* *
12391156 TTGAAAATCTTCTAATCTTG-AAGTCGTGCGCAGAGACTTTTAGAGATTATTCCCGA
66 TTGAAAATATTCTAATCTTGAAAGTCGTGCGCAGAGACTTTTAGAGATTATGCCCGA
* *
12391212 AGGTCTTACAAATCTCAAAATCTTTAAATGCTCATTATAATCAGAGGCAATGAAACTTTAAAAAT
1 AGGTCTTACAAATCTCAAAATCTTTGAATGCTCATCATAATCAGAGGCAATGAAACTTTAAAAAT
12391277 TT
66 TT
12391279 TAATTTTTTT
Statistics
Matches: 174, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
121 151 0.87
122 23 0.13
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (122 bp):
AGGTCTTACAAATCTCAAAATCTTTGAATGCTCATCATAATCAGAGGCAATGAAACTTTAAAAAT
TTGAAAATATTCTAATCTTGAAAGTCGTGCGCAGAGACTTTTAGAGATTATGCCCGA
Found at i:12391917 original size:66 final size:66
Alignment explanation
Indices: 12391804--12392376 Score: 658
Period size: 66 Copynumber: 8.7 Consensus size: 66
12391794 TTGGGGTAAA
* * * * * *
12391804 ATAAACTGGGCTTAAA-TTTTATTGAAGGCCAGTTAAACTGGGCTTAAAACCTCATTTGAGGTCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
12391868 G
66 G
* * * *
12391869 ATAAACTGGGTTTAAAACTTCATTGATGGCCAGATAAGCTGGGCTT-AAA-TGTCA-TTGATGAC
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACT-TCATTTGA-GGC
12391931 CAG
64 CAG
* * * *
12391934 ATAAACTGGGCTTAAAGTTTCATTGATGGCCACATAAACTGAGCTTAAATCTTCATTTGAGGCCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
*
12391999 A
66 G
* * * *
12392000 ATAAACTGGGCTTAAAGCTTCATTGATGGTCGGATAAACTGTGCTT-AAA-TGTCA-TTGATGAC
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACT-TCATTTGA-GGC
12392062 CAG
64 CAG
* * ** * * *
12392065 ATAAACTGGGCTAAAAGTTTCATTGATGGTAAGATAAACTGAGCTTAAATCTTCATTTGAAGCCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
12392130 G
66 G
* * * * *
12392131 ATAAACTAGGCCTAAAGCTTCATTAATGGCCAGATAAACTGAGCTTAAAACTTCATTTGAGGTCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
12392196 G
66 G
* * * * * *
12392197 ATAAACTGAGCTTGAAGCTTCATTGATGGTCAGATAAACTGGGCTT-AAATTTTATTTAAGGCCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
*
12392261 A
66 G
* * *
12392262 ATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGAGGCCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
*
12392327 A
66 G
* *
12392328 ATAAATTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGTTTAAA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAA
12392377 GTTTTTTTTT
Statistics
Matches: 431, Mismatches: 65, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
64 9 0.02
65 174 0.40
66 238 0.55
67 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (66 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTTGAGGCCA
G
Found at i:12392021 original size:131 final size:131
Alignment explanation
Indices: 12391804--12392368 Score: 690
Period size: 131 Copynumber: 4.3 Consensus size: 131
12391794 TTGGGGTAAA
* * * * * * *
12391804 ATAAACTGGGCTTAAA-TTTTATTGAAGGCCAGTTAAACTGGGCTTAAAACCTCATTTGAGGTCA
1 ATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATCTTCATTTGAGGCCA
* * * *
12391868 GATAAACTGGGTTTAAAACTTCATTGATGGCCAGATAAGCTGGGCTTAAATGTCA-TTGATGACC
66 AATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAATGTCATTTGA-GACC
12391932 AG
130 AG
*
12391934 ATAAACTGGGCTTAAAGTTTCATTGATGGCCACATAAACTGAGCTTAAATCTTCATTTGAGGCCA
1 ATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATCTTCATTTGAGGCCA
* * *
12391999 AATAAACTGGGCTTAAAGCTTCATTGATGGTCGGATAAACTGTGCTTAAATGTCA-TTGATGACC
66 AATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAATGTCATTTGA-GACC
12392063 AG
130 AG
* ** *
12392065 ATAAACTGGGCTAAAAGTTTCATTGATGGTAAGATAAACTGAGCTTAAATCTTCATTTGAAGCCA
1 ATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATCTTCATTTGAGGCCA
* * * * * **
12392130 GATAAACTAGGCCTAAAGCTTCATTAATGGCCAGATAAACTGAGCTTAAAACT-TCATTTGAGGT
66 AATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTT-AAA-TGTCATTTGAGAC
12392194 CAG
129 CAG
* * * * * * *
12392197 ATAAACTGAGCTTGAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAAT-TTTATTTAAGGCCA
1 ATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATCTTCATTTGAGGCCA
* * * *
12392261 AATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGAGGCC
66 AATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAT-GTCATTTGAGACC
*
12392326 AA
130 AG
* *
12392328 ATAAATTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTG
1 ATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTG
12392369 GGTTTAAAGT
Statistics
Matches: 378, Mismatches: 51, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
129 1 0.00
130 19 0.05
131 299 0.79
132 54 0.14
133 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (131 bp):
ATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATCTTCATTTGAGGCCA
AATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAATGTCATTTGAGACCA
G
Found at i:12392187 original size:197 final size:197
Alignment explanation
Indices: 12391802--12392368 Score: 694
Period size: 197 Copynumber: 2.9 Consensus size: 197
12391792 TTTTGGGGTA
* * * * * * ** *
12391802 AAATAAACTGGGCTTAAA-TTTTATTGAAGGCCAGTTAAACTGGGCTTAAAACCTCATTTG-AGG
1 AAATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTT-AAATGTCA-TTGAAGA
* * * * *
12391865 TCAGATAAACTGGGTTTAAAA-CTTCATTGATGGCCAGATAAGCTGGGCTTAAAT-GTCA-TTGA
64 CCAGATAAACTGGG-CTAAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGA
* * * *
12391927 TGACCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCACATAAACTGAGCTTAAATCTTCATTT
128 AG-CCAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGAGCTTAAAACTTCATTT
12391992 GAGGCC
192 GAGGCC
* * * *
12391998 AAATAAACTGGGCTTAAAGCTTCATTGATGGTCGGATAAACTGTGCTTAAATGTCATTGATGACC
1 AAATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATGTCATTGAAGACC
* * *
12392063 AGATAAACTGGGCTAAAAGTTTCATTGATGGTAAGATAAACTGAGCTTAAATCTTCATTTGAAGC
66 AGATAAACTGGGCTAAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGAAGC
* * *
12392128 CAGATAAACTAGGCCTAAAGCTTCATTAATGGCCAGATAAACTGAGCTTAAAACTTCATTTGAGG
131 CAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGAGCTTAAAACTTCATTTGAGG
*
12392193 TC
196 CC
* * * * * *
12392195 AGATAAACTGAGCTTGAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATTTTATTTAAGGCC
1 AAATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATGTCATTGAAGACC
* * * *
12392260 AAATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGAGGC
66 AGATAAACTGGGCTAAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGAAGC
* *
12392325 CAAATAAATTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTG
131 CAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTG
12392369 GGTTTAAAGT
Statistics
Matches: 317, Mismatches: 49, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
195 8 0.03
196 66 0.21
197 238 0.75
198 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (197 bp):
AAATAAACTGAGCTTAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATGTCATTGAAGACC
AGATAAACTGGGCTAAAAGCTTCATTGATGGTCAGATAAACTGGGCTTAAATCTTCATTTGAAGC
CAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGAGCTTAAAACTTCATTTGAGG
CC
Found at i:12392377 original size:33 final size:33
Alignment explanation
Indices: 12391804--12392377 Score: 585
Period size: 33 Copynumber: 17.5 Consensus size: 33
12391794 TTGGGGTAAA
* * *
12391804 ATAAACTGGGCTTAAA-TTTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * * *
12391836 TTAAACTGGGCTTAAAACCTCATTTGA-GGTCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* *
12391869 ATAAACTGGGTTTAAAACTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
12391902 ATAAGCTGGGCTTAAA--TGTCATTGATGACCAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
* *
12391934 ATAAACTGGGCTTAAAGTTTCATTGATGGCCAC
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
12391967 ATAAACTGAGCTTAAATCTTCATTTGA-GGCCAA
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* *
12392000 ATAAACTGGGCTTAAAGCTTCATTGATGGTCGG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
12392033 ATAAACTGTGCTTAAA--TGTCATTGATGACCAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
* * **
12392065 ATAAACTGGGCTAAAAGTTTCATTGATGGTAAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
12392098 ATAAACTGAGCTTAAATCTTCATTTGA-AGCCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* * *
12392131 ATAAACTAGGCCTAAAGCTTCATTAATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
12392164 ATAAACTGAGCTTAAAACTTCATTTGA-GGTCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* * *
12392197 ATAAACTGAGCTTGAAGCTTCATTGATGGTCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * * * *
12392230 ATAAACTGGGCTTAAA-TTTTATTTAAGGCCAA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
12392262 ATAAACTGAGCTTAAAGCTTCATTGATGGTCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
12392295 ATAAACTGGGCTTAAATCTTCATTTGA-GGCCAA
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
*
12392328 ATAAATTGGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
*
12392361 ATAAACTGGGTTTAAAG
1 ATAAACTGGGCTTAAAG
12392378 TTTTTTTTTT
Statistics
Matches: 446, Mismatches: 78, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
31 2 0.00
32 112 0.25
33 311 0.70
34 21 0.05
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
Found at i:12392557 original size:24 final size:23
Alignment explanation
Indices: 12392523--12392567 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
12392513 GATTGTAAAA
*
12392523 ATTTTTATTCATTTTTATTATAG
1 ATTTTTATTCATATTTATTATAG
12392546 ATTTTTATTTCATATTTATTAT
1 ATTTTTA-TTCATATTTATTAT
12392568 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTTTATTCATATTTATTATAG
Found at i:12395323 original size:60 final size:58
Alignment explanation
Indices: 12395230--12395537 Score: 456
Period size: 58 Copynumber: 5.2 Consensus size: 58
12395220 GTTGGGATCT
*
12395230 GTATCAATTTTTCTTGAAAATAAGGTTTTCAAAAACAATATTTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTGAAAATAA-ATTTTCAAAAA-AATATTTTTGAGGAAAAGTTGAAA
12395290 GTATCAATTTTTCTTGAAAATAAGATTTTCAAAAACAATATTTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTGAAAATAA-ATTTTCAAAAA-AATATTTTTGAGGAAAAGTTGAAA
* * * * *
12395350 GTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGAGAAAAAGTTGAAA
1 GTATCAATTTTTCTTGAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAA
* * *
12395408 GTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATTTTTTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTGAAAATAAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAA
* *
12395467 GTATCAATTTTTCTCGAAATTAAAGTTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTGAAAATAAA-TTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAA
12395525 GTATCAATTTTTC
1 GTATCAATTTTTC
12395538 CTACCCAAAA
Statistics
Matches: 227, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 87 0.38
59 55 0.24
60 85 0.37
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (58 bp):
GTATCAATTTTTCTTGAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAA
Found at i:12395471 original size:117 final size:118
