Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold324
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: 2336777
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 8 of 16
Found at i:1106397 original size:62 final size:62
Alignment explanation
Indices: 1106281--1106398 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
1106271 CTTCGATATC
* * * *
1106281 TTAGTATGAATTCAGATAATTTTTCAAAGTCAAAGTCAAAAAATAATTAGAAGTTTGATGAT
1 TTAGTATGAATACAAAGAATTTTTCAAAGTCAAAGTCAAAAAATAATTAAAAGTTTGATGAT
*
1106343 TTAGTATGAATACAAAGAATTTTTCAAAGT-AAA-TCCAAAGAATAATTAAAAAGTTT
1 TTAGTATGAATACAAAGAATTTTTCAAAGTCAAAGT-CAAAAAATAATT-AAAAGTTT
1106399 AGTGCTTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 1 0.02
61 14 0.29
62 34 0.69
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.34
Consensus pattern (62 bp):
TTAGTATGAATACAAAGAATTTTTCAAAGTCAAAGTCAAAAAATAATTAAAAGTTTGATGAT
Found at i:1108218 original size:34 final size:33
Alignment explanation
Indices: 1108170--1108390 Score: 257
Period size: 34 Copynumber: 6.5 Consensus size: 33
1108160 TGGTAAAAAC
*
1108170 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
1108203 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
1108237 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
1108271 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * * *
1108305 CTCCCATTTAGTCGACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
1108339 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
1108373 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1108391 TCTCCCACTT
Statistics
Matches: 160, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 23 0.14
34 131 0.82
35 6 0.04
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:1108286 original size:68 final size:67
Alignment explanation
Indices: 1108172--1108390 Score: 287
Period size: 68 Copynumber: 3.2 Consensus size: 67
1108162 GTAAAAACCA
* * *
1108172 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
1108237 CAC
65 CAC
* * * *
1108240 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
1108305 CTC
65 CAC
* * * * *
1108308 CCATTTAGTCGACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
1108373 CA-
65 CAC
1108375 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
1108391 TCTCCCACTT
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
67 16 0.12
68 113 0.87
69 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:1108349 original size:102 final size:101
Alignment explanation
Indices: 1108170--1108390 Score: 343
Period size: 102 Copynumber: 2.2 Consensus size: 101
1108160 TGGTAAAAAC
* *
1108170 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
1108235 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * * *
1108271 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCGACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
1108336 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1108373 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1108391 TCTCCCACTT
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 16 0.15
102 91 0.85
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:1112844 original size:34 final size:33
Alignment explanation
Indices: 1112796--1113015 Score: 237
Period size: 34 Copynumber: 6.5 Consensus size: 33
1112786 TGGTAAAAAC
**
1112796 CACCATTTAATCAACAATGACAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
1112829 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
1112863 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
1112897 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * * **
1112931 CTCCCATTTAGTCGACAATGACAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATG-GTAACCTACCAAAT
*
1112965 CACCGATTTAATCAACAATGGTAAACTACCAAAT
1 CACC-ATTTAATCAACAATGGTAACCTACCAAAT
1112999 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
1113016 AATGTAATAA
Statistics
Matches: 156, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
33 22 0.14
34 128 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:1112912 original size:68 final size:67
Alignment explanation
Indices: 1112798--1113015 Score: 276
Period size: 68 Copynumber: 3.2 Consensus size: 67
1112788 GTAAAAACCA
* * *
1112798 CCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
1112863 CAC
65 CAC
* ** * *
1112866 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
1112931 CTC
65 CAC
* * * * *
1112934 CCATTTAGTCGACAATGACAAACCACCAAATCACCGATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAATTACC-ATTTAATCAACAATGGTAAGCTACCAAAT
1112999 CA-
65 CAC
1113001 CCATTTAATCAACAA
1 CCATTTAATCAACAA
1113016 AATGTAATAA
Statistics
Matches: 127, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
67 16 0.13
68 111 0.87
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGACAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:1112940 original size:102 final size:101
Alignment explanation
Indices: 1112796--1113015 Score: 314
Period size: 102 Copynumber: 2.2 Consensus size: 101
1112786 TGGTAAAAAC
** *
1112796 CACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAA
* *
1112861 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** ** * * *
1112897 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCGACAATGACAAACCACCA
1 CAC-CATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCA
*
1112962 AATCACCGATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1112999 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
1113016 AATGTAATAA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 15 0.15
102 88 0.85
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:1114329 original size:24 final size:24
Alignment explanation
Indices: 1114293--1114362 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
1114283 AATGAAAATT
*
1114293 AGCCATCAA-TTTTGACAAACAACA
1 AGCCA-CAATTTTTGACAAACAAAA
*
1114317 AGCCACAATTTTTGATAAACAAAA
1 AGCCACAATTTTTGACAAACAAAA
*
1114341 AGGAACCACCATTTTTGACAAA
1 A-G--CCACAATTTTTGACAAA
1114363 TACAAAAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 3 0.08
24 19 0.50
25 1 0.03
27 15 0.39
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (24 bp):
AGCCACAATTTTTGACAAACAAAA
Found at i:1114370 original size:28 final size:27
Alignment explanation
Indices: 1114302--1114371 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
1114292 TAGCCATCAA
*
1114302 TTTTGACAAACAACAA-G--CCACAAT
1 TTTTGACAAACAAAAAGGAACCACAAT
* *
1114326 TTTTGATAAACAAAAAGGAACCACCAT
1 TTTTGACAAACAAAAAGGAACCACAAT
*
1114353 TTTTGACAAATACAAAAGG
1 TTTTGACAAACA-AAAAGG
1114372 TGGCTTTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 14 0.38
25 1 0.03
27 16 0.43
28 6 0.16
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (27 bp):
TTTTGACAAACAAAAAGGAACCACAAT
Found at i:1118799 original size:24 final size:26
Alignment explanation
Indices: 1118770--1118839 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
1118760 TAGTCATTAA
*
1118770 TTTTGACAAACAACAA-G-CCACAAT
1 TTTTGACAAACAAAAAGGACCACAAT
*
1118794 TTTTGACAAACAAAAAGGAACCACCAT
1 TTTTGACAAACAAAAAGG-ACCACAAT
*
1118821 TTTTGACAAATACAAAAGG
1 TTTTGACAAACA-AAAAGG
1118840 TGGCTTTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 15 0.38
25 1 0.03
27 17 0.44
28 6 0.15
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.21
Consensus pattern (26 bp):
TTTTGACAAACAAAAAGGACCACAAT
Found at i:1123324 original size:2 final size:2
Alignment explanation
Indices: 1123317--1123352 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1123307 TAGGATGAGT
1123317 TA TA TA TA 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 TA TA TA TA
1123353 AGGCATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1123720 original size:27 final size:27
Alignment explanation
Indices: 1123671--1123722 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1123661 AATTAATTTG
* * *
1123671 ATATTTGATTTATATTATAATGATAAC
1 ATATATGATTAATATTAGAATGATAAC
*
1123698 ATATATGATTAATATTAGCATGATA
1 ATATATGATTAATATTAGAATGATA
