Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 41 of 255
Found at i:11008789 original size:26 final size:26
Alignment explanation
Indices: 11008753--11008862 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
11008743 TGATACAAAT
11008753 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11008779 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11008805 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11008831 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11008857 TGATAA
1 TGATAA
11008863 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11012814 original size:33 final size:33
Alignment explanation
Indices: 11012777--11012843 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
11012767 TTGAGCCTAA
11012777 GGATGAAATCATCATTAATTAAAAAGTTTAAGG
1 GGATGAAATCATCATTAATTAAAAAGTTTAAGG
*
11012810 GGATGAAATCGTCATTAATTAAAAAGTTTAAGG
1 GGATGAAATCATCATTAATTAAAAAGTTTAAGG
11012843 G
1 G
11012844 TAAAATGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (33 bp):
GGATGAAATCATCATTAATTAAAAAGTTTAAGG
Found at i:11013907 original size:31 final size:31
Alignment explanation
Indices: 11013869--11013928 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
11013859 GTATATGATA
11013869 AATTGATCTCAACATAGTCAAGATATAGTAT
1 AATTGATCTCAACATAGTCAAGATATAGTAT
*
11013900 AATTGATCTCAACATGGTCAAGATATAGT
1 AATTGATCTCAACATAGTCAAGATATAGT
11013929 TTACTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (31 bp):
AATTGATCTCAACATAGTCAAGATATAGTAT
Found at i:11016655 original size:43 final size:42
Alignment explanation
Indices: 11016587--11016668 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
11016577 ATAAATAAAT
* * *
11016587 AAAAATAGTGAATATCAATATAAAGAGCGAAACAAAATTTTG
1 AAAAATAGCGAATACCAATATAAAGAGCAAAACAAAATTTTG
*
11016629 AAAAATTAGCGAATACCAATCA-AAAGAGCAAAACACAATT
1 AAAAA-TAGCGAATACCAAT-ATAAAGAGCAAAACAAAATT
11016669 CAAATCTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 5 0.15
43 28 0.82
44 1 0.03
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (42 bp):
AAAAATAGCGAATACCAATATAAAGAGCAAAACAAAATTTTG
Found at i:11018472 original size:18 final size:19
Alignment explanation
Indices: 11018449--11018485 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11018439 ATATATGTAT
11018449 TAGAAGTT-ATGATGGTAA
1 TAGAAGTTAATGATGGTAA
11018467 TAGAAGTTAAATGATGGTA
1 TAGAAGTT-AATGATGGTA
11018486 TGAATTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (19 bp):
TAGAAGTTAATGATGGTAA
Found at i:11019916 original size:35 final size:35
Alignment explanation
Indices: 11019870--11019939 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
11019860 AAGCTCAGTG
11019870 TTAGTCGAACAATTATTTAAATTGACATAAATATC
1 TTAGTCGAACAATTATTTAAATTGACATAAATATC
11019905 TTAGTCGAACAATTATTTAAATTGACATAAATATC
1 TTAGTCGAACAATTATTTAAATTGACATAAATATC
11019940 AAATACAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (35 bp):
TTAGTCGAACAATTATTTAAATTGACATAAATATC
Found at i:11027168 original size:36 final size:36
Alignment explanation
Indices: 11027128--11027216 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
11027118 AACCATTGGT
*
11027128 GTGTTTTAGATGGATTGGCTCTTATGAGCATCTAGA
1 GTGTTTTAGATGGATTAGCTCTTATGAGCATCTAGA
* *
11027164 GTGTTTCAGATGGATTAGCTCTTATGAGCATCTAGT
1 GTGTTTTAGATGGATTAGCTCTTATGAGCATCTAGA
* *
11027200 GTGTTTTGGTTGGATTA
1 GTGTTTTAGATGGATTA
11027217 TCGATGTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (36 bp):
GTGTTTTAGATGGATTAGCTCTTATGAGCATCTAGA
Found at i:11038950 original size:19 final size:21
Alignment explanation
Indices: 11038926--11038967 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
11038916 TTGCTTTTCC
11038926 TTGCTATTTT-TT-TTATTTT
1 TTGCTATTTTCTTATTATTTT
11038945 TTGCTATTTTCTTATTATTTT
1 TTGCTATTTTCTTATTATTTT
11038966 TT
1 TT
11038968 CACATTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (21 bp):
TTGCTATTTTCTTATTATTTT
Found at i:11043809 original size:22 final size:22
Alignment explanation