Alignment explanation
Indices: 12395230--12395535 Score: 490
Period size: 117 Copynumber: 2.6 Consensus size: 118
12395220 GTTGGGATCT
* * * *
12395230 GTATCAATTTTTCTTGAAAATAAGGTTTTCAAAAACAATATTTTTGAGGAAAAGTTGAAAGTATC
1 GTATCAATTTTTCTCGAAATTAAAG-TTTCCAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATC
* *
12395295 AATTTTTCTTGAAAATAAGATTTTCAAAAACAATATTTTTGAGGAAAAGTTGAAA
64 AATTTTCCTTAAAAATAAGATTTTCAAAAACAATATTTTTGAGGAAAAGTTGAAA
*
12395350 GTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA
1 GTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
*
12395415 TTTTCCTTAAAAATAA-ATTTTCAAAAA-AATTTTTTTTGAGGAAAAGTTGAAA
66 TTTTCCTTAAAAATAAGATTTTCAAAAACAA-TATTTTTGAGGAAAAGTTGAAA
*
12395467 GTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
1 GTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
12395532 TTTT
66 TTTT
12395536 TCCTACCCAA
Statistics
Matches: 175, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
116 2 0.01
117 99 0.57
118 44 0.25
119 8 0.05
120 22 0.13
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (118 bp):
GTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
TTTTCCTTAAAAATAAGATTTTCAAAAACAATATTTTTGAGGAAAAGTTGAAA
Found at i:12400333 original size:11 final size:10
Alignment explanation
Indices: 12400331--12400395 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 10
12400321 AAATGAGAAA
12400331 AAAAAAAGA-
1 AAAAAAAGAG
*
12400340 AAAAAAAAAG
1 AAAAAAAGAG
12400350 AAAAAAAGATG
1 AAAAAAAGA-G
* *
12400361 ATAAAAAAAAT
1 A-AAAAAAGAG
12400372 AAAAAAAG-G
1 AAAAAAAGAG
12400381 AAAAAAATGAG
1 AAAAAAA-GAG
12400392 AAAA
1 AAAA
12400396 TAAAAAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 15 0.33
10 15 0.33
11 8 0.18
12 7 0.16
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:12400343 original size:12 final size:11
Alignment explanation
Indices: 12400326--12400378 Score: 70
Period size: 11 Copynumber: 4.8 Consensus size: 11
12400316 ATGAAAAATG
12400326 AGAAAAAAAAA
1 AGAAAAAAAAA
12400337 AGAAAAAAAAA
1 AGAAAAAAAAA
*
12400348 AGAAAAAAAGA
1 AGAAAAAAAAA
* *
12400359 TGATAAAAAAA
1 AGAAAAAAAAA
*
12400370 ATAAAAAAA
1 AGAAAAAAA
12400379 GGAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:12400376 original size:29 final size:27
Alignment explanation
Indices: 12400334--12400404 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 27
12400324 TGAGAAAAAA
*
12400334 AAAAGAAAAAAAAAAGAAAAAAAGATGATA
1 AAAA-AAAAAAAAAAGAAAAAAA-ATGA-G
*
12400364 AAAAAAATAAAAAAAGGAAAAAAATGAG
1 AAAAAAA-AAAAAAAGAAAAAAAATGAG
*
12400392 AAAATAAAAAAAA
1 AAAAAAAAAAAAA
12400405 GATTCAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.16
28 6 0.16
29 7 0.19
30 18 0.49
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (27 bp):
AAAAAAAAAAAAAAGAAAAAAAATGAG
Found at i:12400401 original size:17 final size:17
Alignment explanation
Indices: 12400330--12400404 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 17
12400320 AAAATGAGAA
*
12400330 AAAAAAAAGAAAAAAA-
1 AAAAAAAATAAAAAAAT
* **
12400346 AAAGAAAAA-AAGATGAT
1 AAA-AAAAATAAAAAAAT
*
12400363 AAAAAAAATAAAAAAAG
1 AAAAAAAATAAAAAAAT
* * *
12400380 GAAAAAAATGAGAAAAT
1 AAAAAAAATAAAAAAAT
12400397 AAAAAAAA
1 AAAAAAAA
12400405 GATTCAATTT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
16 12 0.27
17 32 0.73
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAT
Found at i:12401478 original size:22 final size:22
Alignment explanation
Indices: 12401444--12401502 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
12401434 GAATATTTTG
* *
12401444 ATGAAAATTTTTGAGAACTC-AA
1 ATGAGAATCTTTGAG-ACTCAAA
**
12401466 ATGAGAATCTTTGAGTTTCAAA
1 ATGAGAATCTTTGAGACTCAAA
12401488 ATGAGAATCTTTGAG
1 ATGAGAATCTTTGAG
12401503 GAGTGAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (22 bp):
ATGAGAATCTTTGAGACTCAAA
Found at i:12401761 original size:43 final size:42
Alignment explanation
Indices: 12401685--12401766 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
12401675 GTCTTTGAAC
* * *
12401685 TCAAATGAAAAGCTTTGAATTTTTAGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGATTTGAACTTTTAGATATGAAT-TCCAAAAT
*
12401728 TCAAATGAAAAGATTT-AGACTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGATTTGA-ACTTTTAGATATGAATTCCAA
12401767 GTTTGCCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 6 0.18
43 28 0.82
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (42 bp):
TCAAATGAAAAGATTTGAACTTTTAGATATGAATTCCAAAAT
Found at i:12402152 original size:42 final size:42
Alignment explanation
Indices: 12402059--12402144 Score: 156
Period size: 42 Copynumber: 2.0 Consensus size: 42
12402049 GATTGTCAAT
12402059 GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAG
12402101 GAGCAATTTACTTTTCAAAGTCGTGAG-TGCCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTG-GTTGCCTCTATTTAGAG
12402143 GA
1 GA
12402145 TCTATTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (42 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAG
Found at i:12402174 original size:55 final size:55
Alignment explanation
Indices: 12402090--12402199 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
12402080 CGTGGTTGCC
*
12402090 TCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGAG-TGCCTCTATTTAGAGGA
1 TCTATTTAAAGGAGCAATTTACTTTTCAAAGTCGTG-GTTGCCTCTATTTAGAGGA
12402145 TCTATTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGA
1 TCTATTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGA
12402200 GCAATTTACT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 1 0.02
55 52 0.98
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (55 bp):
TCTATTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGA
Found at i:12402192 original size:42 final size:41
Alignment explanation
Indices: 12402149--12402419 Score: 355
Period size: 42 Copynumber: 6.5 Consensus size: 41
12402139 AGAGGATCTA
* * *
12402149 TTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTA
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGG-TGCCTCTG
*
12402191 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGAGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTG-GTGCCTCTG
* * *
12402233 TTTAGATGAGTAATTTACTTTTCAAAGATGTGGTTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGG-TGCCTCTG
*
12402275 TTTAGAGGAGCAATTTACTTTTCAAAGTTGAGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTG
* * ***
12402316 TTTAGATGAGCAATTTACTTTCCAAAAGTTACAGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTG
* *
12402358 TTTAGAGGAGCAATTTAATTTTCAAAGTTGTGGTACCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTG
*
12402399 TTTAGAGGAGC-ATTTATTTTT
1 TTTAGAGGAGCAATTTACTTTT
12402420 GAAGTCATGG
Statistics
Matches: 203, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 9 0.04
41 55 0.27
42 138 0.68
43 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTG
Found at i:12402249 original size:97 final size:92
Alignment explanation
Indices: 12402059--12402414 Score: 358
Period size: 97 Copynumber: 4.0 Consensus size: 92
12402049 GATTGTCAAT
12402059 GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
1 GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
* * *
12402124 TGAGTGCCTCTATTTAGAGGATCTATTTAAA
66 TGAGTGCCTCTGTTTAGATGA--GATTT--A
12402155 GGAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTC
1 -GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTC
12402220 GTGAGTGCCTCTGTTTAGATGAG---T-
65 GTGAGTGCCTCTGTTTAGATGAGATTTA
*
12402244 ----AATTTACTTTTCAAAGAT-GTGGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT-
1 GAGCAATTTACTTTTCAAAG-TCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTC
12402303 -TGAGGTGCCTCTG-TT---T-AGA--T-
65 GTGA-GTGCCTCTGTTTAGATGAGATTTA
* **** * * *
12402323 GAGCAATTTACTTTCCAAAAGTTACAG-TGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGTT
1 GAGCAATTTACTTTTC-AAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTC
* *
12402387 GTG-GTACCTCTGTTTAGAGGAGCATTTA
65 GTGAGTGCCTCTGTTTAGATGAG-ATTTA
12402415 TTTTTGAAGT
Statistics
Matches: 228, Mismatches: 11, Indels: 45
0.80 0.04 0.16
Matches are distributed among these distances:
78 2 0.01
79 2 0.01
82 5 0.02
83 64 0.28
84 63 0.28
85 3 0.01
88 2 0.01
89 1 0.00
91 1 0.00
92 1 0.00
97 84 0.37
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (92 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
TGAGTGCCTCTGTTTAGATGAGATTTA
Found at i:12402357 original size:83 final size:83
Alignment explanation
Indices: 12402156--12402414 Score: 321
Period size: 83 Copynumber: 3.1 Consensus size: 83
12402146 CTATTTAAAG
* * *
12402156 GAGCAATTTACTTTTCAAAG-T-CGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGT
1 GAGCAATTTACTTTCCAAAGATAC--AGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
12402219 CGTGA-GTGCCTCTGTTTAGAT
64 --TGAGGTGCCTCTGTTTAGAT
* * ***
12402240 GAGTAATTTACTTTTCAAAGATGTGGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTG
1 GAGCAATTTACTTTCCAAAGATACAGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTG
12402305 AGGTGCCTCTGTTTAGAT
66 AGGTGCCTCTGTTTAGAT
* *
12402323 GAGCAATTTACTTTCCAAAAGTTACAG-TGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGTT
1 GAGCAATTTACTTTCC-AAAGATACAGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
* * *
12402387 GTGGTACCTCTGTTTAGAG
65 GAGGTGCCTCTGTTTAGAT
12402406 GAGC-ATTTA
1 GAGCAATTTA
12402415 TTTTTGAAGT
Statistics
Matches: 158, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
82 8 0.05
83 86 0.54
84 63 0.40
85 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (83 bp):
GAGCAATTTACTTTCCAAAGATACAGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTG
AGGTGCCTCTGTTTAGAT
Found at i:12402380 original size:125 final size:124
Alignment explanation
Indices: 12402149--12402419 Score: 368
Period size: 125 Copynumber: 2.2 Consensus size: 124
12402139 AGAGGATCTA
* * *
12402149 TTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTC
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGAGGTTGCCTCTATTTAGAGGAGCAATTTACTTTCC
* * * * *
12402214 AAAGTCGTGAGTGCCTCTGTTTAGATGAGTAATTTACTTTTCAAAGATGTGGTTGCCTCTG
66 AAAGTC-TCAGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGATGTGG-TACCTCTG
* * *
12402275 TTTAGAGGAGCAATTTACTTTTCAAAGTTGAGG-TGCCTCTGTTTAGATGAGCAATTTACTTTCC
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGAGGTTGCCTCTATTTAGAGGAGCAATTTACTTTCC
*
12402339 AAAAGT-TACAGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGTTGTGGTACCTCTG
66 -AAAGTCT-CAGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGATGTGGTACCTCTG
*
12402399 TTTAGAGGAGC-ATTTATTTTT
1 TTTAGAGGAGCAATTTACTTTT
12402420 GAAGTCATGG
Statistics
Matches: 130, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
123 9 0.07
124 19 0.15
125 67 0.52
126 35 0.27
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (124 bp):
TTTAGAGGAGCAATTTACTTTTCAAAGTCGAGGTTGCCTCTATTTAGAGGAGCAATTTACTTTCC
AAAGTCTCAGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGATGTGGTACCTCTG
Found at i:12402570 original size:42 final size:42
Alignment explanation
Indices: 12402161--12402576 Score: 149
Period size: 42 Copynumber: 10.0 Consensus size: 42
12402151 TAAAGGAGCA
* * * *
12402161 ATTTACTTTTCAAAGTCGTGGTTGCCTCT-ATTTAGAGGAGC-A
1 ATTTATTTTTCAAAGTCGTTG-AGCCTCTGA-TTAGAGGAGCTC
* * * *
12402203 ATTTACTTTTCAAAGTCG-TGAGTGCCTCTGTTTAGATGAG-TA
1 ATTTATTTTTCAAAGTCGTTGA--GCCTCTGATTAGAGGAGCTC
* * * * *
12402245 ATTTACTTTTCAAAGAT-GTGGTTGCCTCTGTTTAGAGGAGC-A
1 ATTTATTTTTCAAAG-TCGTTG-AGCCTCTGATTAGAGGAGCTC
* * ** * * * *
12402287 ATTTACTTTTCAAAGTTGAGGTGCCTCTGTTTAGATGAGC-A
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTC
* * **** * * *
12402328 ATTTACTTTCCAAAAGTTACAGTGCCTCTGTTTAGAGGAGC-A
1 ATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTC
* * * *
12402370 ATTTAATTTTCAAAGTTGTGGTA-CCTCTGTTTAGAGGAG--C
1 ATTTATTTTTCAAAGTCGTTG-AGCCTCTGATTAGAGGAGCTC
* * * * ** * *** *
12402410 ATTTATTTTT-GAAGTCATGGTGTTTCTGCTTAGA-GCTTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTC
* * * * *
12402450 GTTTATTTTTCCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TC
* *
12402494 ATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAGATGAGC-C
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTC
* *
12402535 ATTTATTTTTCAAAAATCGTTGAGCCTCTGCTTAGAGGAGCT
1 ATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCT
12402577 TTGATCAAAA
Statistics
Matches: 298, Mismatches: 56, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.00
39 16 0.05
40 18 0.06
41 65 0.22
42 159 0.53
43 28 0.09
44 11 0.04
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (42 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTC
Found at i:12402781 original size:105 final size:101
Alignment explanation
Indices: 12402517--12402816 Score: 423
Period size: 98 Copynumber: 3.0 Consensus size: 101
12402507 AGTCGTTGAG
* * * *
12402517 CCTCTAATTAGATGAGCCATTTATTTTTCAAAAATCGTTGAGCCTCTGCTTAGAGGAGCTTTGAT
1 CCTCTTATTAGAAGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGAT
12402582 CAAAA-TT-AAAAAAAAAAAAAAC-AAAAAAAATTA
66 CAAAATTTAAAAAAAAAAAAAAACAAAAAAAAATTA
* *
12402615 CCTCTTATTAGAGGAGCCATTTATTTTTCAAAAGTCGTTGATCCTCTACTTAGAGGAGCTTTGAT
1 CCTCTTATTAGAAGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGAT
12402680 CAAAATTTAAAAAAAACAAAAAAACAAAAAAAAATTA
66 CAAAATTTAAAAAAAA-AAAAAAACAAAAAAAAATTA
*
12402717 CCTCTGT-TTAGAAGAGCTATGTTTATGTTTCTC-AAAGTCGTTGAGCCTCTACTTAGA-GACGC
1 CCTCT-TATTAGAAGAGCCA--TTTAT-TTT-TCAAAAGTCGTTGAGCCTCTACTTAGAGGA-GC
12402779 TTTGATCAAAATTTAAAAAATAAAAAAAAACAAAAAAA
60 TTTGATCAAAATTTAAAAAA-AAAAAAAAACAAAAAAA
12402817 TGGGTAAAAA
Statistics
Matches: 183, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
98 65 0.36
99 2 0.01
100 7 0.04
101 8 0.04
102 26 0.14
103 1 0.01
104 7 0.04
105 63 0.34
106 4 0.02
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (101 bp):
CCTCTTATTAGAAGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGAT
CAAAATTTAAAAAAAAAAAAAAACAAAAAAAAATTA
Found at i:12402992 original size:11 final size:11
Alignment explanation
Indices: 12402971--12403012 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 11
12402961 GATTGTAAAA
12402971 ATTTTTA-TTC
1 ATTTTTATTTC
12402981 ATTTTTATTTC
1 ATTTTTATTTC
12402992 AGATTTTTATTTC
1 --ATTTTTATTTC
*
12403005 ATATTTAT
1 ATTTTTAT
12403013 CTTTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 7 0.25
11 10 0.36
13 11 0.39
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTTTTATTTC
Found at i:12402999 original size:13 final size:13
Alignment explanation
Indices: 12402981--12403010 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12402971 ATTTTTATTC
12402981 ATTTTTATTTCAG
1 ATTTTTATTTCAG
*
12402994 ATTTTTATTTCAT
1 ATTTTTATTTCAG
12403007 ATTT
1 ATTT
12403011 ATCTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTATTTCAG
Found at i:12405720 original size:16 final size:16
Alignment explanation
Indices: 12405690--12405729 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12405680 TAAAAGTATC
12405690 AATTTTTCTTAAAAATA
1 AATTTTTCTTAAAAA-A
*
12405707 AATTTTTTTTAAAAAA
1 AATTTTTCTTAAAAAA
*
12405723 TATTTTT
1 AATTTTT
12405730 GAGAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTTCTTAAAAAA
Found at i:12405722 original size:58 final size:60
Alignment explanation
Indices: 12405660--12405873 Score: 235
Period size: 59 Copynumber: 3.6 Consensus size: 60
12405650 TGGCTTCTTT
* * **
12405660 AAAA-ATTTTTGAGGAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAATTTTTTTTAA
1 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTCAAA
* *
12405719 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTT-TTCAAAATCAAA-GTTTTC-AA
1 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTTTCAAA
*
12405777 AAAATATTTTTG-GAAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAA-TTTTCCAAA
1 AAAATATTTTTGAGAAAAAA-TTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTTTCAAA
** * * * *
12405836 AAGGTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTT
1 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTT
12405874 TCTGCACAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
57 11 0.08
58 34 0.26
59 45 0.34
60 43 0.32
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (60 bp):
AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTCAAA
Found at i:12405858 original size:59 final size:57
Alignment explanation
Indices: 12405660--12405874 Score: 254
Period size: 58 Copynumber: 3.7 Consensus size: 57
12405650 TGGCTTCTTT
* * *
12405660 AAAA-ATTTTTGAGGAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAATTTTTTTTAA
1 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTT-TTAAAAATAAA--TTTTTCAA
* *
12405719 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTTTCAAAATCAAAGTTTTCAA
1 AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTTTAAAAAT-AAATTTTTCAA
*
12405777 AAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCCAA
1 AAAATATTTTTGAGAAAAAA-TTGAAAGTATCAATTTT-TTTAAAAATAAATTTTTCAA
* * * * *
12405835 AAAGGTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTTT
1 AAA-ATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTT
12405875 CTGCACAAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
57 7 0.05
58 49 0.36
59 42 0.31
60 39 0.28
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (57 bp):
AAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTTTAAAAATAAATTTTTCAA
Found at i:12416931 original size:51 final size:53
Alignment explanation
Indices: 12416813--12416939 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 53
12416803 TTTAAAGCTT
* *
12416813 GAATTTTAGGATATTGAAGGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAG
1 GAATTTT-GGATTTTG-AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGATTTTAG
* * * *
12416868 G-GTTTAGG-TTTTGAGGTTTGGGGTTTTGATTTAAGGGTTT-G-GATTTTAG
1 GAATTTTGGATTTTGAGGTTTAGGGTTTTGATTTAAGAGTTTGGAGATTTTAG
*
12416917 GAATTTTGGATTTTGGGGTTTAG
1 GAATTTTGGATTTTGAGGTTTAG
12416940 ATTTAAGAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
49 9 0.15
50 6 0.10
51 35 0.58
52 4 0.07
53 2 0.03
54 3 0.05
55 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (53 bp):
GAATTTTGGATTTTGAGGTTTAGGGTTTTGATTTAAGAGTTTGGAGATTTTAG
Found at i:12416967 original size:44 final size:44
Alignment explanation
Indices: 12416884--12416978 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
12416874 GGTTTTGAGG
* * ** * *
12416884 TTTGGGGTTTTGATTTAAGGGTTTGGATTTTAGGAATTTTGGAT
1 TTTGGGGTTTAGATTTAAGAGTTTAAAGTTTAGGAATTTTAGAT
*
12416928 TTTGGGGTTTAGATTTAAGAGTTTAAAGGTTT-GGGATTTTAGAT
1 TTTGGGGTTTAGATTTAAGAGTTTAAA-GTTTAGGAATTTTAGAT
12416972 TTTGGGG
1 TTTGGGG
12416979 GATTTTGGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 40 0.93
45 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (44 bp):
TTTGGGGTTTAGATTTAAGAGTTTAAAGTTTAGGAATTTTAGAT
Found at i:12416977 original size:15 final size:16
Alignment explanation
Indices: 12416957--12417023 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 16
12416947 AGTTTAAAGG
12416957 TTTG-GGATTTTAGAT
1 TTTGAGGATTTTAGAT
* *
12416972 TTTGGGGGATTTTGGATT
1 TTT-GAGGATTTTAGA-T
* *
12416990 TTTAAGGATTTCAGAT
1 TTTGAGGATTTTAGAT
*
12417006 TTT-AGGATTTTGGAT
1 TTTGAGGATTTTAGAT
12417021 TTT
1 TTT
12417024 ATGGGGTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 16 0.38
16 5 0.12
17 17 0.40
18 4 0.10
ACGTcount: A:0.19, C:0.01, G:0.27, T:0.52
Consensus pattern (16 bp):
TTTGAGGATTTTAGAT
Found at i:12417024 original size:15 final size:15
Alignment explanation
Indices: 12416978--12417024 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
12416968 AGATTTTGGG
12416978 GGATTTTGGATTTTTAA
1 GGATTTTGGA-TTTT-A
**
12416995 GGATTTCAGATTTTA
1 GGATTTTGGATTTTA
12417010 GGATTTTGGATTTTA
1 GGATTTTGGATTTTA
12417025 TGGGGTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 4 0.15
17 8 0.31
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (15 bp):
GGATTTTGGATTTTA
Found at i:12418128 original size:14 final size:15
Alignment explanation
Indices: 12418109--12418144 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
12418099 TAGCGAGGAC
12418109 TGTGTTTGTTTT-TT
1 TGTGTTTGTTTTCTT
12418123 TGTGTTTGTTTTCTT
1 TGTGTTTGTTTTCTT
12418138 TG-GTTTG
1 TGTGTTTG
12418145 GGTATTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.00, C:0.03, G:0.25, T:0.72
Consensus pattern (15 bp):
TGTGTTTGTTTTCTT
Found at i:12418574 original size:3 final size:3
Alignment explanation
Indices: 12418568--12418608 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
12418558 ATTTTTTAAA
** *
12418568 ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12418609 ATTGAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:12418582 original size:9 final size:9
Alignment explanation
Indices: 12418563--12418608 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
12418553 TAATTATTTT
*
12418563 TTAAAATTA
1 TTAATATTA
*
12418572 TTATTATTA
1 TTAATATTA
*
12418581 TTATTATTA
1 TTAATATTA
*
12418590 TTAAAATTA
1 TTAATATTA
12418599 TTAATATTA
1 TTAATATTA
12418608 T
1 T
12418609 ATTGAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATATTA
Found at i:12424709 original size:22 final size:23
Alignment explanation
Indices: 12424678--12424725 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
12424668 AATAAAAATC
12424678 AAGTTAAAAAAAAATGAAAAAGT
1 AAGTTAAAAAAAAATGAAAAAGT
12424701 AAGTT-AAAAAAAATGAAAAAGT
1 AAGTTAAAAAAAAATGAAAAAGT
12424723 AAG
1 AAG
12424726 GAAGAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.17
Consensus pattern (23 bp):
AAGTTAAAAAAAAATGAAAAAGT
Found at i:12426605 original size:38 final size:38
Alignment explanation
Indices: 12426554--12426639 Score: 163
Period size: 38 Copynumber: 2.2 Consensus size: 38
12426544 GTAATACTAT