1123723 TTTTAATACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (27 bp):
ATATATGATTAATATTAGAATGATAAC
Found at i:1125177 original size:17 final size:16
Alignment explanation
Indices: 1125148--1125190 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
1125138 AAAAATAAAT
*
1125148 TTTATATTTATTTATTA
1 TTTAT-TTTATTTATAA
1125165 TTTATTTTGATTTATAA
1 TTTATTTT-ATTTATAA
1125182 TTTAATTTT
1 TTT-ATTTT
1125191 TTACATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTATTTTATTTATAA
Found at i:1125792 original size:19 final size:19
Alignment explanation
Indices: 1125770--1125809 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1125760 CAAAATTATT
1125770 TTTTAAATTAAAAATAATA
1 TTTTAAATTAAAAATAATA
* *
1125789 TTTTAATTTATAAATAATA
1 TTTTAAATTAAAAATAATA
1125808 TT
1 TT
1125810 CCATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTAAATTAAAAATAATA
Found at i:1126098 original size:13 final size:13
Alignment explanation
Indices: 1126066--1126098 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1126056 AATCACAAAA
*
1126066 TTAAAAGAAAATT
1 TTAAAATAAAATT
1126079 TTAAAATAAAATT
1 TTAAAATAAAATT
1126092 TTAAAAT
1 TTAAAAT
1126099 TTATAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:1127800 original size:35 final size:34
Alignment explanation
Indices: 1127736--1127802 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
1127726 TTTATTTTTA
**
1127736 TATATTATATTTTAATAATTTTTTGTATCGTATT
1 TATATTATATTTTAATAATTGATTGTATCGTATT
1127770 TATATTATATTTTAAATAATTAGATT-TATCGTA
1 TATATTATATTTT-AATAATT-GATTGTATCGTA
1127803 GAGTTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 13 0.45
35 14 0.48
36 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (34 bp):
TATATTATATTTTAATAATTGATTGTATCGTATT
Found at i:1128300 original size:38 final size:38
Alignment explanation
Indices: 1128223--1128300 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
1128213 GAAGCATACT
* *
1128223 TTGATATCTTAGTAAGGATTCAAAGAATTATCAGAAGG
1 TTGATATCTTAGTAAGGATTCAAAAAATAATCAGAAGG
* * *
1128261 TTGATGTCTTAG-AATGGATTCAAAAAATAATTAGGAGG
1 TTGATATCTTAGTAA-GGATTCAAAAAATAATCAGAAGG
1128299 TT
1 TT
1128301 AAGTACTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 32 0.94
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (38 bp):
TTGATATCTTAGTAAGGATTCAAAAAATAATCAGAAGG
Found at i:1128505 original size:13 final size:13
Alignment explanation
Indices: 1128487--1128517 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1128477 TATTGAGCTT
1128487 AAATAAAAATAAA
1 AAATAAAAATAAA
*
1128500 AAATAAAAATATA
1 AAATAAAAATAAA
1128513 AAATA
1 AAATA
1128518 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:1128665 original size:16 final size:17
Alignment explanation
Indices: 1128629--1128666 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1128619 ATTCTAATGC
*
1128629 ATAAAAGTAAGATAAAG
1 ATAAAAATAAGATAAAG
*
1128646 ATAAAAATAA-ATAAAT
1 ATAAAAATAAGATAAAG
1128662 ATAAA
1 ATAAA
1128667 TTTTATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAGATAAAG
Found at i:1134598 original size:2 final size:2
Alignment explanation
Indices: 1134591--1134618 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1134581 TAGGATGAGT
1134591 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
1134619 AGGCATATGT
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:1134986 original size:27 final size:27
Alignment explanation
Indices: 1134937--1134988 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1134927 AATTAATTTG
* * *
1134937 ATATTTGATTTATATTATAATGATAAC
1 ATATATGATTAATATTAGAATGATAAC
*
1134964 ATATATGATTAATATTAGCATGATA
1 ATATATGATTAATATTAGAATGATA
1134989 TTTTAATACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (27 bp):
ATATATGATTAATATTAGAATGATAAC
Found at i:1136441 original size:17 final size:16
Alignment explanation
Indices: 1136412--1136454 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
1136402 AAAAATAAAT
*
1136412 TTTATATTTATTTATTA
1 TTTAT-TTTATTTATAA
1136429 TTTATTTTGATTTATAA
1 TTTATTTT-ATTTATAA
1136446 TTTAATTTT
1 TTT-ATTTT
1136455 TTACATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTATTTTATTTATAA
Found at i:1137056 original size:19 final size:19
Alignment explanation
Indices: 1137034--1137074 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1137024 CAAAATTATT
1137034 TTTTAAATTAAAAATAATA
1 TTTTAAATTAAAAATAATA
* *
1137053 TTTTAATTTATAAATAATA
1 TTTTAAATTAAAAATAATA
1137072 TTT
1 TTT
1137075 CATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAATTAAAAATAATA
Found at i:1139787 original size:13 final size:13
Alignment explanation
Indices: 1139769--1139799 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1139759 TATTGAGCTT
1139769 AAATAAAAATAAA
1 AAATAAAAATAAA
*
1139782 AAATAAAAATATA
1 AAATAAAAATAAA
1139795 AAATA
1 AAATA
1139800 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:1139947 original size:16 final size:17
Alignment explanation
Indices: 1139911--1139948 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1139901 ATTCTAATGC
*
1139911 ATAAAAGTAAGATAAAG
1 ATAAAAATAAGATAAAG
*
1139928 ATAAAAATAA-ATAAAT
1 ATAAAAATAAGATAAAG
1139944 ATAAA
1 ATAAA
1139949 TTTTATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAGATAAAG
Found at i:1140765 original size:1 final size:1
Alignment explanation
Indices: 1140722--1140750 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1140712 GAAGGGGTCG
1140722 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1140751 GGGCTTTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1141174 original size:11 final size:11
Alignment explanation
Indices: 1141136--1141176 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1141126 AAATTTAGGT
1141136 AAAAAAGAAAG
1 AAAAAAGAAAG
*
1141147 AAAGAAGATGAAG
1 AAAAAAGA--AAG
1141160 AAAAAAGAAAG
1 AAAAAAGAAAG
1141171 AAAAAA
1 AAAAAA
1141177 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1148894 original size:30 final size:31
Alignment explanation
Indices: 1148854--1148911 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
1148844 GTACTGTGAC
*
1148854 CTTTTCAAAGTCCACGACTCAGTGGCATTTT
1 CTTTTCAAAGTCCACAACTCAGTGGCATTTT
*
1148885 CTTTT-AAAGTCCACAACTCCGTGGCAT
1 CTTTTCAAAGTCCACAACTCAGTGGCAT
1148912 CCTTTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (31 bp):
CTTTTCAAAGTCCACAACTCAGTGGCATTTT
Found at i:1148946 original size:46 final size:46
Alignment explanation
Indices: 1148879--1148972 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
1148869 GACTCAGTGG
* *
1148879 CATTTTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1148925 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1148971 CA
1 CA
1148973 ACTCCGTGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (46 bp):
CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
Found at i:1148970 original size:27 final size:27
Alignment explanation
Indices: 1148931--1149776 Score: 1440
Period size: 27 Copynumber: 31.0 Consensus size: 27
1148921 TTCACATTTT
1148931 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1148959 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * **
1148986 CTTTCAAGTCCACAACTCCGTAGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149013 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149040 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1149068 TTTTTAAGTCCACAACTCCGTGGCCCC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149095 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149122 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149149 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149176 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1149204 CTTTTAAGTCCACAACTCTGTGGCCCC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149231 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149258 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1149286 CTTTTAAGTCCACAGCTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149313 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1149341 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149368 CTTTTAGGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149395 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149422 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1149450 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149477 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149504 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1149532 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149559 CTTTTAGGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149586 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149613 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149640 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1149668 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149695 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1149722 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1149749 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1149776 C
1 C
1149777 ATTCCAAAGC
Statistics
Matches: 773, Mismatches: 38, Indels: 15
0.94 0.05 0.02
Matches are distributed among these distances:
27 588 0.76
28 185 0.24
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1149099 original size:82 final size:81
Alignment explanation
Indices: 1148931--1149776 Score: 1440
Period size: 82 Copynumber: 10.3 Consensus size: 81
1148921 TTCACATTTT
*
1148931 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* **
1148996 CACAACTCCGTAGCATT
65 CACAACTCCGTGGCACC
* *
1149013 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1149078 CACAACTCCGTGGCCCC
65 CACAACTCCGTGGCACC
1149095 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1149160 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* *
1149176 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCTGTGGCCCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1149241 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
1149258 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAGCTCCGTGGCATCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1149323 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
*
1149341 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1149406 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
1149422 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1149487 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
1149504 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTAGGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1149569 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
1149586 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
1149651 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
1149668 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1149733 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* *
1149749 CTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCC
1149777 ATTCCAAAGC
Statistics
Matches: 726, Mismatches: 33, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
81 202 0.28
82 497 0.68
83 27 0.04
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:1149126 original size:109 final size:108
Alignment explanation
Indices: 1148931--1149776 Score: 1440
Period size: 109 Copynumber: 7.8 Consensus size: 108
1148921 TTCACATTTT
*
1148931 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* ** *
1148996 CACAACTCCGTAGCATTCTTTTAAGTCCACAACTCTGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1149040 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1149105 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1149149 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
1149214 CACAACTCTGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1149258 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAGCTCCGTGGCATCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1149323 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
1149368 CTTTTAGGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1149433 ACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
1149477 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1149542 CACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1149586 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
1149651 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1149695 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1149760 ACAACTCTGTGGCACCC
66 ACAACTCCGTGGCACCC
1149777 ATTCCAAAGC
Statistics
Matches: 699, Mismatches: 32, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
108 72 0.10
109 523 0.75
110 104 0.15
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.28
Consensus pattern (108 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1149817 original size:32 final size:32
Alignment explanation
Indices: 1149759--1150343 Score: 783
Period size: 32 Copynumber: 18.8 Consensus size: 32
1149749 CTTTTAAATC
* * *
1149759 CACAACTCTGTGGC-ACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1149790 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1149822 CACAAGTTGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
1149852 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1149882 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1149910 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1149938 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1149968 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1149998 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1150030 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1150062 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1150094 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1150126 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1150157 CAAAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1150189 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1150221 CACAAGTCGGTGGCGACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1150253 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1150285 CACAAGTCGGGGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
1150317 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
1150344 TCACCATTTT
Statistics
Matches: 504, Mismatches: 39, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
28 57 0.11
29 12 0.02
30 67 0.13
31 46 0.09
32 322 0.64
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1150427 original size:45 final size:47
Alignment explanation
Indices: 1150376--1150494 Score: 127
Period size: 49 Copynumber: 2.5 Consensus size: 47
1150366 GTCCGATATT
*
1150376 GCTGGCCTTGAATCAGCATATTGG-CACCTTT-CTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
* * * *
1150421 GCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCTTAGCCCGATGTC
1 GCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCTAAGCCCAATGTC
* *
1150470 GCTGACCTTGAAAT-GGCACATTGGC
1 GCTGGCCTTG-AATCAGCACATTGGC
1150495 ATTCCTCTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 22 0.36
47 6 0.10
48 1 0.02
49 30 0.49
50 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (47 bp):
GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
Found at i:1151220 original size:1 final size:1
Alignment explanation
Indices: 1151178--1151205 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
1151168 GAAGGGGTCG
1151178 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1151206 GGGCTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1151629 original size:11 final size:11
Alignment explanation
Indices: 1151591--1151631 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1151581 AAATTTAGGT
1151591 AAAAAAGAAAG
1 AAAAAAGAAAG
*
1151602 AAAGAAGATGAAG
1 AAAAAAGA--AAG
1151615 AAAAAAGAAAG
1 AAAAAAGAAAG
1151626 AAAAAA
1 AAAAAA
1151632 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1157201 original size:19 final size:19
Alignment explanation
Indices: 1157149--1157194 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1157139 TTATTTTTTA