Indices: 11043771--11043822 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
11043761 ATATTTCTAG
*
11043771 AATAATCAGAGTTTAACTAAAAA
1 AATAAT-AGAATTTAACTAAAAA
*
11043794 AATAATAGAATTTAACTAAGAA
1 AATAATAGAATTTAACTAAAAA
*
11043816 AAGAATA
1 AATAATA
11043823 TGACACACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.25
Consensus pattern (22 bp):
AATAATAGAATTTAACTAAAAA
Found at i:11045035 original size:132 final size:132
Alignment explanation
Indices: 11044849--11045369 Score: 604
Period size: 132 Copynumber: 4.0 Consensus size: 132
11044839 TTTAGAGAGT
* * * * *
11044849 ATGAGTGAAATTCTAAAGGAATCTTCGA-CATTTTGGACAAAC-AGGAAATCGCAACCCAACACG
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGA-GAAATTGCAACCCAACACG
* * ** *
11044912 ATAGGGCACGATTCCCCGAATTGCCAAATATCGAATATTACCTTTGTTTTGAAGAGTTTTTAGAA
65 ATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAGAGTTTTTAGAA
11044977 AAC
130 AAC
* * * *
11044980 ATGAGTGAAATCCAAAAGGGACCTTTGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGA
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* *
11045045 TAGGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTTG-TTTAAAGAATTTTTTA-AA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAG-AGTTTTTAGAA
11045108 AGAC
130 A-AC
* * * *
11045112 ATGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * *
11045177 TAGGGCACGATTCCGCGAATTGTCAAATATCGAACATCGCCCTCGTTTTAAAG-GATTTTTAGAA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAGAG-TTTTTAGAA
*
11045241 GAC
130 AAC
* * * ** * *
11045244 ATAAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * * * * * * *
11045309 TAGGACACAATTTCACGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAGAGAATTTTTA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAA-CATCGCCTTTGTTTTAAAGAGTTTTTA
11045370 AACGAATAAT
Statistics
Matches: 333, Mismatches: 48, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
131 32 0.10
132 290 0.87
133 11 0.03
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAGAGTTTTTAGAAA
AC
Found at i:11049847 original size:55 final size:55
Alignment explanation
Indices: 11049741--11049847 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 55
11049731 CTTATCATTT
* *
11049741 TTTTTCATCACACTATCATTGTTGTATTCAAGGTTGTTGAAATCAGTTCAAAATA
1 TTTTTCATCACACTATCATTGTTGTATTCAAGGTTGTTAAAATCAGATCAAAATA
*
11049796 TTTTTCATCACACTGTCATTGTTGTAGTT-AAGGTTGTTAAAA-CTAGATCAAA
1 TTTTTCATCACACTATCATTGTTGTA-TTCAAGGTTGTTAAAATC-AGATCAAA
11049848 TCGATTGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
54 1 0.02
55 44 0.94
56 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (55 bp):
TTTTTCATCACACTATCATTGTTGTATTCAAGGTTGTTAAAATCAGATCAAAATA
Found at i:11050148 original size:16 final size:16
Alignment explanation
Indices: 11050127--11050157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11050117 ATTCTAGAAG
*
11050127 AAAATATACAAAATTA
1 AAAATATAAAAAATTA
11050143 AAAATATAAAAAATT
1 AAAATATAAAAAATT
11050158 CAACACTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATATAAAAAATTA
Found at i:11051615 original size:13 final size:13
Alignment explanation
Indices: 11051599--11051623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11051589 TTAAAATTAA
11051599 AAAATATTTTTTT
1 AAAATATTTTTTT
11051612 AAAATATTTTTT
1 AAAATATTTTTT
11051624 GTAACTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAAATATTTTTTT
Found at i:11052006 original size:3 final size:3
Alignment explanation
Indices: 11051998--11052029 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11051988 TAAGGAAACT
*
11051998 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11052030 TTGGAGAAAG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11052264 original size:26 final size:27
Alignment explanation
Indices: 11052226--11052278 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
11052216 TTAAATTTTT
* *
11052226 TATTTTTCATTAT-TTCGAAAATAAAA
1 TATTTATCATTATATTAGAAAATAAAA
* *
11052252 TATTTATCTTTATATTATAAAATAAAA