12426554 TTCTCAAACTCTAGTTGATTAGAATCTATGTGCTTCAG
1 TTCTCAAACTCTAGTTGATTAGAATCTATGTGCTTCAG
12426592 TTCTCAAACTCTAGTTGATTAGAATCTATGTGCTTCAG
1 TTCTCAAACTCTAGTTGATTAGAATCTATGTGCTTCAG
12426630 TTACTCAAAC
1 TT-CTCAAAC
12426640 GAAAAGTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 40 0.85
39 7 0.15
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (38 bp):
TTCTCAAACTCTAGTTGATTAGAATCTATGTGCTTCAG
Found at i:12433257 original size:22 final size:22
Alignment explanation
Indices: 12433231--12433274 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12433221 TATATATTTA
**
12433231 TATTTGTATTTCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
12433253 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
12433275 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:12440849 original size:75 final size:75
Alignment explanation
Indices: 12440725--12440877 Score: 254
Period size: 75 Copynumber: 2.0 Consensus size: 75
12440715 TGCAAGAGTC
* * *
12440725 AATGTAACTAAATTATACAATGATTTGATGATAAAATACCATATTCCAATATGTTAACTTACCTT
1 AATGTAACTAAATTATACAATGATTTGATGATAAAATACCATATCCCAATATGCTAACTAACCTT
12440790 GTGATAAACA
66 GTGATAAACA
*
12440800 AATGTAACTAAATTATA-AACTGATTTGATGCTAAAATACCATATCCCAATATGCTAACTAACCT
1 AATGTAACTAAATTATACAA-TGATTTGATGATAAAATACCATATCCCAATATGCTAACTAACCT
12440864 TGTGATAAACA
65 TGTGATAAACA
12440875 AAT
1 AAT
12440878 ACTTCATTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 2 0.03
75 71 0.97
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (75 bp):
AATGTAACTAAATTATACAATGATTTGATGATAAAATACCATATCCCAATATGCTAACTAACCTT
GTGATAAACA
Found at i:12447018 original size:5 final size:5
Alignment explanation
Indices: 12447001--12447040 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
12446991 GTGTCCGTAC
* *
12447001 AAAAG AAAGG AAAAG AAAGG AAAAG AAAAG TAAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAA
12447041 CAAGTGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:12447040 original size:11 final size:10
Alignment explanation
Indices: 12447001--12447039 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
12446991 GTGTCCGTAC
12447001 AAAAGAAAGG
1 AAAAGAAAGG
12447011 AAAAGAAAGG
1 AAAAGAAAGG
*
12447021 AAAAGAAAAGT
1 AAAAG-AAAGG
12447032 AAAAGAAA
1 AAAAGAAA
12447040 ACAAGTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (10 bp):
AAAAGAAAGG
Found at i:12447361 original size:2 final size:2
Alignment explanation
Indices: 12447349--12447379 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12447339 TCTCCCCATT
*
12447349 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12447380 TAATTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12449064 original size:17 final size:17
Alignment explanation
Indices: 12449042--12449076 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12449032 TATTTTAATA
* *
12449042 TTTTTATATAATAAAAT
1 TTTTTAAATAAAAAAAT
12449059 TTTTTAAATAAAAAAAT
1 TTTTTAAATAAAAAAAT
12449076 T
1 T
12449077 AAGCTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTAAATAAAAAAAT
Found at i:12449595 original size:205 final size:205
Alignment explanation
Indices: 12449243--12449650 Score: 789
Period size: 205 Copynumber: 2.0 Consensus size: 205
12449233 GAAAAATATA
* *
12449243 GAAATGTATTGGTTTTAAATTTCTTTAGGATTAATTTTAAACTTTTTTTATTTGGAAAACATTGT
1 GAAATGTATTGGTTTTAAATTACTTTAGGATTAATTTTAAACTTTTTTTATTTGGAAAACATTAT
12449308 ATACTCTTCATTTTCTTCTTTATGTCAGTTGTAAGAATATTCATTGTTGTCTCAACAATTTTAAG
66 ATACTCTTCATTTTCTTCTTTATGTCAGTTGTAAGAATATTCATTGTTGTCTCAACAATTTTAAG
*
12449373 GTTGTCATATTAAATAATATTTGTTCAAAAGAATTGAAATTCATTGAATTAATAATCATTATTGC
131 GTTGTCATATTAAATAATATTTGTTCAAAAGAATTGAAATTCATTGAATTAATAATCATTATTAC
12449438 ATTTAATAAT
196 ATTTAATAAT
12449448 GAAATGTATTGGTTTTAAATTACTTTAGGATTAATTTTAAACTTTTTTTATTTGGAAAACATTAT
1 GAAATGTATTGGTTTTAAATTACTTTAGGATTAATTTTAAACTTTTTTTATTTGGAAAACATTAT
12449513 ATACTCTTCATTTTCTTCTTTATGTCAGTTGTAAGAATATTCATTGTTGTCTCAACAATTTTAAG
66 ATACTCTTCATTTTCTTCTTTATGTCAGTTGTAAGAATATTCATTGTTGTCTCAACAATTTTAAG
12449578 GTTGTCATATTAAATAATATTTGTTCAAAAGAATTGAAATTCATTGAATTAATAATCATTATTAC
131 GTTGTCATATTAAATAATATTTGTTCAAAAGAATTGAAATTCATTGAATTAATAATCATTATTAC
12449643 ATTTAATA
196 ATTTAATA
12449651 TAAAAATATT
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
205 200 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.47
Consensus pattern (205 bp):
GAAATGTATTGGTTTTAAATTACTTTAGGATTAATTTTAAACTTTTTTTATTTGGAAAACATTAT
ATACTCTTCATTTTCTTCTTTATGTCAGTTGTAAGAATATTCATTGTTGTCTCAACAATTTTAAG
GTTGTCATATTAAATAATATTTGTTCAAAAGAATTGAAATTCATTGAATTAATAATCATTATTAC
ATTTAATAAT
Found at i:12451509 original size:42 final size:43
Alignment explanation
Indices: 12451429--12451517 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 43
12451419 GTATAATTAC
* *
12451429 TAACTTAATAATTAATCATTGAAAACTTAAATGTAATTAGT-A
1 TAACTTAATAATTAATAATTGAAAACTTAAATGAAATTAGTAA
**
12451471 TAACTTAATAA-TAATAATTGATAATTTTATAAT-AAATTAGTAA
1 TAACTTAATAATTAATAATTGA-AAACTTA-AATGAAATTAGTAA
12451514 TAAC
1 TAAC
12451518 ATAAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 9 0.22
42 23 0.57
43 8 0.20
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (43 bp):
TAACTTAATAATTAATAATTGAAAACTTAAATGAAATTAGTAA
Found at i:12451589 original size:22 final size:22
Alignment explanation
Indices: 12451564--12451625 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
12451554 ATTTTTTAGC
12451564 AAATCAATAATAATATAACAAT
1 AAATCAATAATAATATAACAAT
* * ***
12451586 AAATGC-ATAATACTTTAATGCT
1 AAAT-CAATAATAATATAACAAT
*
12451608 AAATCAATTATAATATAA
1 AAATCAATAATAATATAA
12451626 TTATAAATTC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (22 bp):
AAATCAATAATAATATAACAAT
Found at i:12451758 original size:22 final size:22
Alignment explanation
Indices: 12451660--12451765 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 22
12451650 TTAAATCAAG
* ** *
12451660 GATAACTTAACAAAAAATAAGT
1 GATAACTTAATAGTAAATTAGT
* * *
12451682 GATAATTTAGTAGTTAATTA-T
1 GATAACTTAATAGTAAATTAGT
* * * *
12451703 TAGTAACTTAGTAATAAATTAAT
1 GA-TAACTTAATAGTAAATTAGT
*
12451726 GATAACCTAATAGTAAATTAGT
1 GATAACTTAATAGTAAATTAGT
*
12451748 GATAATTTAATAGTAAAT
1 GATAACTTAATAGTAAAT
12451766 CAATTTCAAT
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 2 0.03
22 60 0.94
23 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
GATAACTTAATAGTAAATTAGT
Found at i:12451835 original size:22 final size:21
Alignment explanation
Indices: 12451795--12451866 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
12451785 ATTAATTAAT
* *
12451795 AGTAGTAAATAATAAATAACTA
1 AGTAGTAAATAAT-TATAAATA
*
12451817 AGTAGTAAATCAATTATAAATT
1 AGTAGTAAAT-AATTATAAATA
* * *
12451839 AGTAGGAAATAATTGATAATTG
1 AGTAGTAAATAATT-ATAAATA
12451861 AGTAGT
1 AGTAGT
12451867 TATTTATTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.10
22 34 0.83
23 3 0.07
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (21 bp):
AGTAGTAAATAATTATAAATA
Found at i:12451965 original size:22 final size:22
Alignment explanation
Indices: 12451878--12451971 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
12451868 ATTTATTGAA
*
12451878 AATTTAAAAGTAAATCAAT-AT
1 AATTTAATAGTAAATCAATAAT
* *
12451899 AACTTATTAG-AAATC-ATCAAT
1 AATTTAATAGTAAATCAAT-AAT
** *
12451920 AACATAATAGTTAATCAATAAT
1 AATTTAATAGTAAATCAATAAT
*
12451942 AATTTAATAGTAAATC-ATCCAT
1 AATTTAATAGTAAATCAAT-AAT
12451964 AATTTAAT
1 AATTTAAT
12451972 CTAAAATAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
19 2 0.03
20 5 0.09
21 19 0.33
22 30 0.52
23 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
AATTTAATAGTAAATCAATAAT
Found at i:12452130 original size:44 final size:44
Alignment explanation
Indices: 12452016--12452131 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 44
12452006 TAGTTTAGTG
* * *
12452016 GTAAATTAGTGATAATTTTGTAATAAATAATTAAAAATCAAGTA
1 GTAAATCAATGATAATTTAGTAATAAATAATTAAAAATCAAGTA
* *
12452060 GTAAATCAATGATAATATAATAATAAAT-ATATAAATATAT-AA-TA
1 GTAAATCAATGATAATTTAGTAATAAATAAT-TAAA-A-ATCAAGTA
** *
12452104 GTAAATCTTTGATAATTTAGTGATAAAT
1 GTAAATCAATGATAATTTAGTAATAAAT
12452132 TAATAACTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.03
44 52 0.88
45 3 0.05
46 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (44 bp):
GTAAATCAATGATAATTTAGTAATAAATAATTAAAAATCAAGTA
Found at i:12452183 original size:22 final size:22
Alignment explanation
Indices: 12452130--12452202 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
12452120 TTAGTGATAA
* *
12452130 ATTAATAACTTAATAGTAAATC
1 ATTAATAACATAGTAGTAAATC
* *
12452152 ACT-ATAACATAGTAGTAAATT
1 ATTAATAACATAGTAGTAAATC
* *
12452173 ATTAATAACATAGTTGTAAGTC
1 ATTAATAACATAGTAGTAAATC
*
12452195 AATAATAA
1 ATTAATAA
12452203 TTTATTAGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 17 0.41
22 24 0.59
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (22 bp):
ATTAATAACATAGTAGTAAATC
Found at i:12452809 original size:15 final size:14
Alignment explanation
Indices: 12452784--12452814 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
12452774 GTTATATGTG
12452784 ATACGATACAATTA
1 ATACGATACAATTA
12452798 ATACGTATACAATTA
1 ATACG-ATACAATTA
12452813 AT
1 AT
12452815 TCATTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
ATACGATACAATTA
Found at i:12452840 original size:15 final size:15
Alignment explanation
Indices: 12452820--12452868 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
12452810 TTAATTCATT
12452820 TAAACACGATATGAA
1 TAAACACGATATGAA
12452835 TAAACACGA-AT-AA
1 TAAACACGATATGAA
12452848 T--AC-CGATATGAA
1 TAAACACGATATGAA
12452860 TAAACACGA
1 TAAACACGA
12452869 ATAGACATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
10 3 0.10
11 4 0.14
12 3 0.10
13 3 0.10
14 4 0.14
15 12 0.41
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.18
Consensus pattern (15 bp):
TAAACACGATATGAA
Found at i:12454191 original size:22 final size:22
Alignment explanation
Indices: 12454129--12454191 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
12454119 GTTAATACTT
*
12454129 GATAACTTAATAATAAATCAAG
1 GATAACTTAATAATAAATTAAG
*
12454151 GATAATTTAATAATAAATTAAG
1 GATAACTTAATAATAAATTAAG
*
12454173 GATAACTTAATAGTAAATT
1 GATAACTTAATAATAAATT
12454192 GTTTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (22 bp):
GATAACTTAATAATAAATTAAG
Found at i:12455111 original size:18 final size:18
Alignment explanation
Indices: 12455088--12455130 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12455078 TTTCTCATTT
*
12455088 TTTATTACTTA-TTCTTAA
1 TTTATTAATTAGTT-TTAA
*
12455106 TTTATTAATTAGTTTTTA
1 TTTATTAATTAGTTTTAA
12455124 TTTATTA
1 TTTATTA
12455131 TTTTATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTAATTAGTTTTAA
Found at i:12456597 original size:18 final size:17
Alignment explanation
Indices: 12456570--12456627 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