1157149 TAAAATAATAATTT-AAAT
1 TAAAATAATAATTTAAAAT
*
1157167 TAAAATGAATTATTTAAAAT
1 TAAAAT-AATAATTTAAAAT
1157187 TAAAATAA
1 TAAAATAA
1157195 AACTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAATAATAATTTAAAAT
Found at i:1159463 original size:16 final size:17
Alignment explanation
Indices: 1159442--1159476 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1159432 TTATTTAAAC
*
1159442 TTTT-AAAATAATTATT
1 TTTTAAAAAAAATTATT
1159458 TTTTAAAAAAAATTATT
1 TTTTAAAAAAAATTATT
1159475 TT
1 TT
1159477 ACACTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAAAAATTATT
Found at i:1160275 original size:25 final size:24
Alignment explanation
Indices: 1160246--1160297 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1160236 AAAATATATA
*
1160246 TTTAAAAAT-TATTTCATTCAAAGTT
1 TTTAAAAATATATTT--TTAAAAGTT
1160271 TTT-AAAATATATTTTTAAAAGTT
1 TTTAAAAATATATTTTTAAAAGTT
1160294 TTTA
1 TTTA
1160298 TCAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
23 11 0.46
24 5 0.21
25 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTAAAAATATATTTTTAAAAGTT
Found at i:1161134 original size:19 final size:18
Alignment explanation
Indices: 1161110--1161154 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
1161100 TTATATAAAA
1161110 ATATTAAAAATTTATTTTT
1 ATATTAAAAA-TTATTTTT
*
1161129 ATATT-AATATTATTTTT
1 ATATTAAAAATTATTTTT
1161146 ATAATTAAA
1 AT-ATTAAA
1161155 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTAAAAATTATTTTT
Found at i:1162229 original size:7 final size:7
Alignment explanation
Indices: 1162217--1162245 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1162207 CAAAATATAC
1162217 TTTTTAT
1 TTTTTAT
1162224 TTTTTAT
1 TTTTTAT
1162231 TTTTTA-
1 TTTTTAT
1162237 TTTTTAT
1 TTTTTAT
1162244 TT
1 TT
1162246 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:1162240 original size:13 final size:14
Alignment explanation
Indices: 1162217--1162245 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1162207 CAAAATATAC
1162217 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
1162231 TTTTTA-TTTTTAT
1 TTTTTATTTTTTAT
1162244 TT
1 TT
1162246 ATAATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:1162855 original size:19 final size:19
Alignment explanation
Indices: 1162833--1162872 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1162823 CAAAATTATT
1162833 TTTTAAATTAAAAATAATA
1 TTTTAAATTAAAAATAATA
* *
1162852 TTTTAATTTATAAATAATA
1 TTTTAAATTAAAAATAATA
1162871 TT
1 TT
1162873 CCATAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTAAATTAAAAATAATA
Found at i:1165464 original size:50 final size:50
Alignment explanation
Indices: 1165384--1165615 Score: 356
Period size: 50 Copynumber: 4.6 Consensus size: 50
1165374 ATGACCACAT
* * * *
1165384 TTGTCAAAGGTTGGTGAAGAATCGTTAACAATAATGGTCACCTCTCTTTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTA
* * *
1165434 TTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGCCATCTCCCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTA
* *
1165484 TTGTCAAATGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTTTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTA
*
1165534 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGTCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTA
* *
1165584 TTGTCAAAGGTTGGTGAAGGATAGTCAACAAT
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAAT
1165616 GACAACAACT
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 165 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTA
Found at i:1166286 original size:2 final size:2
Alignment explanation
Indices: 1166273--1166310 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1166263 ATTATATTTA
*
1166273 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1166311 TAAAGGGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1168296 original size:24 final size:22
Alignment explanation
Indices: 1168269--1168322 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
1168259 AACTTATAAA
*
1168269 TTTAATTAGAATTTTTTTTTATTT
1 TTTAATTAGAA-TTTTTATTA-TT
*
1168293 TTTAATGT-GTATTTTTATTATT
1 TTTAAT-TAGAATTTTTATTATT
1168315 TTTAATTA
1 TTTAATTA
1168323 ATGTTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.04
22 8 0.31
23 8 0.31
24 8 0.31
25 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTAATTAGAATTTTTATTATT
Found at i:1169338 original size:16 final size:17
Alignment explanation
Indices: 1169312--1169346 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1169302 TTTAAAAAGT
*
1169312 TATACTTTAAATTTATA
1 TATACTTTAAATATATA
1169329 TATA-TTTAAATATATA
1 TATACTTTAAATATATA
1169345 TA
1 TA
1169347 AAATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TATACTTTAAATATATA
Found at i:1170436 original size:2 final size:2
Alignment explanation
Indices: 1170431--1170464 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1170421 GCCAATGTGC
1170431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1170465 GTTAATTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1171612 original size:37 final size:37
Alignment explanation
Indices: 1171558--1171633 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
1171548 ACACATATTC
1171558 AAGCTTGAGTGACTAGTATAATTATAAAAAAATTAAA
1 AAGCTTGAGTGACTAGTATAATTATAAAAAAATTAAA
*
1171595 AAGCTTGAGTGATTAGTATAATTATAAAAAAATTAAA
1 AAGCTTGAGTGACTAGTATAATTATAAAAAAATTAAA
1171632 AA
1 AA
1171634 TTTAAATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.53, C:0.04, G:0.13, T:0.30
Consensus pattern (37 bp):
AAGCTTGAGTGACTAGTATAATTATAAAAAAATTAAA
Found at i:1171652 original size:48 final size:47
Alignment explanation
Indices: 1171600--1171695 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
1171590 TTAAAAAGCT
* *
1171600 TGAGTGATTAGTATAATTATAAAAAAATTAAAAATTTAAATATATTTA
1 TGAGTGACTAATATAATTAT-AAAAAATTAAAAATTTAAATATATTTA
*
1171648 TGAGTGGCTAATATAATTATAAAAAATTAAAAATTTAAATATATTTA
1 TGAGTGACTAATATAATTATAAAAAATTAAAAATTTAAATATATTTA
1171695 T
1 T
1171696 ATCAAATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 28 0.62
48 17 0.38
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (47 bp):
TGAGTGACTAATATAATTATAAAAAATTAAAAATTTAAATATATTTA
Found at i:1171720 original size:17 final size:17
Alignment explanation
Indices: 1171680--1171721 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1171670 AAAATTAAAA
1171680 ATTTAA-ATATATTTAT
1 ATTTAATATATATTTAT
**
1171696 ATCAAATATATATTTAT
1 ATTTAATATATATTTAT
1171713 ATTTAATAT
1 ATTTAATAT
1171722 TAACTTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAATATATATTTAT
Found at i:1173021 original size:15 final size:14
Alignment explanation
Indices: 1172936--1173023 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 14
1172926 TATATTAGTT
1172936 TTATATTAAATTTTA
1 TTATA-TAAATTTTA
*
1172951 TT-TATAAATTTTT
1 TTATATAAATTTTA
* *
1172964 TTTTGTTAAATTTT-
1 TTAT-ATAAATTTTA
1172978 TTAATATAAATTTTA
1 TT-ATATAAATTTTA
*
1172993 ATATAATAATAATTTATA
1 TTAT-AT-A-AATTT-TA
1173011 TTATATAAATTTT
1 TTATATAAATTTT
1173024 GATATATTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
13 10 0.17
14 16 0.27
15 19 0.32
16 2 0.03
17 7 0.12
18 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (14 bp):
TTATATAAATTTTA
Found at i:1173075 original size:20 final size:19
Alignment explanation
Indices: 1173028--1173085 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
1173018 AATTTTGATA
* * *
1173028 TATTTATAATATTTATTTTG
1 TATTTATATTATTTA-TATC
1173048 TATTTATATTATTTATATC
1 TATTTATATTATTTATATC
1173067 TATTATATATTATTTATAT
1 TATT-TATATTATTTATAT
1173086 TTTCATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 6 0.18
20 28 0.82
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTATATTATTTATATC
Found at i:1175136 original size:3 final size:3
Alignment explanation
Indices: 1175128--1175164 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1175118 CGACACCACA