1 TATTTATCATTATATTAGAAAATAAAA
11052279 AAGTTTCGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (27 bp):
TATTTATCATTATATTAGAAAATAAAA
Found at i:11052690 original size:2 final size:2
Alignment explanation
Indices: 11052683--11052719 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11052673 CTTAATCTTT
11052683 TC TC TC TC TC 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 TC TC TC TC TC T
11052720 TTATTATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11060263 original size:17 final size:18
Alignment explanation
Indices: 11060241--11060281 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11060231 CAAAAAAAAA
* *
11060241 TTAAAAT-TTATATTTTT
1 TTAAAATATAATAATTTT
11060258 TTAAAATATAATAATTTT
1 TTAAAATATAATAATTTT
11060276 TTAAAA
1 TTAAAA
11060282 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAAAATATAATAATTTT
Found at i:11061883 original size:42 final size:42
Alignment explanation
Indices: 11061822--11061983 Score: 164
Period size: 42 Copynumber: 3.7 Consensus size: 42
11061812 TCGTTTTCTC
** * *
11061822 GATGCCATAGTTCAACTATGGTCTTACACATCTTCAGATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* *
11061864 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* *
11061905 CGATGCCATAACCCAGCTATGGTCTTACACGTAATCACACTATCACATATT
1 -GATGCCATAGCCCAGCTATGGTCTTACAC---AT----CT-TCACATAAT
11061956 GATGCCATAGCCCAGCTATGGTCTTACA
1 GATGCCATAGCCCAGCTATGGTCTTACA
11061984 TGAATCACAT
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 62 0.62
45 2 0.02
49 1 0.01
50 32 0.32
51 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
Found at i:11061975 original size:50 final size:48
Alignment explanation
Indices: 11061890--11062027 Score: 154
Period size: 50 Copynumber: 2.9 Consensus size: 48
11061880 TATGGTCTTA
* *
11061890 CACATATTCATATATCGATGCCATAACCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATTGATGCCATAACCCAGCTATGGTCTTACACG-AAT
* *
11061940 CACACTATCACATATTGATGCCATAGCCCAGCTATGGTCTTACATGAAT
1 CACA-TATCACATATTGATGCCATAACCCAGCTATGGTCTTACACGAAT
* * * * *
11061989 CACATATCTC--ACTGATGTCATATCCCAGATATGGTCTTA
1 CACATATCACATATTGATGCCATAACCCAGCTATGGTCTTA
11062028 TACAGTAGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 25 0.32
48 5 0.06
49 7 0.09
50 39 0.50
51 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAACCCAGCTATGGTCTTACACGAAT
Found at i:11062061 original size:47 final size:48
Alignment explanation
Indices: 11061905--11062077 Score: 156
Period size: 47 Copynumber: 3.6 Consensus size: 48
11061895 ATTCATATAT
* * * * * *
11061905 CGATGCCATAACCCAGCTATGGTCTTACACGT-AATCACACTATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACA-TATCAC--AC
* * * * *
11061955 TGATGCCATAGCCCAGCTATGGTC-T-TACATGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCACAC
* * * *
11062001 TGATGTCATATCCCAGATATGGTCTTATACA-GTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCACAC
11062048 CGATGCCATATCCCAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
11062078 GGAAATCACT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 22 0.21
47 41 0.39
48 12 0.11
49 8 0.08
50 22 0.21
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCACAC
Found at i:11062131 original size:31 final size:31
Alignment explanation
Indices: 11062096--11062244 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
11062086 CTTGTCACTT
*
11062096 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
11062127 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
11062158 GTAGCCGGAGTTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
11062189 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
11062220 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
11062245 TGTTATTTGT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 105 0.99
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:11062325 original size:50 final size:50
Alignment explanation
Indices: 11062220--11062396 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