12456560 AACCCCCTTT
12456570 TTTTGT-TTTTTTTTTA
1 TTTTGTATTTTTTTTTA
*
12456586 TTTTGTAATTTTTCTCTT-
1 TTTTGT-ATTTTT-TTTTA
12456604 TTTTGTATTTTTTTTATA
1 TTTTGTATTTTTTTT-TA
12456622 TTTTGT
1 TTTTGT
12456628 TTAATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 8 0.23
17 7 0.20
18 17 0.49
19 3 0.09
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.79
Consensus pattern (17 bp):
TTTTGTATTTTTTTTTA
Found at i:12457035 original size:50 final size:51
Alignment explanation
Indices: 12456971--12457074 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 51
12456961 TTGAAATCTA
* * * * *
12456971 AAAAAGGCTTATCTCAATAGAGGTTTAACAACTTTTAAAATT-TTATCTTG
1 AAAAAGGCTCATCTCAATAGAGGCTCAACAACTTTAAAAATTCTCATCTTG
*
12457021 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTG
1 AAAAAGGCTCATCTCAATAGAGGCTCAACAACTTTAAAAATTCTCATCTTG
12457072 AAA
1 AAA
12457075 GGGTTCATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 37 0.79
51 10 0.21
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (51 bp):
AAAAAGGCTCATCTCAATAGAGGCTCAACAACTTTAAAAATTCTCATCTTG
Found at i:12457083 original size:50 final size:50
Alignment explanation
Indices: 12456972--12457095 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
12456962 TGAAATCTAA
* * * * * *
12456972 AAAAGGCTT-ATCTCAATAGAGGTTTAACAACTTTTAAAATTTTATCTTG
1 AAAAGGGTTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTTCATCTTG
* *
12457021 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTG
1 AAAAGGGTTCATCTCAGTAGAGGCTCAACAACTTTAAAAATT-TCATCTTG
*
12457072 -AAAGGGTTCATCTCAGCAGAGGCT
1 AAAAGGGTTCATCTCAGTAGAGGCT
12457096 TTCATCTTGA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 6 0.10
50 49 0.79
51 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (50 bp):
AAAAGGGTTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTTCATCTTG
Found at i:12457111 original size:86 final size:88
Alignment explanation
Indices: 12457021--12457184 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 88
12457011 TTTTATCTTG
* * * *
12457021 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTT-AA-AAATTCTCATCTT-GAAAGGGTTCAT
1 AAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATCTTAAAAAGGCTT-AT
12457083 CTCAGCAGAGGCTTTCATCTTGAA
65 CTCAGCAGAGGCTTTCATCTTGAA
* *
12457107 AAAAAGACTCATTTCAGCAGAGGCTCAACAACTTTAAAGAAATTTTCATCTTAAAAAAGGCTTAT
1 AAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATCTT-AAAAAGGCTTAT
12457172 CTCAGCAGAGGCT
65 CTCAGCAGAGGCT
12457185 CAACAACTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 32 0.47
87 2 0.03
88 12 0.18
89 15 0.22
90 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (88 bp):
AAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATCTTAAAAAGGCTTATC
TCAGCAGAGGCTTTCATCTTGAA
Found at i:12457179 original size:53 final size:54
Alignment explanation
Indices: 12457095--12457203 Score: 166
Period size: 53 Copynumber: 2.0 Consensus size: 54
12457085 CAGCAGAGGC
* *
12457095 TTTCATCTTGAAAAAAAGACTCATTTCAGCAGAGGCTCAACAACTTTAAAGAAAT
1 TTTCATCTT-AAAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAAAAAT
* *
12457150 TTTCATCTT-AAAAAAGGCTTATCTCAGCAGAGGCTCAACAACTTTAAAAAAAT
1 TTTCATCTTAAAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAAAAAT
12457203 T
1 T
12457204 CAATACGTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 41 0.82
55 9 0.18
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (54 bp):
TTTCATCTTAAAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAAAAAT
Found at i:12468614 original size:18 final size:18
Alignment explanation
Indices: 12468591--12468636 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12468581 TTTTCTCATT
12468591 TTTATTATTTA-TTCTTAA
1 TTTATTATTTAGTT-TTAA
* *
12468609 TTTATTAATTAGTTTTTA
1 TTTATTATTTAGTTTTAA
12468627 TTTATTATTT
1 TTTATTATTT
12468637 TATAAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTATTATTTAGTTTTAA
Found at i:12468796 original size:215 final size:214
Alignment explanation
Indices: 12468427--12468813 Score: 455
Period size: 215 Copynumber: 1.8 Consensus size: 214
12468417 TTAAAAAAAT
* *
12468427 AAAAAAAGAAGAATTTTTATTATATTGAAGATTTTCTATAAATATTTCAATACACTGGTAATATT
1 AAAAAAAGAAGAATTTTTATTATATTGAAAATTTTCTATAAATATCTCAATACACTGGTAATATT
* * * *
12468492 TAAAAAATATCTTCTCACCTAGGGAGTTCTCAAAGCATCTATATTCAGAATACTTTTAGAATCCC
66 TAAAAAAAATCTTCTCACCTAGAGAGTTCTCAAAGCATCTATACTCAGAATACCTTTAGAATCCC
* * *
12468557 ATCATTGGATAAATTTCTTTTTTTTTTTCTCATTTTTATTATTTATTCTTAATTTATTAATTAGT
131 ATCATTAGATAAATTTCTTTTTTTTCTTAT--TTTTTATTATTTATTCTTAATTTATTAATTAGT
12468622 TTTTATTTATTATTTTATAAG
194 TTTTATTTATTATTTTATAAG
* * * * *
12468643 AAAAAAAGAA-AATTTTTATTGT-TTTAAAATTTTTTTATAAATA-CTCTAATACACTGGTATTG
1 AAAAAAAGAAGAATTTTTATTATATTGAAAA-TTTTCTATAAATATCTC-AATACACTGGTAATA
* ** * * *
12468705 TTTAAAAAAAAATCTTCTCACCTAGAGA-TTTTGTAAGTATC-ACTACTCGGAGTACCTTT-GAA
64 TTT-AAAAAAAATCTTCTCACCTAGAGAGTTCTCAAAGCATCTA-TACTCAGAATACCTTTAGAA
* *
12468767 TCTCATCGTTAGATAAACATTTC-TTTTTTTCTTATTTTTTATTATTT
127 TCCCATCATTAGAT-AA-ATTTCTTTTTTTTCTTATTTTTTATTATTT
12468814 TATAAGAGTT
Statistics
Matches: 143, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
213 12 0.08
214 22 0.15
215 72 0.50
216 37 0.26
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.46
Consensus pattern (214 bp):
AAAAAAAGAAGAATTTTTATTATATTGAAAATTTTCTATAAATATCTCAATACACTGGTAATATT
TAAAAAAAATCTTCTCACCTAGAGAGTTCTCAAAGCATCTATACTCAGAATACCTTTAGAATCCC
ATCATTAGATAAATTTCTTTTTTTTCTTATTTTTTATTATTTATTCTTAATTTATTAATTAGTTT
TTATTTATTATTTTATAAG
Found at i:12470111 original size:14 final size:13
Alignment explanation
Indices: 12470088--12470122 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
12470078 AACTCCTTTT
12470088 TTTTGTTTTTGTA
1 TTTTGTTTTTGTA
12470101 TTTTGTATTTTGTA
1 TTTTGT-TTTTGTA
12470115 TTTT-TTTT
1 TTTTGTTTT
12470123 ATATTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 7 0.33
14 11 0.52
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (13 bp):
TTTTGTTTTTGTA
Found at i:12470129 original size:7 final size:7
Alignment explanation
Indices: 12470088--12470118 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
12470078 AACTCCTTTT
12470088 TTTTGT-
1 TTTTGTA
12470094 TTTTGTA
1 TTTTGTA
12470101 TTTTGTA
1 TTTTGTA
12470108 TTTTGTA
1 TTTTGTA
12470115 TTTT
1 TTTT
12470119 TTTTATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (7 bp):
TTTTGTA
Found at i:12470398 original size:22 final size:22
Alignment explanation
Indices: 12470373--12470417 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
12470363 TTAGTAGTAA
*
12470373 TTAAT-AATTAATAGCTTAATAG
1 TTAATCAA-TAATAACTTAATAG
12470395 TTAATCAATAATAACTTAATAG
1 TTAATCAATAATAACTTAATAG
12470417 T
1 T
12470418 AAATTATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAATCAATAATAACTTAATAG
Found at i:12470524 original size:22 final size:21
Alignment explanation
Indices: 12470498--12470549 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
12470488 GTGATATTTT
12470498 GTAGTAAAT-AATCAAAAATTAA
1 GTAGTAAATCAATCAAAAA-T-A
* *
12470520 GTAGTAAATCAATGATAAATA
1 GTAGTAAATCAATCAAAAATA
12470541 GTAGTAAAT
1 GTAGTAAAT
12470550 GCATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (21 bp):
GTAGTAAATCAATCAAAAATA
Found at i:12470561 original size:24 final size:21
Alignment explanation
Indices: 12470498--12470578 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 21
12470488 GTGATATTTT
12470498 GTAGTAAAT-AATCAA-AAATTAA
1 GTAGTAAATCAAT-AATAAA-T-A
*
12470520 GTAGTAAATCAATGATAAATA
1 GTAGTAAATCAATAATAAATA
12470541 GTAGTAAATGC-ATAAT-AATA
1 GTAGTAAAT-CAATAATAAATA
* * *
12470561 ATAATAAATCATTAATAA
1 GTAGTAAATCAATAATAA
12470579 TTTAGATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.02
20 15 0.31
21 15 0.31
22 12 0.24
23 6 0.12
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
GTAGTAAATCAATAATAAATA
Found at i:12470600 original size:22 final size:21
Alignment explanation
Indices: 12470559--12470648 Score: 74
Period size: 22 Copynumber: 4.1 Consensus size: 21
12470549 TGCATAATAA
* *
12470559 TAATAATAAATCATTAATAATT
1 TAAT-ATAAATTATTGATAATT
**
12470581 TAGATATAAATTATTGATAACA
1 TA-ATATAAATTATTGATAATT
12470603 TAATAGTAAATTA-TGAATAATT
1 TAATA-TAAATTATTG-ATAATT
* *
12470625 TAATTATAAATAAGTGATAATT
1 TAA-TATAAATTATTGATAATT
12470647 TA
1 TA
12470649 GTAGCAAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
21 5 0.09
22 45 0.80
23 6 0.11
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
TAATATAAATTATTGATAATT
Found at i:12470613 original size:44 final size:44
Alignment explanation
Indices: 12470558--12470644 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
12470548 ATGCATAATA
* * *
12470558 ATAATAATAAATCATTAATAATTTAGA-TATAAATTATTGATAAC
1 ATAATAATAAATCATGAATAATTTA-ATTATAAATAAGTGATAAC
* *
12470602 ATAATAGTAAATTATGAATAATTTAATTATAAATAAGTGATAA
1 ATAATAATAAATCATGAATAATTTAATTATAAATAAGTGATAA
12470645 TTTAGTAGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (44 bp):
ATAATAATAAATCATGAATAATTTAATTATAAATAAGTGATAAC
Found at i:12470658 original size:44 final size:44
Alignment explanation
Indices: 12470574--12470659 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
12470564 ATAAATCATT
* * *
12470574 AATAATTTAGATATAAATTATTGATAACATAATAGTAAATTATG
1 AATAATTTAGATATAAATAAGTGATAACATAATAGCAAATTATG
** *
12470618 AATAATTTA-ATTATAAATAAGTGATAATTTAGTAGCAAATTA
1 AATAATTTAGA-TATAAATAAGTGATAACATAATAGCAAATTA
12470660 GTTAATCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.38
Consensus pattern (44 bp):
AATAATTTAGATATAAATAAGTGATAACATAATAGCAAATTATG
Found at i:12470704 original size:22 final size:21
Alignment explanation
Indices: 12470679--12470852 Score: 114
Period size: 22 Copynumber: 7.9 Consensus size: 21
12470669 TAATAGTTTT
*
12470679 ATAGTAAATTATTGATAAATTA
1 ATAGTAAATTATT-ATAATTTA
* *
12470701 ATAGTAAATCAATTATAATTTT
1 ATAGTAAAT-TATTATAATTTA
** *
12470723 ATAACAAATTATCAGTAATTTA
1 ATAGTAAATTATTA-TAATTTA
* * *
12470745 GTAATAAATTATTAACAATTTA
1 ATAGTAAATTATT-ATAATTTA
* *
12470767 ATAGTAAATCAGTTATCATTTA
1 ATAGTAAATTA-TTATAATTTA
* *
12470789 ATAGTAAATCATTCATAAATTA
1 ATAGTAAATTATT-ATAATTTA
* * *
12470811 GTAGTAAATCAATACTAATTTA
1 ATAGTAAATTATTA-TAATTTA
* *
12470833 ATAATAAATCATTAATAATT
1 ATAGTAAATTATT-ATAATT
12470853 CAGCAATATA
Statistics
Matches: 120, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
21 6 0.05
22 107 0.89
23 7 0.06
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (21 bp):
ATAGTAAATTATTATAATTTA
Found at i:12470711 original size:44 final size:44
Alignment explanation
Indices: 12470658--12470852 Score: 155
Period size: 44 Copynumber: 4.4 Consensus size: 44
12470648 AGTAGCAAAT
* * * *
12470658 TAGTTAATCATTAATAGTTTTATAGTAAATTATTGA-TAAATTAA
1 TAGTAAATCATTAATAATTTTATAGTAAATCATT-ACTAATTTAA
** * * * *
12470702 TAGTAAATCAATT-ATAATTTTATAACAAATTATCAGTAATTTAG