1175128 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1175165 AGTTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1177063 original size:28 final size:29
Alignment explanation
Indices: 1176993--1177070 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
1176983 CTATCAAAAA
* * **
1176993 AAAATATCTATTTATATTATATTTATATTT
1 AAAATATTTATATAT-TTATATAAATATTT
1177023 AAAATATTT-TATATTTATATAAAT-TTT
1 AAAATATTTATATATTTATATAAATATTT
*
1177050 AAAATATTTATATATGTATAT
1 AAAATATTTATATATTTATAT
1177071 TTGTTTTACA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.29
28 18 0.43
29 4 0.10
30 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
AAAATATTTATATATTTATATAAATATTT
Found at i:1177077 original size:28 final size:26
Alignment explanation
Indices: 1177003--1177078 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 26
1176993 AAAATATCTA
1177003 TTTATATTATATTTATATTTAAAATAT
1 TTTATATTATATTTAT-TTTAAAATAT
**
1177030 TTTATATTTATATAAATTTTAAAATAT
1 TTTATA-TTATATTTATTTTAAAATAT
*
1177057 TTATATATGTATATTTGTTTTA
1 TT-TATAT-TATATTTATTTTA
1177079 CATTTAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTATATTATATTTATTTTAAAATAT
Found at i:1178232 original size:2 final size:2
Alignment explanation
Indices: 1178225--1178249 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1178215 AAGTTCCAGT
1178225 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
1178250 GGAGTTTGAT
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:1182197 original size:20 final size:21
Alignment explanation
Indices: 1182169--1182210 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1182159 TTAAATTTTT
*
1182169 TATTCAAAT-TTATTATAAAA
1 TATTCAAATATTAATATAAAA
*
1182189 TATTTAAATATTAATATAAAA
1 TATTCAAATATTAATATAAAA
1182210 T
1 T
1182211 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTCAAATATTAATATAAAA
Found at i:1184475 original size:10 final size:10
Alignment explanation
Indices: 1184460--1184490 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1184450 AATTTAATTA
1184460 ATAATATTTT
1 ATAATATTTT
1184470 ATAATA-TTT
1 ATAATATTTT
1184479 ATAATATTTT
1 ATAATATTTT
1184489 AT
1 AT
1184491 TTTTATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATAATATTTT
Found at i:1185660 original size:2 final size:2
Alignment explanation
Indices: 1185655--1185695 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1185645 CTCTTTACAT
1185655 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
1185696 TTGTTGTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1186202 original size:2 final size:2
Alignment explanation
Indices: 1186189--1186223 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
1186179 ACTATTATTA
1186189 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1186224 GTTATGCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1186894 original size:22 final size:24
Alignment explanation
Indices: 1186851--1186901 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1186841 TAAAATTTTA
1186851 ATTTTTAAAATTAACTTATTTAAT
1 ATTTTTAAAATTAACTTATTTAAT
* *
1186875 TTTTTTAAGATTAA-TT-TTTAAT
1 ATTTTTAAAATTAACTTATTTAAT
1186897 ATTTT
1 ATTTT
1186902 ATCTATCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTTAAAATTAACTTATTTAAT
Found at i:1187450 original size:20 final size:19
Alignment explanation
Indices: 1187425--1187477 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
1187415 GATATTAATT
1187425 ATATTTAATTATATAATATC
1 ATATTTAATTATAT-ATATC
* *
1187445 ATATTT-ATTAAATGTATC
1 ATATTTAATTATATATATC
*
1187463 ATGTTTATATTATAT
1 ATATTTA-ATTATAT
1187478 TTTTATATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 9 0.33
19 6 0.22
20 12 0.44
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATTTAATTATATATATC
Found at i:1188935 original size:9 final size:10
Alignment explanation
Indices: 1188911--1188935 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1188901 ATTTATATTT
1188911 ATTTTTTAAA
1 ATTTTTTAAA
1188921 ATTTTTTAAA
1 ATTTTTTAAA
1188931 ATTTT
1 ATTTT
1188936 ATGTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:1189058 original size:2 final size:2
Alignment explanation
Indices: 1189051--1189080 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1189041 ATTGTTGATG
1189051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1189081 CCATCCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1189946 original size:7 final size:7
Alignment explanation
Indices: 1189933--1189998 Score: 50
Period size: 6 Copynumber: 9.4 Consensus size: 7
1189923 TTAATTTTTT
1189933 ATATTAA
1 ATATTAA
*
1189940 TTATTAA
1 ATATTAA
1189947 ATA-TAA
1 ATATTAA
1189953 ATA-TAA
1 ATATTAA
1189959 ATA-TAA
1 ATATTAA
1189965 ATTATTAAAA
1 A-TATT--AA
1189975 ATATTAA
1 ATATTAA
*
1189982 ATTTTTAA
1 A-TATTAA
1189990 ATA-TAA
1 ATATTAA
1189996 ATA
1 ATA
1189999 CGATATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
6 22 0.44
7 14 0.28
8 7 0.14
9 4 0.08
10 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATTAA
Found at i:1189978 original size:16 final size:17
Alignment explanation
Indices: 1189957--1189990 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1189947 ATATAAATAT
1189957 AAATA-TAAATTATTAA
1 AAATATTAAATTATTAA
*
1189973 AAATATTAAATTTTTAA
1 AAATATTAAATTATTAA
1189990 A
1 A
1189991 TATAAATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTAAATTATTAA
Found at i:1191789 original size:34 final size:32
Alignment explanation
Indices: 1191743--1191847 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 32
1191733 AATAATATGA
*
1191743 TATAAAAAATATAAATTATTAATATATTAAAATT
1 TATATAAAATAT-AATTATTAATATATTAAAA-T
* *
1191777 TATATAAAATATAATTA-TAATCTA-AAAAAT
1 TATATAAAATATAATTATTAATATATTAAAAT
*
1191807 AATAT-AAATATAA-TATTAATAT-TT-AAAT
1 TATATAAAATATAATTATTAATATATTAAAAT
*
1191835 TATA-AAAACATAA
1 TATATAAAATATAA
1191848 AAGAATGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.27
29 13 0.22
30 5 0.08
31 4 0.07
32 6 0.10
33 5 0.08
34 11 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
TATATAAAATATAATTATTAATATATTAAAAT
Found at i:1195459 original size:17 final size:18
Alignment explanation
Indices: 1195430--1195463 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1195420 AATATCAAAA
1195430 TATTTATATTTATTTTAT
1 TATTTATATTTATTTTAT
1195448 TATTTA-ATTTATTTTA
1 TATTTATATTTATTTTA
1195464 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTATATTTATTTTAT
Found at i:1196032 original size:2 final size:2
Alignment explanation
Indices: 1196021--1196054 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1196011 TGATAAAAAT
*
1196021 TA TA TA -A TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1196055 GTATGTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1201300 original size:85 final size:85
Alignment explanation
Indices: 1201157--1201326 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
1201147 AAAAGGACTT
*
1201157 AGGTTCTTGTTGTGAAGTTCCTTAGATTCCTTAATAAAAATTCACTAATTTTGCATTAATCATGT
1 AGGTTCTTGTTGTGAAGTTCCTTAGATTCCTTAATAAAAAATCACTAATTTTGCATTAATCATGT
1201222 TTTGAGCCTTTAATCTTTAA
66 TTTGAGCCTTTAATCTTTAA
1201242 AGGTTCTTGTTGTGAAGTTCCTTAGATTCCTTAATAAAAAATCACTAATTTTGCATTAATCATGT
1 AGGTTCTTGTTGTGAAGTTCCTTAGATTCCTTAATAAAAAATCACTAATTTTGCATTAATCATGT
1201307 TTTGAGCCTTTAATCTTTAA
66 TTTGAGCCTTTAATCTTTAA
1201327 TGCTCAATCA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (85 bp):
AGGTTCTTGTTGTGAAGTTCCTTAGATTCCTTAATAAAAAATCACTAATTTTGCATTAATCATGT
TTTGAGCCTTTAATCTTTAA
Found at i:1203407 original size:2 final size:2
Alignment explanation
Indices: 1203400--1203429 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1203390 TTAATTTATG
*
1203400 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1203430 ATGATATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1205192 original size:2 final size:2
Alignment explanation
Indices: 1205187--1205217 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1205177 TTCATAAAAA
1205187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1205218 AAATACCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1213057 original size:4 final size:4