11062210 CACTAATCAG
* * * *
11062220 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
11062271 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
11062321 GTAGCCGAAGCTATTACATATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
11062371 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
11062397 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 92 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:11063769 original size:105 final size:105
Alignment explanation
Indices: 11063587--11063815 Score: 415
Period size: 105 Copynumber: 2.2 Consensus size: 105
11063577 ATTAGGTCTC
11063587 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAGCTCTAATT
1 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAGCTCTAATT
*
11063652 CCATGCCAAATCATCATATACTTCCAGCACATATTCATAG
66 CCATGCCAAATCATCATATACTTCCAGCAAATATTCATAG
*
11063692 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATTAGCATATAAACAATTTGAAGCTCTAATT
1 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAGCTCTAATT
11063757 CCATGCCAAATCATCATATACTTCCAGCAAATATTCATAG
66 CCATGCCAAATCATCATATACTTCCAGCAAATATTCATAG
* *
11063797 AAACTTTCAATTTCT-TTCA
1 AAACATTCACTTTCTATTCA
11063816 TAGAATCAAA
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 4 0.03
105 116 0.97
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (105 bp):
AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAGCTCTAATT
CCATGCCAAATCATCATATACTTCCAGCAAATATTCATAG
Found at i:11069157 original size:44 final size:45
Alignment explanation
Indices: 11069108--11069239 Score: 158
Period size: 44 Copynumber: 2.9 Consensus size: 45
11069098 AGTAATAATT
*
11069108 TTAAATTTTCAATACTATTTGATATTTTTTTAATTTATGC-ATAA
1 TTAAATTTTCAATACTATTTGATATTTTTTTCATTTATGCAATAA
* *
11069152 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTTTCAATACTATTTGATATTTTTTTCATTTATGC-A--ATAA
* ** *
11069200 TTAAAATTTCAATACTGCTTGATTTTTTTTTTCATTTATG
1 TTAAATTTTCAATACTATTTGA-TATTTTTTTCATTTATG
11069240 ATGTTTGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 37 0.50
48 22 0.30
49 15 0.20
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (45 bp):
TTAAATTTTCAATACTATTTGATATTTTTTTCATTTATGCAATAA
Found at i:11070233 original size:7 final size:7
Alignment explanation
Indices: 11070221--11070246 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11070211 TAGTCGTTTC
11070221 GTATTTA
1 GTATTTA
11070228 GTATTTA
1 GTATTTA
11070235 GTATTTA
1 GTATTTA
11070242 GTATT
1 GTATT
11070247 ATGTATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:11073155 original size:20 final size:20
Alignment explanation
Indices: 11073130--11073170 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11073120 CACATGTATG
11073130 TGTACATTTATACTTTTTTA
1 TGTACATTTATACTTTTTTA
*
11073150 TGTACATTTGTACTTTTTTA
1 TGTACATTTATACTTTTTTA
11073170 T
1 T
11073171 CTCCCACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.61
Consensus pattern (20 bp):
TGTACATTTATACTTTTTTA
Found at i:11074594 original size:30 final size:29
Alignment explanation
Indices: 11074551--11074611 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
11074541 CAAGTAGCTG
* * *
11074551 AAGCTAGTTAAATCGCATATTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTACTGCCA
11074580 AAGCTAGTTTAAATCGCACACTTACTGCCA
1 AAGCTAG-TTAAATCGCACACTTACTGCCA
11074610 AA
1 AA
11074612 ACTTCCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTACTGCCA
Found at i:11076992 original size:126 final size:126
Alignment explanation
Indices: 11076834--11077186 Score: 512
Period size: 126 Copynumber: 2.8 Consensus size: 126
11076824 TTATAGCCTC
* * *
11076834 ATTTTTCTACGAACTACTTTAGCAAAAAAGCGTCTACGTGGGAACTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGAAATTTTGTTG
* *
11076899 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACATTTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * **
11076960 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGT-TCACGTGAGAGCTTTTTTCAGAAATTTTACT