1 TAGTAAATC-ATTAATAATTTTATAGTAAATCATTACTAATTTAA
* * * * *
12470746 TAATAAATTATTAACAATTTAATAGTAAATCAGTTA-TCATTTAA
1 TAGTAAATCATTAATAATTTTATAGTAAATCA-TTACTAATTTAA
* * *
12470790 TAGTAAATCATTCATAA-ATTAGTAGTAAATCAATACTAATTTAA
1 TAGTAAATCATTAATAATTTTA-TAGTAAATCATTACTAATTTAA
*
12470834 TAATAAATCATTAATAATT
1 TAGTAAATCATTAATAATT
12470853 CAGCAATATA
Statistics
Matches: 116, Mismatches: 28, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
43 8 0.07
44 103 0.89
45 5 0.04
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (44 bp):
TAGTAAATCATTAATAATTTTATAGTAAATCATTACTAATTTAA
Found at i:12470742 original size:96 final size:96
Alignment explanation
Indices: 12470567--12470747 Score: 217
Period size: 96 Copynumber: 1.9 Consensus size: 96
12470557 AATAATAATA
* * *
12470567 AATCATTAATAATTTAGATATAAATTATTGATAACATAATAGTAAATTATGAATAATTTAATTAT
1 AATCATTAATAATTTAGATATAAATTATTGATAACATAATAGTAAATAATGAATAATTTAATAAC
*
12470632 AAATAAGTGATAATTTAGTAGCAAATTAGTT
66 AAATAAGTCATAATTTAGTAGCAAATTAGTT
* * * *
12470663 AATCATTAATAGTTT-TATAGTAAATTATTGATAA-ATTAATAGTAAATCAAT-TATAATTTTAT
1 AATCATTAATAATTTAGATA-TAAATTATTGATAACA-TAATAGTAAAT-AATGAATAATTTAAT
*
12470725 AACAAATTA-TCAGTAATTTAGTA
63 AACAAATAAGTCA-TAATTTAGTA
12470748 ATAAATTATT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
95 6 0.08
96 64 0.89
97 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (96 bp):
AATCATTAATAATTTAGATATAAATTATTGATAACATAATAGTAAATAATGAATAATTTAATAAC
AAATAAGTCATAATTTAGTAGCAAATTAGTT
Found at i:12470812 original size:66 final size:65
Alignment explanation
Indices: 12470683--12470852 Score: 164
Period size: 66 Copynumber: 2.6 Consensus size: 65
12470673 AGTTTTATAG
* * * * *
12470683 TAAATTATTGATAAATTAATAGTAAATCAATTATAATTTTATAACAAATTATCAGTAATTTAGTA
1 TAAATTATT-ACAATTTAATAGTAAATCAATTATAATTTAATAACAAATCATCAGTAAATTAGTA
12470748 A
65 A
* * **
12470749 TAAATTATTAACAATTTAATAGTAAATCAGTTATCATTTAATAGTAAATCATTCA-TAAATTAGT
1 TAAATTATT-ACAATTTAATAGTAAATCAATTATAATTTAATAACAAATCA-TCAGTAAATTAGT
*
12470813 AG
64 AA
* * *
12470815 TAAATCAATACTAATTTAATAATAAATC-ATTAATAATT
1 TAAATTATTAC-AATTTAATAGTAAATCAATT-ATAATT
12470853 CAGCAATATA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
65 4 0.05
66 78 0.92
67 3 0.04
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (65 bp):
TAAATTATTACAATTTAATAGTAAATCAATTATAATTTAATAACAAATCATCAGTAAATTAGTAA
Found at i:12470891 original size:22 final size:21
Alignment explanation
Indices: 12470764--12470922 Score: 79
Period size: 22 Copynumber: 7.2 Consensus size: 21
12470754 TATTAACAAT
*
12470764 TTAATAGTAAATCAGTT-ATCAT
1 TTAATAGTAAATCA-TTGAT-AC
* *
12470786 TTAATAGTAAATCATTCATAAA
1 TTAATAGTAAATCATTGAT-AC
* * *
12470808 TTAGTAGTAAATCAAT-ACTAAT
1 TTAATAGTAAATCATTGA-T-AC
* * *
12470830 TTAATAATAAATCATTAATAA
1 TTAATAGTAAATCATTGATAC
** * *
12470851 TTCAGCAATATATCATTGATAGC
1 TT-AATAGTAAATCATTGATA-C
* *
12470874 TTAATAGTAAATCGTTGATAA
1 TTAATAGTAAATCATTGATAC
*
12470895 TATAATAGTAAATCAATGATAAC
1 T-TAATAGTAAATCATTGAT-AC
12470918 TTAAT
1 TTAAT
12470923 TGTCAGTCTT
Statistics
Matches: 107, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
21 7 0.07
22 95 0.89
23 5 0.05
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (21 bp):
TTAATAGTAAATCATTGATAC
Found at i:12471330 original size:21 final size:21
Alignment explanation
Indices: 12471304--12471358 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
12471294 ATTTTATTAT
12471304 AAGTTATCAAAATTGT-ATCAA
1 AAGTTATCAAAATT-TAATCAA
* *
12471325 ATGTTACCAAAATTTAATCAA
1 AAGTTATCAAAATTTAATCAA
12471346 AAGTTATCAAAAT
1 AAGTTATCAAAAT
12471359 CAAAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (21 bp):
AAGTTATCAAAATTTAATCAA
Found at i:12471354 original size:10 final size:10
Alignment explanation
Indices: 12471304--12471357 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
12471294 ATTTTATTAT
12471304 AAGTTATCAA
1 AAGTTATCAA
*
12471314 AATTGTATCAA
1 AAGT-TATCAA
* *
12471325 ATGTTACCAA
1 AAGTTATCAA
*
12471335 AATTTAATCAA
1 AAGTT-ATCAA
12471346 AAGTTATCAA
1 AAGTTATCAA
12471356 AA
1 AA
12471358 TCAAAATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 18 0.53
11 16 0.47
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (10 bp):
AAGTTATCAA
Found at i:12471361 original size:16 final size:17
Alignment explanation
Indices: 12471340--12471375 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
12471330 ACCAAAATTT
12471340 AATCAAAAGT-TATCAA
1 AATCAAAAGTATATCAA
*
12471356 AATCAAAATTATATCAA
1 AATCAAAAGTATATCAA
12471373 AAT
1 AAT
12471376 TTATGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (17 bp):
AATCAAAAGTATATCAA
Found at i:12471371 original size:27 final size:27
Alignment explanation
Indices: 12471332--12471385 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12471322 CAAATGTTAC
12471332 CAAAATTTAATCAAAAGTTATCAAAAT
1 CAAAATTTAATCAAAAGTTATCAAAAT
* *
12471359 CAAAA-TTATATCAAAATTTATGAAAAT
1 CAAAATTTA-ATCAAAAGTTATCAAAAT
12471386 TTAGTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (27 bp):
CAAAATTTAATCAAAAGTTATCAAAAT
Found at i:12471386 original size:10 final size:10
Alignment explanation
Indices: 12471307--12471388 Score: 66
Period size: 11 Copynumber: 8.3 Consensus size: 10
12471297 TTATTATAAG
12471307 TTATCAAAAT
1 TTATCAAAAT
12471317 TGTATC-AAAT
1 T-TATCAAAAT
*
12471327 GTTACCAAAAT
1 -TTATCAAAAT
*
12471338 TTAATCAAAAG
1 TT-ATCAAAAT
12471349 TTATC-AAA-
1 TTATCAAAAT
12471357 --ATCAAAAT
1 TTATCAAAAT
12471365 TATATCAAAAT
1 T-TATCAAAAT
*
12471376 TTATGAAAAT
1 TTATCAAAAT
12471386 TTA
1 TTA
12471389 GTTATATTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
9 3 0.05
10 24 0.41
11 26 0.44
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:12471529 original size:2 final size:2
Alignment explanation
Indices: 12471522--12471550 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12471512 AAAATTAGTG
12471522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12471551 TACTTACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12481872 original size:12 final size:13
Alignment explanation
Indices: 12481842--12481873 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
12481832 CTAAATCTGT
12481842 TAGAAAAAATAAA
1 TAGAAAAAATAAA
12481855 TA-AAAAAAT-AA
1 TAGAAAAAATAAA
12481866 TAGAAAAA
1 TAGAAAAA
12481874 GTTTTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (13 bp):
TAGAAAAAATAAA
Found at i:12487199 original size:28 final size:28
Alignment explanation
Indices: 12487167--12487222 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
12487157 ATGATATATC
12487167 CTTGCAATTTTCAATAATCACTCAAGTT
1 CTTGCAATTTTCAATAATCACTCAAGTT
12487195 CTTGCAATTTTCAATAATCACTCAAGTT
1 CTTGCAATTTTCAATAATCACTCAAGTT
12487223 ATTATGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (28 bp):
CTTGCAATTTTCAATAATCACTCAAGTT
Found at i:12487786 original size:2 final size:2
Alignment explanation
Indices: 12487779--12487805 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12487769 CCTTTTGCTT
12487779 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
12487806 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12487810 original size:2 final size:2
Alignment explanation
Indices: 12487805--12487829 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12487795 TCTCTCTCTC
12487805 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12487830 GATTTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12490204 original size:6 final size:6
Alignment explanation
Indices: 12490187--12490317 Score: 68
Period size: 7 Copynumber: 19.7 Consensus size: 6
12490177 GAATAGGTCC
*
12490187 ATTTTAT ATTTTT A-TTTT ATTTTAT ATTTTAT ATTTATT ATTATT ATTTTT
1 ATTTT-T ATTTTT ATTTTT ATTTT-T ATTTT-T ATTT-TT ATTTTT ATTTTT
* *
12490238 ATATATAT ATTTTTT ATTTTT ATCTTATGT ATTTATT ATTTATT -TATTT
1 AT-T-TTT A-TTTTT ATTTTT AT-TT-T-T ATTT-TT ATTT-TT ATTTTT
* *
12490287 ATTATT ATTATTT ATTTATAT ATATTT ATTT
1 ATTTTT ATT-TTT ATTT-T-T ATTTTT ATTT
12490318 CATTTTTTTG
Statistics
Matches: 101, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
5 7 0.07
6 34 0.34
7 42 0.42
8 14 0.14
9 4 0.04
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (6 bp):
ATTTTT
Found at i:12490205 original size:13 final size:13
Alignment explanation
Indices: 12490187--12490257 Score: 74
Period size: 13 Copynumber: 5.4 Consensus size: 13
12490177 GAATAGGTCC
12490187 ATTTTATATTTTT
1 ATTTTATATTTTT
*
12490200 ATTTTAT-TTTAT
1 ATTTTATATTTTT
12490212 ATTTTATATTTATT
1 ATTTTATATTT-TT
*
12490226 ATTAT-TATTTTT
1 ATTTTATATTTTT
*
12490238 ATATATATATTTTTT
1 AT-TTTATA-TTTTT
12490253 ATTTT
1 ATTTT
12490258 TATCTTATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
12 15 0.31
13 18 0.37
14 9 0.18
15 7 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTATATTTTT
Found at i:12490256 original size:34 final size:34
Alignment explanation
Indices: 12490189--12490385 Score: 133
Period size: 32 Copynumber: 5.8 Consensus size: 34
12490179 ATAGGTCCAT
* * *
12490189 TTTA-TATTTTTA-TTTTAT-TTTATATTTTATA
1 TTTATTATTATTATTTTTATATATATATTTTTTA
12490220 TTTATTATTATTATTTTTATATATATATTTTTTA
1 TTTATTATTATTATTTTTATATATATATTTTTTA
* * *
12490254 TTT-TTA-TCTTATGTATT-TAT-TAT-TTATTTA
1 TTTATTATTATTAT-TTTTATATATATATTTTTTA
12490284 TTTATTATTATTATTTATT-TATATATATTTATTTCA
1 TTTATTATTATTATTT-TTATATATATATTT-TTT-A
* * * * *
12490320 TTTTTTTGTTATTTATCTGTTAATGTATATATTTATTA
1 -TTTATTATTA-TTAT-T-TTTATATATATATTTTTTA
*
12490358 TTTATTATTTATCTATTATTATATATAT
1 TTTATTA-TTAT-TATTTTTATATATAT
12490386 TTATATTTAT
Statistics
Matches: 129, Mismatches: 19, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
30 9 0.07
31 11 0.09
32 25 0.19
33 15 0.12
34 16 0.12
35 3 0.02
36 9 0.07
37 15 0.12
38 11 0.09
39 4 0.03
40 11 0.09
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (34 bp):
TTTATTATTATTATTTTTATATATATATTTTTTA
Found at i:12490280 original size:4 final size:4
Alignment explanation
Indices: 12490197--12490428 Score: 88
Period size: 4 Copynumber: 59.8 Consensus size: 4
12490187 ATTTTATATT
* * * *
12490197 TTTA TTTTA TTT- TATA TTT- TATA TTTA -TTA -TTA TTATT TTTA TATA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
* *
12490243 TATA TTT- TTTA -TT- TTTA TCTTA TGTA TTTA -TTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
12490288 -TTA -TTA -TTA TTTA TTTA TATATA TTTA TTTCA TTT- TTT- TGTTA
1 TTTA TTTA TTTA TTTA TTTA T-T-TA TTTA TTT-A TTTA TTTA T-TTA
* * * * * *
12490331 TTTA TCTG TTAA TGTA TATA TTTA -TTA TTTA -TTA TTTA TCTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
12490376 TTATA TATA TTTA --TA TTTA TCTGA TTATA TTATAA TTTA TCTA -TTA
1 TT-TA TTTA TTTA TTTA TTTA T-TTA TT-TA TT-T-A TTTA TTTA TTTA
12490422 TTTA TTT
1 TTTA TTT
12490429 TTAGTTATCT
Statistics
Matches: 175, Mismatches: 27, Indels: 51
0.69 0.11 0.20
Matches are distributed among these distances:
2 2 0.01
3 43 0.25
4 94 0.54
5 30 0.17
6 6 0.03
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:12490312 original size:64 final size:63
Alignment explanation
Indices: 12490187--12490420 Score: 208
Period size: 64 Copynumber: 3.6 Consensus size: 63
12490177 GAATAGGTCC
* *
12490187 ATTTTATATTTTTATTTTA-T-TTTA-TATTT-TATATTTATTATTATTATTT-TTATATATAT
1 ATTTTTTATTTTTATCTTATTATTTATTATTTATATATTTATTATTATTATTTATT-TATATAT
*
12490246 ATTTTTTATTTTTATCTTATGTATTTATTATTTATTTATTTATTATTATTATTTATTTATATAT
1 ATTTTTTATTTTTATCTTAT-TATTTATTATTTATATATTTATTATTATTATTTATTTATATAT
* * * * * *
12490310 ATTTATTTCATTTTTTTGTTATTTATCTGTTAATGTATATATTTATTATTTATTATTTATCTATT
1 ATTT-TTT-ATTTTTATCTTA-TTATTTATT-ATTTATATATTTATTA-TTATTATTTATTTA-T
12490375 ATTAT
60 A-TAT
* * * * *
12490380 ATATATTTATATTTATCTGATTATATTATAATTTATCTATT
1 AT-TTTTTATTTTTATCTTATTAT-TTATTATTTATATATT
12490421 ATTTATTTTT
Statistics
Matches: 140, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
59 17 0.12
61 1 0.01
62 4 0.03
63 5 0.04
64 30 0.21
65 5 0.04
66 16 0.11
67 15 0.11
68 26 0.19
69 12 0.09
70 8 0.06
71 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (63 bp):
ATTTTTTATTTTTATCTTATTATTTATTATTTATATATTTATTATTATTATTTATTTATATAT
Found at i:12490361 original size:7 final size:7
Alignment explanation
Indices: 12490349--12490436 Score: 60
Period size: 7 Copynumber: 12.4 Consensus size: 7
12490339 TTAATGTATA
12490349 TATTTAT
1 TATTTAT
12490356 TATTTAT
1 TATTTAT
12490363 TATTTAT
1 TATTTAT
12490370 CTA-TTAT
1 -TATTTAT
*
12490377 TATATA-
1 TATTTAT
12490383 TATTTA-
1 TATTTAT
12490389 TATTTAT
1 TATTTAT
12490396 CTGATTATAT
1 -T-ATT-TAT
*
12490406 TA-TAATT
1 TATTTA-T
*
12490413 TATCTAT
1 TATTTAT
12490420 TATTTAT
1 TATTTAT
12490427 T-TTTAGT
1 TATTTA-T
12490434 TAT
1 TAT
12490437 CTGTTAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
6 18 0.28
7 34 0.52
8 6 0.09
9 4 0.06
10 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (7 bp):
TATTTAT
Found at i:12490386 original size:34 final size:33
Alignment explanation
Indices: 12490214--12490428 Score: 95
Period size: 34 Copynumber: 6.5 Consensus size: 33
12490204 TATTTTATAT
12490214 TTTA-TATTTATTA-TTAT-TATT-TTTATATA
1 TTTATTATTTATTATTTATCTATTATTTATATA
* *
12490243 TATATTTTTTATT-TTTATCTTATGTATTTAT-TA
1 TTTATTATTTATTATTTATC-TAT-TATTTATATA
12490276 TTTATTTATTTATTA-TTAT-TATTTATTTATATA
1 TTTA-TTATTTATTATTTATCTA-TTATTTATATA
* * *
12490309 TAT-TTATTTCATT-TTT-T-TGTTATTTATCTGTTAA
1 TTTATTATTT-ATTATTTATCTATTATTTA--T-AT-A
* *
12490343 TGTATATATTTATTATTTAT-TATTTATCTAT-TA
1 TTTAT-TATTTATTATTTATCTA-TTATTTATATA
12490376 TTATATATATTTA-TATTTATCTGATTATATTATA-A
1 TT-TAT-TATTTATTATTTATCT-ATTAT-TTATATA
12490411 TTTATCTA-TTATTTATTT
1 TTTAT-TATTTA-TTATTT
12490429 TTAGTTATCT
Statistics
Matches: 145, Mismatches: 13, Indels: 50
0.70 0.06 0.24
Matches are distributed among these distances:
29 3 0.02
30 18 0.12
31 8 0.06
32 18 0.12
33 24 0.17
34 41 0.28
35 16 0.11
36 9 0.06
37 2 0.01
38 6 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (33 bp):
TTTATTATTTATTATTTATCTATTATTTATATA
Found at i:12490396 original size:26 final size:27
Alignment explanation
Indices: 12490349--12490415 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
12490339 TTAATGTATA
12490349 TATT-TAT-TATTTATTATTTATCT-AT
1 TATTATATATATTTA-TATTTATCTGAT
12490374 TATTATATATATTTATATTTATCTGAT
1 TATTATATATATTTATATTTATCTGAT
12490401 TA-TAT-TATAATTTAT
1 TATTATATAT-ATTTAT
12490416 CTATTATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
25 7 0.18
26 21 0.55
27 10 0.26
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (27 bp):
TATTATATATATTTATATTTATCTGAT
Found at i:12490437 original size:41 final size:41
Alignment explanation
Indices: 12490354--12490482 Score: 133
Period size: 41 Copynumber: 3.1 Consensus size: 41
12490344 GTATATATTT
*
12490354 ATTAT-TTATTATTTATCTATTATTATATATATTTATATTTATCTG
1 ATTATATTATAATTTATCTATTATT-TAT-T-TTTA-A-TTATCTG
*
12490399 ATTATATTATAATTTATCTATTATTTATTTTTAGTTATCTG
1 ATTATATTATAATTTATCTATTATTTATTTTTAATTATCTG
*
12490440 -TTAATATTATCATTTATCTGATTA-TT-TTTTTAATTATCT-
1 ATT-ATATTATAATTTATCT-ATTATTTATTTTTAATTATCTG
12490479 ATTA
1 ATTA
12490483 GCATTTTTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 1 0.01
40 16 0.21
41 24 0.32
42 4 0.05
43 4 0.05
44 1 0.01
45 8 0.11
46 18 0.24
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (41 bp):
ATTATATTATAATTTATCTATTATTTATTTTTAATTATCTG
Found at i:12490456 original size:20 final size:19
Alignment explanation
Indices: 12490386--12490459 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
12490376 TTATATATAT
12490386 TTATATTTATCTGATT-ATA
1 TTATATTTATCTG-TTAATA
* *
12490405 TTATAATTTATCTATTATTTA
1 TTAT-ATTTATCTGTTA-ATA
* *
12490426 TTTTTAGTTATCTGTTAATA
1 -TTATATTTATCTGTTAATA
12490446 TTATCATTTATCTG
1 TTAT-ATTTATCTG
12490460 ATTATTTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
19 9 0.21
20 18 0.43
21 12 0.29
22 3 0.07
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATATTTATCTGTTAATA
Found at i:12490772 original size:10 final size:11
Alignment explanation
Indices: 12490751--12490808 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
12490741 TAGGAATCGG
12490751 TGAAAAATTTT
1 TGAAAAATTTT
12490762 TGAAAAATTTT
1 TGAAAAATTTT
* **
12490773 TTACGAATTTTTT
1 TGA--AAAATTTT
* *
12490786 TTAGAAATTTT
1 TGAAAAATTTT
12490797 TGAAAAATTTT
1 TGAAAAATTTT
12490808 T
1 T
12490809 AAATTTCGGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 28 0.76
13 9 0.24
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.52
Consensus pattern (11 bp):
TGAAAAATTTT
Found at i:12491338 original size:17 final size:16
Alignment explanation
Indices: 12491312--12491354 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
12491302 TTTCATTTTT
*
12491312 TTATATTTATTTATTTA
1 TTATA-TTATTTATTGA
12491329 TTATTATTATTTATTGA
1 TTA-TATTATTTATTGA
12491346 TTATATTAT
1 TTATATTAT
12491355 ATTTGTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 16 0.67
18 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATATTATTTATTGA
Found at i:12491376 original size:5 final size:5
Alignment explanation
Indices: 12491368--12491439 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
12491358 TGTTTAATAC
* * *
12491368 TTTTA TTTTA TTTTC CTTTA TTTTTA TTTTTA TTTTCA TTTTCA TTTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A TTTT-A TTTTA
12491417 TCTTTA TTTTA --TTA TTTTA TTTT
1 T-TTTA TTTTA TTTTA TTTTA TTTT
12491440 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.05
5 28 0.50
6 25 0.45
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:12491395 original size:6 final size:6
Alignment explanation
Indices: 12491384--12491439 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
12491374 TTTATTTTCC
* * *
12491384 TTTATT TTTATT TTTATT TTCATT TTCATT TTT-TC TTTA-T TTTATTAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T
12491432 TTTATT TT
1 TTTATT TT
12491440 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 8 0.19
6 28 0.67
7 1 0.02
8 5 0.12
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:12491426 original size:28 final size:27
Alignment explanation
Indices: 12491368--12491444 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 27
12491358 TGTTTAATAC
*
12491368 TTTTATTTTATTTTCCTTTATTTTTAT
1 TTTTATTTTATTTTCATTTATTTTTAT
*
12491395 TTTTATTTTCATTTTCATTTTTTCTTTATT
1 TTTTATTTT-ATTTTCATTTATT-TTTA-T
12491425 TTATTATTTTATTTTC-TTTA
1 TT-TTATTTTATTTTCATTTA
12491445 AATAAAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
27 9 0.21
28 11 0.26
29 7 0.16
30 9 0.21
31 7 0.16
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTATTTTATTTTCATTTATTTTTAT
Found at i:12491434 original size:18 final size:17
Alignment explanation
Indices: 12491369--12491434 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
12491359 GTTTAATACT
*
12491369 TTTATTTTA--TTTTCC
1 TTTATTTTATTTTTTTC
12491384 TTTATTTTTATTTTTATT-
1 TTTA-TTTTATTTTT-TTC
*
12491402 TTCATTTTCA-TTTTTTC
1 TTTATTTT-ATTTTTTTC
*
12491419 TTTATTTTATTATTTT
1 TTTATTTTATTTTTTT
12491435 ATTTTCTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
15 4 0.10
16 8 0.20
17 20 0.50
18 7 0.17
19 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTATTTTTTTC
Found at i:12491526 original size:57 final size:56
Alignment explanation
Indices: 12491458--12491727 Score: 283
Period size: 57 Copynumber: 4.7 Consensus size: 56
12491448 AAAATTCAAA
* * *
12491458 AAAAATATTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAACGTTCC
1 AAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-GTTCC
* * * *
12491515 AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
1 AAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-GTTCC
* * *
12491572 AAAAAGATTTTTTTCAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAATA-TTTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTCC
* * * * ** * *
12491630 AAAAAAAGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCT
1 AAAAATA-TTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAG-TTCC
*
12491688 AAAAA-ATATTTT-GGAAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAATATTTTTTAGG--AAAAGTTGAAAGTATCAATTTTTC
12491728 CTACACAAAA
Statistics
Matches: 180, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
57 114 0.63
58 25 0.14
59 37 0.21
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (56 bp):
AAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTCC
Found at i:12491602 original size:116 final size:112
Alignment explanation
Indices: 12491436--12491725 Score: 343
Period size: 116 Copynumber: 2.5 Consensus size: 112
12491426 TATTATTTTA
* * * *
12491436 TTTTCTTTAAATAAAATTCAAAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTG
1 TTTTCTTAAAATAAATTTC-AAAAAAAT-TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
12491501 AAAATAAACGTTCCAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAAT
64 AAAATAAA-GTTCCAAAAAAAGGTTTTGAGAAAAAGTTGAAAGTATCAAT
*
12491550 TTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTTTCAGGAAAAGTTGAAAGTATCAATTTTTCT
1 TTTTCTT-AAAATAAA-TTTCAAAAAA-ATTTTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCT
* *
12491615 TAAAAATAAATTTTCAAAAAAAGGTTTTGAGAAAAAGTTGAAAGTATCAAT
62 TAAAAATAAAGTTCCAAAAAAAGGTTTTGAGAAAAAGTTGAAAGTATCAAT
* * * *
12491666 TTTTCTCGAAATTAAAGTTTCTAAAAAA-TATTTT-GGAAAAAAGTTGAAAGTATCAATTTT
1 TTTTCT-TAAAATAAA-TTTCAAAAAAATTTTTTTAGG--AAAAGTTGAAAGTATCAATTTT
12491726 TCCTACACAA
Statistics
Matches: 154, Mismatches: 14, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
112 2 0.01
114 34 0.22
115 29 0.19
116 89 0.58
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (112 bp):
TTTTCTTAAAATAAATTTCAAAAAAATTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
AATAAAGTTCCAAAAAAAGGTTTTGAGAAAAAGTTGAAAGTATCAAT
Found at i:12503256 original size:242 final size:242