Alignment explanation
Indices: 1213048--1213076 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1213038 CGCAAAACAG
1213048 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1213077 GGAATTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:1213359 original size:17 final size:17
Alignment explanation
Indices: 1213339--1213371 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1213329 CTTTTACAAT
*
1213339 TTATTATAATAAAATAG
1 TTATTATAAAAAAATAG
1213356 TTATTATAAAAAAATA
1 TTATTATAAAAAAATA
1213372 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TTATTATAAAAAAATAG
Found at i:1213764 original size:2 final size:2
Alignment explanation
Indices: 1213753--1213788 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1213743 TTTGTTCATG
1213753 TA TA -A TA 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 TA TA TA TA T
1213789 CCAACATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1213972 original size:9 final size:9
Alignment explanation
Indices: 1213900--1213981 Score: 60
Period size: 9 Copynumber: 8.8 Consensus size: 9
1213890 AGATGTGATT
1213900 TATTTAAATA
1 TATTT-AATA
*
1213910 TAATTAATA
1 TATTTAATA
1213919 TGATTAATAATA
1 T-ATT--TAATA
*
1213931 TATTTTATTA
1 TA-TTTAATA
* *
1213941 TATTTATTG
1 TATTTAATA
*
1213950 TATTTAAAA
1 TATTTAATA
1213959 T-TTTAATA
1 TATTTAATA
1213967 TATTTAATA
1 TATTTAATA
1213976 -ATTTAA
1 TATTTAA
1213982 ATTAAATATA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
8 13 0.22
9 25 0.42
10 12 0.20
11 1 0.02
12 8 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TATTTAATA
Found at i:1214001 original size:24 final size:26
Alignment explanation
Indices: 1213939--1214002 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 26
1213929 TATATTTTAT
*
1213939 TATATTTATTGT-ATTTAAAATTTTAA
1 TATATTTA-TGTAATTTAAAATTTAAA
*
1213965 TATATTTA-ATAATTT-AAA-TTAAA
1 TATATTTATGTAATTTAAAATTTAAA
1213988 TATATTTATGTAATT
1 TATATTTATGTAATT
1214003 GATATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 12 0.36
24 9 0.27
25 4 0.12
26 8 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
TATATTTATGTAATTTAAAATTTAAA
Found at i:1214282 original size:16 final size:16
Alignment explanation
Indices: 1214223--1214320 Score: 60
Period size: 17 Copynumber: 6.0 Consensus size: 16
1214213 TTATTTTTTA
1214223 ATAATATTTTAAATTTAT
1 ATAATATTTT-AA-TTAT
1214241 ATAA-ATTTTAA-TAT
1 ATAATATTTTAATTAT
*
1214255 ATTAATAATTTATATTAT
1 A-TAATATTTTA-ATTAT
**
1214273 ATAA-ATTTTAAAAAT
1 ATAATATTTTAATTAT
* * *
1214288 ATATTTATATTATGTTAT
1 ATA-ATATTTTA-ATTAT
1214306 ATAATATTTT-ATTAT
1 ATAATATTTTAATTAT
1214321 TTTATATAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
14 4 0.07
15 13 0.21
16 12 0.20
17 19 0.31
18 13 0.21
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
ATAATATTTTAATTAT
Found at i:1214320 original size:20 final size:21
Alignment explanation
Indices: 1214288--1214332 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
1214278 TTTTAAAAAT
1214288 ATATTTATATTATGTTATATA
1 ATATTTATATTATGTTATATA
*
1214309 ATATTT-TATTATTTTATATA
1 ATATTTATATTATGTTATATA
1214329 ATAT
1 ATAT
1214333 CGTGAACTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATTTATATTATGTTATATA
Found at i:1215419 original size:18 final size:18
Alignment explanation
Indices: 1215392--1215436 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1215382 ATAATTCATA
*
1215392 TATTTATTTTGTTTCATGT
1 TATTT-TTTTGTATCATGT
*
1215411 TATTTTTTTGTATGATGT
1 TATTTTTTTGTATCATGT
1215429 TATATTTT
1 TAT-TTTT
1215437 AACTATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.69
Consensus pattern (18 bp):
TATTTTTTTGTATCATGT
Found at i:1215982 original size:27 final size:24
Alignment explanation
Indices: 1215952--1216034 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 24
1215942 AAATTAATAA
1215952 TATATATTATATAAATTTTAATATATT
1 TATATATT-TATAAATTTT--TATATT
*
1215979 TATATATTTATATTATTTTTATATT
1 TATATATTTATA-AATTTTTATATT
*
1216004 ATATCATATTT-T-AATTTTTTTATAT
1 -TAT-ATATTTATAAATTTTTATAT-T
1216029 TATATA
1 TATATA
1216035 ATCATATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
23 3 0.06
24 12 0.24
25 7 0.14
26 8 0.16
27 19 0.39
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATTTATAAATTTTTATATT
Found at i:1216015 original size:17 final size:18
Alignment explanation
Indices: 1215974--1216020 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
1215964 AAATTTTAAT
*
1215974 ATATTTATATATTTATATT
1 ATATTT-TATATTTATATC
1215993 AT-TTTTATA-TTATATC
1 ATATTTTATATTTATATC
1216009 ATATTTTA-ATTT
1 ATATTTTATATTT
1216021 TTTTATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 9 0.36
17 11 0.44
18 3 0.12
19 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTTATATTTATATC
Found at i:1216046 original size:27 final size:26
Alignment explanation
Indices: 1215952--1216047 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
1215942 AAATTAATAA
* **
1215952 TATATATTATATAAATTTTAATATAT
1 TATATAATATATAAATTTTTTTATAT
* *
1215978 T-TAT-ATATTTATATTATTTTTATAT
1 TATATAATATATAAATT-TTTTTATAT
* * *
1216003 TATATCATATTTTAATTTTTTTATAT
1 TATATAATATATAAATTTTTTTATAT
1216029 TATATAATCATATAAATTT
1 TATATAAT-ATATAAATTT
1216048 GATAATGATA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
24 8 0.14
25 11 0.20
26 20 0.36
27 17 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATAATATATAAATTTTTTTATAT
Found at i:1217244 original size:28 final size:28
Alignment explanation
Indices: 1217169--1217244 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
1217159 AAAATCTTCT
* *
1217169 ATTATAATTTTTATGTAAAT-TTTATCCA
1 ATTA-AATTTTTATTTAAATATGTATCCA
** *
1217197 A-TAAA-TTTTATTTTTTATATGTATCGA
1 ATTAAATTTTTA-TTTAAATATGTATCCA
1217224 ATTAAATTTTTATTTAAATAT
1 ATTAAATTTTTATTTAAATAT
1217245 TAATTTATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
25 5 0.14
26 6 0.16
27 9 0.24
28 12 0.32
29 5 0.14
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (28 bp):
ATTAAATTTTTATTTAAATATGTATCCA
Found at i:1217910 original size:12 final size:12
Alignment explanation
Indices: 1217881--1217920 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
1217871 TTATTTAAAT
1217881 TTAATTATAAAAA
1 TTAA-TATAAAAA
1217894 -T-ATATAAAAA
1 TTAATATAAAAA
1217904 TTAATATAAAAA
1 TTAATATAAAAA
1217916 TTAAT
1 TTAAT
1217921 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATATAAAAA
Found at i:1218125 original size:4 final size:4
Alignment explanation
Indices: 1218116--1218140 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1218106 TACTTTTGAG
1218116 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
1218141 TTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:1218510 original size:19 final size:20
Alignment explanation
Indices: 1218485--1218534 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
1218475 ATTTTAATTT
1218485 AATTATAATATAAAAATATA
1 AATTATAATATAAAAATATA
*
1218505 AA-TATAATATAAATATATA
1 AATTATAATATAAAAATATA
1218524 AATTATAATAT
1 AATTATAATAT
1218535 TAATAAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTATAATATAAAAATATA
Found at i:1218536 original size:8 final size:7
Alignment explanation
Indices: 1218484--1218539 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 7
1218474 AATTTTAATT
1218484 TAAT-TA
1 TAATATA
1218490 TAATATA
1 TAATATA
*
1218497 -AAAATA
1 TAATATA
1218503 TAA-ATA
1 TAATATA
1218509 TAATATA
1 TAATATA
1218516 -AATATA
1 TAATATA
1218522 TAA-ATTA
1 TAATA-TA
1218529 TAATAT-
1 TAATATA
1218535 TAATA
1 TAATA
1218540 AAGTTAAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
6 27 0.63
7 15 0.35
8 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TAATATA
Found at i:1219648 original size:35 final size:30
Alignment explanation
Indices: 1219598--1219679 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 30
1219588 ATAAATAATA
1219598 ATTTAAATTAATTTAATTTAAAGTTTAAAATTTT
1 ATTTAAATTAATTTAATTTAAA--TT-AAA-TTT
*
1219632 ATTTAAATATAATTTAATATAAATTAAATTT
1 ATTTAAAT-TAATTTAATTTAAATTAAATTT
1219663 ATTT-AATT-ATTTAATTT
1 ATTTAAATTAATTTAATTT
1219680 TTAAATAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 8 0.18
29 1 0.02
30 3 0.07
31 7 0.16
32 3 0.07
33 2 0.04
34 8 0.18
35 13 0.29
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
ATTTAAATTAATTTAATTTAAATTAAATTT
Found at i:1220024 original size:19 final size:19
Alignment explanation
Indices: 1219988--1220027 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1219978 CATATTTTTT
* **
1219988 TTAAAATTATATTTAAAAA
1 TTAAAAATATATAAAAAAA
1220007 TTAAAAATATATAAAAAAA
1 TTAAAAATATATAAAAAAA
1220026 TT
1 TT
1220028 TTAATCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAAATATATAAAAAAA
Found at i:1220756 original size:3 final size:3
Alignment explanation
Indices: 1220750--1220781 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1220740 CATGAACACT
*
1220750 AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1220782 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1221471 original size:14 final size:14
Alignment explanation
Indices: 1221427--1221471 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
1221417 AAATAGTTAA
1221427 ATTTAA-TTAAATT
1 ATTTAATTTAAATT
* *
1221440 ATTGAATTTAATTT
1 ATTTAATTTAAATT
1221454 ATTTAATTTAAATT
1 ATTTAATTTAAATT
1221468 ATTT
1 ATTT
1221472 TTTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTTAATTTAAATT
Found at i:1232627 original size:30 final size:30
Alignment explanation
Indices: 1232586--1232644 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1232576 TAATAATACA
* * *
1232586 CATTCACCACTTATAACTCCAAACATATGC
1 CATTAACCACTTAAAAATCCAAACATATGC
*
1232616 CATTAACCACTTAAAAATCTAAACATATG
1 CATTAACCACTTAAAAATCCAAACATATG
1232645 ACTTATGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.27
Consensus pattern (30 bp):
CATTAACCACTTAAAAATCCAAACATATGC
Found at i:1238023 original size:9 final size:10
Alignment explanation
Indices: 1237966--1238034 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 10
1237956 TGTTAAAACT
1237966 TATATAA-TA
1 TATATAATTA
* *
1237975 TAAATTATTA
1 TATATAATTA
*
1237985 TTATATTAAATTT
1 -TATA-T-AATTA
*
1237998 TATATAAATA
1 TATATAATTA
1238008 TATATAATTA
1 TATATAATTA
1238018 -ATATAATTA
1 TATATAATTA
1238027 TAATATAA
1 T-ATATAA
1238035 AAATAATATA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
9 14 0.30
10 14 0.30
11 10 0.22
12 5 0.11
13 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATATAATTA
Found at i:1238054 original size:11 final size:11
Alignment explanation
Indices: 1237967--1238054 Score: 65
Period size: 11 Copynumber: 7.8 Consensus size: 11
1237957 GTTAAAACTT
1237967 ATATAATATAA
1 ATATAATATAA
1237978 ATTATTATTATATTAA
1 A-TA-TA--ATA-TAA
* *
1237994 ATTTTATATAA
1 ATATAATATAA
1238005 ATAT-ATAT-A
1 ATATAATATAA
1238014 AT-TAATATAA
1 ATATAATATAA
*
1238024 TTATAATATAA
1 ATATAATATAA
*
1238035 AAATAATATAA
1 ATATAATATAA
*
1238046 ATATGATAT
1 ATATAATAT
1238055 TAATTCATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
8 1 0.02
9 7 0.11
10 6 0.10
11 31 0.51
12 5 0.08
13 2 0.03
14 1 0.02
15 4 0.07
16 4 0.07
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (11 bp):
ATATAATATAA
Found at i:1241390 original size:17 final size:17
Alignment explanation
Indices: 1241370--1241403 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1241360 TTATAATTTA
*
1241370 AAAATTATTTTTTTATT
1 AAAATAATTTTTTTATT
1241387 AAAATAATTTTTTTATT
1 AAAATAATTTTTTTATT
1241404 TTTATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AAAATAATTTTTTTATT
Found at i:1241555 original size:28 final size:28
Alignment explanation
Indices: 1241519--1241573 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1241509 TTTAATAATA
1241519 TTAAAATATT-ATATATTTATATAATATT
1 TTAAAATATTAATA-ATTTATATAATATT
* *
1241547 TTAATATATTAATAATTTATATTATAT
1 TTAAAATATTAATAATTTATATAATAT
1241574 AAATTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAAAATATTAATAATTTATATAATATT
Found at i:1241581 original size:16 final size:17
Alignment explanation
Indices: 1241523--1241626 Score: 70
Period size: 18 Copynumber: 5.9 Consensus size: 17
1241513 ATAATATTAA
*
1241523 AATATTATATATTTATAT
1 AATATTTTATA-TTATAT
1241541 AATATTTTA-A-TATATT
1 AATATTTTATATTATA-T
*
1241557 AATAATTTATATTATAT
1 AATATTTTATATTATAT
*
1241574 AA-ATTTTATATTTTTAT
1 AATATTTTATA-TTATAT
* *
1241591 TATATTTATATTTTTTATAT
1 AATATTT-TA--TATTATAT
*
1241611 TATATTTTATTATTAT
1 AATATTTTA-TATTAT
1241627 TTATATTATG
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.06
16 16 0.23
17 11 0.16
18 22 0.31
19 4 0.06
20 12 0.17
21 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATATTTTATATTATAT
Found at i:1241600 original size:17 final size:16
Alignment explanation
Indices: 1241524--1241633 Score: 84
Period size: 17 Copynumber: 6.7 Consensus size: 16
1241514 TAATATTAAA
*
1241524 ATATTATATATTTATATA
1 ATATT-TATATTT-TATT
* *
1241542 ATATTT-TAATATATT
1 ATATTTATATTTTATT
*
1241557 AATAATTTATATTATA-T
1 -AT-ATTTATATTTTATT
*
1241574 AAATTTTATATTTTTATT
1 ATA-TTTATA-TTTTATT
1241592 ATATTTATATTTT-TT
1 ATATTTATATTTTATT
1241607 ATA-TTATATTTTATT
1 ATATTTATATTTTATT
1241622 ATTATTTATATT
1 A-TATTTATATT
1241634 ATGTTAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
14 9 0.12
15 12 0.16
16 18 0.24
17 23 0.30
18 14 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTTATATTTTATT
Found at i:1241628 original size:42 final size:43
Alignment explanation
Indices: 1241524--1241646 Score: 114
Period size: 42 Copynumber: 3.0 Consensus size: 43
1241514 TAATATTAAA
* * *
1241524 ATATTATATATTTA-TATAATATTTTAATATA-TTA-ATAATTT
1 ATATTATATATTTATTATTAT-TTTTATTATATTTATATTATTT
* *
1241565 ATATTATATAAATT-TTA-TATTTTTATTATATTTATATTTTTT
1 ATATTATAT-ATTTATTATTATTTTTATTATATTTATATTATTT
* * *
1241607 ATATTATAT-TTTATTATTATTTATATTATGTTAATATTAT
1 ATATTATATATTTATTATTATTTTTATTATATTTATATTAT
1241647 CGTATTGTGC
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
40 11 0.17
41 17 0.26
42 38 0.58
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (43 bp):
ATATTATATATTTATTATTATTTTTATTATATTTATATTATTT
Found at i:1241643 original size:11 final size:9
Alignment explanation
Indices: 1241527--1241646 Score: 56
Period size: 9 Copynumber: 13.0 Consensus size: 9
1241517 TATTAAAATA
1241527 TTATA-TAT
1 TTATATTAT
1241535 TTATATAATAT
1 TTATAT--TAT
*
1241546 TT-TAATAT
1 TTATATTAT
*
1241554 ATTA-ATAAT
1 -TTATATTAT
1241563 TTATATTAT
1 TTATATTAT
* *
1241572 ATA-AAT-T
1 TTATATTAT
1241579 TTATATT-T
1 TTATATTAT
1241587 TTAT-TATAT
1 TTATAT-TAT
*
1241596 TTATATTTT
1 TTATATTAT
1241605 TTATATTATATT
1 TTATA-T-TA-T
1241617 TTATTATTAT
1 TTA-TATTAT
1241627 TTATATTAT
1 TTATATTAT
1241636 GTTAATATTAT
1 -TT-ATATTAT
1241647 CGTATTGTGC
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
7 4 0.05
8 21 0.24
9 29 0.34
10 10 0.12
11 15 0.17
12 5 0.06
13 2 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (9 bp):
TTATATTAT
Found at i:1241644 original size:33 final size:32
Alignment explanation
Indices: 1241561--1241646 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 32
1241551 TATATTAATA
* *
1241561 ATTTATATTATATAAATTTTATATTTTTATTAT
1 ATTTATATTAT-TTAATATTATATTTTTATTAT
*
1241594 ATTTATATT-TTTTATATTATA-TTTTATTATT
1 ATTTATATTATTTAATATTATATTTTTATTA-T
1241625 ATTTATATTATGTTAATATTAT
1 ATTTATATTAT-TTAATATTAT
1241647 CGTATTGTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 8 0.17
31 18 0.39
32 2 0.04
33 18 0.39
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (32 bp):
ATTTATATTATTTAATATTATATTTTTATTAT
Found at i:1241646 original size:20 final size:20
Alignment explanation
Indices: 1241523--1241646 Score: 84
Period size: 22 Copynumber: 6.4 Consensus size: 20
1241513 ATAATATTAA
*
1241523 AATATTATATAT-TTATA-T
1 AATATTATTTATATTATATT
1241541 AATA-T-TTTA-A-TATATT
1 AATATTATTTATATTATATT
*
1241557 AATA--ATTTATATTATATA
1 AATATTATTTATATTATATT
* *
1241575 AATTTTATATTTTTATTATATT
1 AA-TAT-TATTTATATTATATT
* *
1241597 TATATTTTTTATATTATATTTT