Alignment explanation
Indices: 12502830--12503340 Score: 634
Period size: 242 Copynumber: 2.1 Consensus size: 242
12502820 TATTATGTGA
* * * **
12502830 AATATTAAAGGTGTTTTAGGCAAAATATGCCTTCAAGAATTCATTGCATCTTTTTTGTATGGATT
1 AATATTAAAGGCGTTTTAGGCAAAAAATACCTTCAAGAATTCATTGCATCTTTTTTGTATAAATT
* * *
12502895 ATTGAATGCGTTTTAAAAAAAATACCTTTAATAATACCAACTAAAAATTAATCGAATAGATTATG
66 ATTGAAGGCGTTTTAAAAAAAACACCTTCAATAATACCAACTAAAAATTAATCGAATAGATTATG
** ** *
12502960 AAAGTTGTTTTCCTACAGGTAACGTCTTGAATAATCCATAACAAAATATTATTGAAGGCGTTTTT
131 AAAGGCGTTTTCCTACAGGTAACACCTTAAATAATCCATAACAAAATATTATTGAAGGCGTTTTT
*
12503025 GGATATAATCGCCTTTAATAATCCGACCATTAAAATTTATTGTCTTG
196 GGATATAATCGCCTTCAATAATCCGACCATTAAAATTTATTGTCTTG
* *
12503072 AATATTAATGGCGTTTTAGGCAAAAAAATACCTTCAAGAA-TC-TGTCTCATCTTTTTTGTATAA
1 AATATTAAAGGCGTTTTAGGC-AAAAAATACCTTCAAGAATTCAT-T-GCATCTTTTTTGTATAA
* * * * * *
12503135 ATTATTGAAGGC-TTTTTAAACAAACGCCTTCAATAATACTAATTAAAAATTAATCGAATGGATT
63 ATTATTGAAGGCGTTTTAAAAAAAACACCTTCAATAATACCAACTAAAAATTAATCGAATAGATT
* * * * *
12503199 ATGAAGGGCGTTTTCCTATAGGTAACACCTTAAATAATCTATAAGAAAATGTTATTGAAGGCGTT
128 ATGAAAGGCGTTTTCCTACAGGTAACACCTTAAATAATCCATAACAAAATATTATTGAAGGCGTT
* * ** **
12503264 TTTTGATATAATTGCCTTCAATAATTTGACCATTAAAATTTATCAT-TTAG
193 TTTGGATATAATCGCCTTCAATAATCCGACCATTAAAATTTATTGTCTT-G
* *
12503314 AATATTAAAGGTGTTTTGAGCCAAAAA
1 AATATTAAAGGCGTTTT-AGGCAAAAA
12503341 CGTCTTTAAG
Statistics
Matches: 228, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
241 3 0.01
242 181 0.79
243 44 0.19
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (242 bp):
AATATTAAAGGCGTTTTAGGCAAAAAATACCTTCAAGAATTCATTGCATCTTTTTTGTATAAATT
ATTGAAGGCGTTTTAAAAAAAACACCTTCAATAATACCAACTAAAAATTAATCGAATAGATTATG
AAAGGCGTTTTCCTACAGGTAACACCTTAAATAATCCATAACAAAATATTATTGAAGGCGTTTTT
GGATATAATCGCCTTCAATAATCCGACCATTAAAATTTATTGTCTTG
Found at i:12503395 original size:242 final size:241
Alignment explanation
Indices: 12502830--12503415 Score: 599
Period size: 242 Copynumber: 2.4 Consensus size: 241
12502820 TATTATGTGA
* * * * * * * * *
12502830 AATATTAAAGGTGTTTTAGGC-AAAATATGCCTTCAAGAATTCAT-TGCATCTTTTTTGTATGGA
1 AATATTAAAGGCGTTTTAGCCAAAAAAAT-ACTTCAAGAATCCGTCT-CAACTTTTGTCTATGGA
* **
12502893 TTATTGAAT-GCGTTTTAAAAAAAATACCTTTAATAATACCAACTAAAAATTAATCGAATAGATT
64 TTATTG-ATGGC-TTTTTAAAAAAACGCCTTTAATAATACCAACTAAAAATTAATCGAATAGATT
** ** *
12502957 ATGAAAGTTGTTTTCCTACAGGTAACGTCTTGAATAATCCATAACAAAATATTATTGAAGGCGTT
127 ATGAAAGGCGTTTTCCTACAGGTAACACCTTAAATAATCCATAACAAAATATTATTGAAGGCGTT
* **
12503022 TTTGGATATAATCGCCTTTAATAATCCGACCATTAAAATTTATTGTCTTG
192 TTTGGATATAATCGCCTTCAATAATCCGACCATTAAAATTTATCATCTTG
* * * * * * **
12503072 AATATTAATGGCGTTTTAGGCAAAAAAATACCTTCAAGAATCTGTCTCATCTTTTTTGTATAAAT
1 AATATTAAAGGCGTTTTAGCCAAAAAAATA-CTTCAAGAATCCGTCTCAACTTTTGTCTATGGAT
* * * * * *
12503137 TATTGAAGGCTTTTTAAACAAACGCCTTCAATAATACTAATTAAAAATTAATCGAATGGATTATG
65 TATTGATGGCTTTTTAAAAAAACGCCTTTAATAATACCAACTAAAAATTAATCGAATAGATTATG
* * * * *
12503202 AAGGGCGTTTTCCTATAGGTAACACCTTAAATAATCTATAAGAAAATGTTATTGAAGGCGTTTTT
130 AAAGGCGTTTTCCTACAGGTAACACCTTAAATAATCCATAACAAAATATTATTGAAGGCGTTTTT
* * **
12503267 TGATATAATTGCCTTCAATAATTTGACCATTAAAATTTATCAT-TTAG
195 GGATATAATCGCCTTCAATAATCCGACCATTAAAATTTATCATCTT-G
* ** * *
12503314 AATATTAAAGGTGTTTTGAGCCAAAAACGT-CTTTAAGCATCCGT-TCAAACTTTTGTCTATGGA
1 AATATTAAAGGCGTTTT-AGCCAAAAAAATACTTCAAGAATCCGTCTC-AACTTTTGTCTATGGA
12503377 TTATTGATGGCATTTTTAACAAAAATCGCCTTTAATAAT
64 TTATTGATGGC-TTTTTAA-AAAAA-CGCCTTTAATAAT
12503416 CATAACAAAA
Statistics
Matches: 283, Mismatches: 51, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
240 2 0.01
241 34 0.12
242 181 0.64
243 53 0.19
244 13 0.05
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (241 bp):
AATATTAAAGGCGTTTTAGCCAAAAAAATACTTCAAGAATCCGTCTCAACTTTTGTCTATGGATT
ATTGATGGCTTTTTAAAAAAACGCCTTTAATAATACCAACTAAAAATTAATCGAATAGATTATGA
AAGGCGTTTTCCTACAGGTAACACCTTAAATAATCCATAACAAAATATTATTGAAGGCGTTTTTG
GATATAATCGCCTTCAATAATCCGACCATTAAAATTTATCATCTTG
Found at i:12505830 original size:2 final size:2
Alignment explanation
Indices: 12505823--12505848 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12505813 TTTCTTTTTG
12505823 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
12505849 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12505853 original size:2 final size:2
Alignment explanation
Indices: 12505848--12505875 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12505838 TCTCTCTCTC
12505848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12505876 CGATTATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12507228 original size:2 final size:2
Alignment explanation
Indices: 12507221--12507256 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12507211 TTGGAACCGG
*
12507221 TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12507257 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12507261 original size:2 final size:2
Alignment explanation
Indices: 12507256--12507284 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12507246 ATATATATAT
12507256 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12507285 CTTACGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12522471 original size:128 final size:127
Alignment explanation
Indices: 12522303--12522713 Score: 346
Period size: 128 Copynumber: 3.2 Consensus size: 127
12522293 AATGTCACTA
*
12522303 TTTACAAAGAGGATTATTCAAGGCATTTTTTG-AAAAAAAAATGCCTTCAATAATCCCCTCAAAT
1 TTTA-AAA-AGGATTATTAAAGGCATTTTTTGTAAAAAAAAATGCCTTCAATAATCCCCTC-AAT
* * * *
12522367 TTTTTTGAGAGGACTATTGAAGGCGTTTGTTTGA-CCAAAAATA-CTTTCAATAATCTTCTTTAA
63 TTTTTTGAGAGGATTATTGAAGGCGTTT-TTT-ATCAAAAAATACCTTT-AATAATCCTCTCTAA
*
12522430 TTT
125 TAT
* * * *
12522433 TTTAAAAAGGATTATTAAAGGCGTTTTCTGTAAAAAAAAATACTTTCAATAATCCCCTTC-ATTT
1 TTTAAAAAGGATTATTAAAGGCATTTTTTGTAAAAAAAAATGCCTTCAATAATCCCC-TCAATTT
* * *
12522497 TATATGATAAGATTATTGAAGGCGTTTTTTATCAAAAAATACCTTTAATAATCCTCTCTAATAT
65 T-TTTGAGAGGATTATTGAAGGCGTTTTTTATCAAAAAATACCTTTAATAATCCTCTCTAATAT
* * * * * * **** * *
12522561 TTTGAAAAGCATTATTGATGGCCTTTTTTTTGGCCAAAAACGCCTTCAATAATCCCCTGTAATTT
1 TTTAAAAAGGATTATTAAAGGCATTTTTTGTAAAAAAAAATGCCTTCAATAATCCCCT-CAATTT
* * * * * * *
12522626 TTTTAGAGAGGATTATTGAAAGTGTTTTATGTA-AAAATAAAAAACTTTAATAATCCTTTCCAAT
65 TTTT-GAGAGGATTATTGAAGGCGTTTT-T-TATCAAA-AAATACCTTTAATAATCCTCTCTAAT
*
12522690 TT
126 AT
* * *
12522692 TTTATAAGGGATTATCAAAGGC
1 TTTAAAAAGGATTATTAAAGGC
12522714 GTTCCAAGCA
Statistics
Matches: 224, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
127 2 0.01
128 96 0.43
129 76 0.34
130 10 0.04
131 40 0.18
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (127 bp):
TTTAAAAAGGATTATTAAAGGCATTTTTTGTAAAAAAAAATGCCTTCAATAATCCCCTCAATTTT
TTTGAGAGGATTATTGAAGGCGTTTTTTATCAAAAAATACCTTTAATAATCCTCTCTAATAT
Found at i:12522484 original size:65 final size:63
Alignment explanation
Indices: 12522303--12522716 Score: 196
Period size: 64 Copynumber: 6.4 Consensus size: 63
12522293 AATGTCACTA
* * * * **
12522303 TTTACAAAGAGGATTATTCAAGGCATTTTT-TGAAAAAAAAATGCCTTCAATAATCCCCTCAAAT
1 TTTA-AAA-AGGATTATTAAAGGCGTTTTTGT-AAAAAAAAATACTTTCAATAAT-CCCTTTAAT
12522367 TT
62 TT
** * * * * ** *
12522369 TTTTGAGAGGACTATTGAAGGCGTTTGTT-TGACCAAAAATACTTTCAATAATCTTCTTTAATTT
1 TTTAAAAAGGATTATTAAAGGCGTTT-TTGTAAAAAAAAATACTTTCAATAATC-CCTTTAATTT
* *
12522433 TTTAAAAAGGATTATTAAAGGCGTTTTCTGTAAAAAAAAATACTTTCAATAATCCCCTTCATTT
1 TTTAAAAAGGATTATTAAAGGCGTTTT-TGTAAAAAAAAATACTTTCAATAATCCCTTTAATTT
* * * ** *
12522497 TATATGATAA-GATTATTGAAGGCGTTTTT-TATCAAAAAATACCTTT-AATAATCCTCTCTAAT
1 T-T-TAAAAAGGATTATTAAAGGCGTTTTTGTAAAAAAAAATA-CTTTCAATAATCC-CTTTAAT
*
12522559 AT
62 TT
* * * * * * **** ** * *
12522561 TTTGAAAAGCATTATTGATGGCCTTTTTTTTGGCCAAAAACGCCTTCAATAATCCCCTGTAATTT
1 TTTAAAAAGGATTATTAAAGG-CGTTTTTGTAAAAAAAAATACTTTCAATAAT-CCCTTTAA-TT
12522626 T
63 T
* * * *
12522627 TTTAGAGAGGATTATTGAAA-GTGTTTTATGTAAAAATAAAAAACTTT-AATAAT-CCTTTCCAA
1 TTTAAAAAGGATTATT-AAAGGCGTTTT-TGTAAAAA-AAAATACTTTCAATAATCCCTTT--AA
12522689 TTT
61 TTT
* * *
12522692 TTTATAAGGGATTATCAAAGGCGTT
1 TTTAAAAAGGATTATTAAAGGCGTT
12522717 CCAAGCAAAA
Statistics
Matches: 260, Mismatches: 68, Indels: 41
0.70 0.18 0.11
Matches are distributed among these distances:
62 5 0.02
63 31 0.12
64 97 0.37
65 84 0.32
66 35 0.13
67 8 0.03
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (63 bp):
TTTAAAAAGGATTATTAAAGGCGTTTTTGTAAAAAAAAATACTTTCAATAATCCCTTTAATTT
Found at i:12522575 original size:63 final size:60
Alignment explanation
Indices: 12522314--12522589 Score: 203
Period size: 64 Copynumber: 4.3 Consensus size: 60
12522304 TTACAAAGAG
* * * * * * * * *
12522314 GATTATTCAAGGCATTTTTTGAAAAAAAAATGCCTTCAATAATCCCCTCAAATTTTTTTGAGAG
1 GATTATTGAAGGCGTTTTTT--ACAAAAAATACTTTCAATAATCCTCT-TAA-TTTTTTGAAAA
* * * *
12522378 GACTATTGAAGGCGTTTGTTTGACCAAAAATACTTTCAATAATCTTCTTTAATTTTTTAAAAA
1 GATTATTGAAGGCGTTT-TTT-ACAAAAAATACTTTCAATAATCCTC-TTAATTTTTTGAAAA
* * * * *
12522441 GGATTATTAAAGGCGTTTTCTGTAAAAAAAAATACTTTCAATAATCCCCTTCATTTTATATGATA
1 -GATTATTGAAGGCGTTTT-T-T-ACAAAAAATACTTTCAATAATCCTCTTAATTTT-T-TGAAA
12522506 A
60 A
*
12522507 GATTATTGAAGGCGTTTTTTATCAAAAAATACCTTT-AATAATCCTCTCTAATATTTTGAAAA
1 GATTATTGAAGGCGTTTTTTA-CAAAAAATA-CTTTCAATAATCCTCT-TAATTTTTTGAAAA
* *
12522569 GCATTATTGATGGCCTTTTTT
1 G-ATTATTGAAGGCGTTTTTT
12522590 TTGGCCAAAA
Statistics
Matches: 169, Mismatches: 32, Indels: 23
0.75 0.14 0.10
Matches are distributed among these distances:
62 7 0.04
63 46 0.27
64 68 0.40
65 44 0.26
66 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (60 bp):
GATTATTGAAGGCGTTTTTTACAAAAAATACTTTCAATAATCCTCTTAATTTTTTGAAAA
Found at i:12523225 original size:62 final size:64
Alignment explanation
Indices: 12523074--12523227 Score: 159
Period size: 62 Copynumber: 2.4 Consensus size: 64
12523064 ACAAAGATAT
* * * **
12523074 TTATTGAAGCCGTTTTTGACAAAAAAAAATACCTTCAATAATTTCTTTCAATTTTTTTAGAAGGG
1 TTATTGAAGGCATTTTAGAC-AAAAAAAATACCTTCAATAATCCCTTTCAA-TTTTTTAGAAGGG
12523139 A
64 A
** * * *
12523140 TTATTGAAGGCATTTTCTACAAAAAAAA-ACCTTCAGTAATCCCTTTGAA-TTTTTATAAGGGA
1 TTATTGAAGGCATTTTAGACAAAAAAAATACCTTCAATAATCCCTTTCAATTTTTTAGAAGGGA
** *
12523202 TTATTGAAGGTGTTTTAGGCAAAAAA
1 TTATTGAAGGCATTTTAGACAAAAAA
12523228 CGCCTTGAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
62 33 0.45
64 17 0.23
65 8 0.11
66 16 0.22
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (64 bp):
TTATTGAAGGCATTTTAGACAAAAAAAATACCTTCAATAATCCCTTTCAATTTTTTAGAAGGGA
Found at i:12530333 original size:13 final size:14
Alignment explanation
Indices: 12530296--12530330 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
12530286 CGTTAAATAA
12530296 AAAATTTTATTTTT
1 AAAATTTTATTTTT
12530310 AAAATTTTATTTTT
1 AAAATTTTATTTTT
*
12530324 AATATTT
1 AAAATTT
12530331 ATTATTATAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAAATTTTATTTTT
Done.