1 AATATTATTTATATTATA--TT
* *
1241619 ATTATTATTTATATTATGTT
1 AATATTATTTATATTATATT
1241639 AATATTAT
1 AATATTAT
1241647 CGTATTGTGC
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
15 4 0.05
16 12 0.15
17 2 0.02
18 11 0.14
19 1 0.01
20 20 0.25
21 2 0.02
22 29 0.36
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (20 bp):
AATATTATTTATATTATATT
Found at i:1242024 original size:37 final size:37
Alignment explanation
Indices: 1241977--1242061 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
1241967 TTAATAGATT
1241977 AAATTAATTTAAAT-T-ATTAGTTAAATAATAATAAAAAA
1 AAATT-ATTTAAATATAATTA--TAAATAATAATAAAAAA
* *
1242015 AAATTATTTAAATATAATTATAAATATTAATATAAAA
1 AAATTATTTAAATATAATTATAAATAATAATAAAAAA
*
1242052 ATATT-TTTAA
1 AAATTATTTAA
1242062 TTTTATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 5 0.12
37 27 0.64
38 6 0.14
39 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (37 bp):
AAATTATTTAAATATAATTATAAATAATAATAAAAAA
Found at i:1242762 original size:21 final size:22
Alignment explanation
Indices: 1242730--1242799 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 22
1242720 AAAATTTGAC
1242730 TTATATTATTTTATATAATTATT
1 TTATA-TATTTTATATAATTATT
1242753 TTA-ATATTTTA-ATTAATTAATT
1 TTATATATTTTATA-TAATT-ATT
* *
1242775 ATTATATGATTATATATATTTATT
1 -TTATAT-ATTTTATATAATTATT
1242799 T
1 T
1242800 ATTAGAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
20 1 0.03
21 12 0.31
22 4 0.10
23 7 0.18
24 5 0.13
25 9 0.23
26 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTATATATTTTATATAATTATT
Found at i:1242901 original size:16 final size:17
Alignment explanation
Indices: 1242882--1242916 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1242872 TTAAAAACTT
1242882 TTAAATAAAA-AATAAA
1 TTAAATAAAATAATAAA
1242898 TT-AATAAAATAATAAA
1 TTAAATAAAATAATAAA
1242914 TTA
1 TTA
1242917 TTGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAATAAAATAATAAA
Found at i:1243247 original size:17 final size:18
Alignment explanation
Indices: 1243216--1243271 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
1243206 ACGTAATATT
*
1243216 ATTAATATTTTAAAATAAA
1 ATTAA-ATTTAAAAATAAA
*
1243235 ATT-AATTTAAAAAT-TA
1 ATTAAATTTAAAAATAAA
1243251 ATTAAATTTAAATAA-AAA
1 ATTAAATTTAAA-AATAAA
1243269 ATT
1 ATT
1243272 GAACAGCCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.13
17 17 0.55
18 7 0.23
19 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAAATTTAAAAATAAA
Found at i:1246941 original size:15 final size:15
Alignment explanation
Indices: 1246921--1246955 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
1246911 TCAATTGATC
*
1246921 AATAAAATTATTTTT
1 AATAAAATTATATTT
1246936 AAT-AAATTATATTT
1 AATAAAATTATATTT
1246950 AATAAA
1 AATAAA
1246956 TCTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAAATTATATTT
Found at i:1246944 original size:14 final size:14
Alignment explanation
Indices: 1246925--1246956 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1246915 TTGATCAATA
*
1246925 AAATTATTTTTAAT
1 AAATTATATTTAAT
1246939 AAATTATATTTAAT
1 AAATTATATTTAAT
1246953 AAAT
1 AAAT
1246957 CTAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTATATTTAAT
Found at i:1248717 original size:29 final size:29
Alignment explanation
Indices: 1248685--1248740 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1248675 TTTTATTTTT
1248685 AAATGTAA-TTATAAAAATTAAAAAAATTA
1 AAATGTAATTTA-AAAAATTAAAAAAATTA
* * *
1248714 AAATTTTATTTAAAAAATTAAATAAAT
1 AAATGTAATTTAAAAAATTAAAAAAAT
1248741 AAATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AAATGTAATTTAAAAAATTAAAAAAATTA
Found at i:1248759 original size:27 final size:29
Alignment explanation
Indices: 1248697--1248756 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
1248687 ATGTAATTAT
1248697 AAAAATTAAAAAAATTAAAATTTTATTTA
1 AAAAATTAAAAAAATTAAAATTTTATTTA
*
1248726 AAAAATTAAATAAA-T-AAATTTT-TTTA
1 AAAAATTAAAAAAATTAAAATTTTATTTA
1248752 AAAAA
1 AAAAA
1248757 ATTGTAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.30
27 7 0.23
28 1 0.03
29 13 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAATTAAAAAAATTAAAATTTTATTTA
Found at i:1249261 original size:30 final size:28
Alignment explanation
Indices: 1249227--1249292 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
1249217 CATCAATACT
1249227 AAAATAAATATGATGTT-ATGATTTTTTTTA
1 AAAATAAATAT-AT-TTAAT-ATTTTTTTTA
**
1249257 AAAATATTTATATTTAATATTTTTTTTA
1 AAAATAAATATATTTAATATTTTTTTTA
1249285 AAAATAAA
1 AAAATAAA
1249293 AGATATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 18 0.58
29 4 0.13
30 9 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (28 bp):
AAAATAAATATATTTAATATTTTTTTTA
Found at i:1249322 original size:19 final size:19
Alignment explanation
Indices: 1249300--1249337 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1249290 AAAAGATATA
1249300 AATATCTAT-AATTTATTTT
1 AATAT-TATAAATTTATTTT
*
1249319 AATATTTTAAATTTATTTT
1 AATATTATAAATTTATTTT
1249338 TTACTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
AATATTATAAATTTATTTT
Found at i:1252649 original size:1 final size:1
Alignment explanation
Indices: 1252643--1252733 Score: 83
Period size: 1 Copynumber: 91.0 Consensus size: 1
1252633 AAATCTTCAC
* * ** * * * **
1252643 TTTTTTTTTTGTTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1252708 TTTTTTTGTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1252734 CCAATTGCCA
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:1252693 original size:32 final size:32
Alignment explanation
Indices: 1252645--1252730 Score: 158
Period size: 32 Copynumber: 2.8 Consensus size: 32
1252635 ATCTTCACTT
1252645 TTTTTTTTG-TTT-TTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
1252675 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
1252707 TTTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTGTTTTGTTTTTTTTTT
1252731 TTTCCAATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 9 0.17
31 3 0.06
32 42 0.78
ACGTcount: A:0.00, C:0.07, G:0.06, T:0.87
Consensus pattern (32 bp):
TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
Found at i:1261954 original size:31 final size:32
Alignment explanation
Indices: 1261888--1261954 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
1261878 TAAATGTATT
* * * *
1261888 AAAATTTATATAAAATAAATTATTATTGTATC
1 AAAATTTACATAAAATAAAATACTATTGTAAC
1261920 AAAATTTACATAAATATAAAATACT-TTG-AAC
1 AAAATTTACATAAA-ATAAAATACTATTGTAAC
1261951 AAAA
1 AAAA
1261955 CTATAACACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 6 0.20
32 16 0.53
33 8 0.27
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (32 bp):
AAAATTTACATAAAATAAAATACTATTGTAAC
Found at i:1266986 original size:26 final size:24
Alignment explanation
Indices: 1266926--1266983 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
1266916 TTAATAAAAA
*
1266926 TGATTTAATTTTTATATTTAATTT
1 TGATTTAATTTTTATATTTAAGTT
* *
1266950 TAAATTTAATTATTTATGTTTAAGTT
1 T-GATTTAATT-TTTATATTTAAGTT
1266976 TGATTTAA
1 TGATTTAA
1266984 ATTTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 14 0.50
26 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (24 bp):
TGATTTAATTTTTATATTTAAGTT
Found at i:1267251 original size:16 final size:16
Alignment explanation
Indices: 1267225--1267263 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1267215 AAAATAAATT
1267225 TATTA-TTAATAAAAA
1 TATTATTTAATAAAAA
1267240 TATTATTTAATAAAAA
1 TATTATTTAATAAAAA
*
1267256 TAATATTT
1 TATTATTT
1267264 TTGTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATTTAATAAAAA
Found at i:1267349 original size:20 final size:21
Alignment explanation
Indices: 1267313--1267360 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
1267303 TTAATTTATA
1267313 TAAAATT-ATGAGATATAAAT
1 TAAAATTAATGAGATATAAAT
* *
1267333 TAATATTAATGAG-TATAATT
1 TAAAATTAATGAGATATAAAT
1267353 TAAAATTA
1 TAAAATTA
1267361 TCAATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (21 bp):
TAAAATTAATGAGATATAAAT
Done.