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCT-ACGTGGGAGCTTTTTTCAGAAATTTTGTT
* * *
11077024 GACAGTGCATCCTACTTGAAGTGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * *
11077086 ATTTTTCTACGAACTACTATAGCAAAAGAGTGTCCACATGGGAGCTTTTTTCAGAAATTTTGCTT
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGAAATTTTG-TT
* * *
11077151 -ACAGGGCATCCTGCTTGAAGCGTTTTTGATACTATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATT
11077187 ACTCAAAATT
Statistics
Matches: 201, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
125 1 0.00
126 199 0.99
127 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGAAATTTTGTTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
Found at i:11077396 original size:8 final size:7
Alignment explanation
Indices: 11077385--11077414 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
11077375 TTAATAAATT
11077385 AACCCTTA
1 AACCC-TA
11077393 AACCCTA
1 AACCCTA
11077400 AACCCTA
1 AACCCTA
11077407 AACCCTA
1 AACCCTA
11077414 A
1 A
11077415 TTCAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:11077790 original size:20 final size:20
Alignment explanation
Indices: 11077749--11077836 Score: 125
Period size: 19 Copynumber: 4.7 Consensus size: 20
11077739 ACGATTATGT
11077749 ATCAATTAACCCTAAA-TTA
1 ATCAATTAACCCTAAATTTA
11077768 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
11077788 ATCAATTAACCCT-AATTTA
1 ATCAATTAACCCTAAATTTA
*
11077807 ATCAA-T--CCCT-AATTAA
1 ATCAATTAACCCTAAATTTA
11077823 ATCAATTAACCCTA
1 ATCAATTAACCCTA
11077837 TACCCTAAAC
Statistics
Matches: 63, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
16 14 0.22
17 1 0.02
18 1 0.02
19 31 0.49
20 16 0.25
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:11077808 original size:39 final size:35
Alignment explanation
Indices: 11077749--11077836 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 35
11077739 ACGATTATGT
*
11077749 ATCAATTAACCCTAAATTAATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTAATCAA-T--CCCT-AATTAA
*
11077788 ATCAATTAACCCTAATTTAATCAATCCCTAATTAA
1 ATCAATTAACCCTAAATTAATCAATCCCTAATTAA
11077823 ATCAATTAACCCTA
1 ATCAATTAACCCTA
11077837 TACCCTAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
35 19 0.40
36 4 0.09
38 1 0.02
39 23 0.49
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
ATCAATTAACCCTAAATTAATCAATCCCTAATTAA
Found at i:11077949 original size:15 final size:15
Alignment explanation
Indices: 11077931--11077981 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
11077921 TTTAAGCCCT
11077931 TAAAAACTCTAACCC
1 TAAAAACTCTAACCC
11077946 TAAATCAA-T-TAACCC
1 TAAA--AACTCTAACCC
* *
11077961 TAAAAACCCTAACCT
1 TAAAAACTCTAACCC
11077976 TAAAAA
1 TAAAAA
11077982 ACAAGAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
15 25 0.83
16 1 0.03
17 2 0.07
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAAACTCTAACCC
Found at i:11078383 original size:12 final size:12
Alignment explanation
Indices: 11078368--11078399 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11078358 ATACTCTTTT
11078368 TTATATTAAACA
1 TTATATTAAACA
11078380 TTATATTAAACA
1 TTATATTAAACA
11078392 TTATATTA
1 TTATATTA
11078400 CTAGCAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (12 bp):
TTATATTAAACA
Found at i:11078914 original size:32 final size:33
Alignment explanation
Indices: 11078862--11078933 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
11078852 TTATAAAGTT
* * *
11078862 ATAAATTAATTACTTGAATTTAATAATTCA-TG
1 ATAAATTAATAAATTGAATTTAATAACTCATTG
* *
11078894 ATAAATTAATAAATTTAATTTGATAACTCATTG
1 ATAAATTAATAAATTGAATTTAATAACTCATTG
*
11078927 ATTAATT
1 ATAAATT
11078934 GAATTTATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (33 bp):
ATAAATTAATAAATTGAATTTAATAACTCATTG
Found at i:11083378 original size:90 final size:91
Alignment explanation
Indices: 11083226--11083402 Score: 209
Period size: 90 Copynumber: 2.0 Consensus size: 91
11083216 ATAAAAAACT
* ** *
11083226 CTCAAACTTTTTAAAAAAATAAACAATTAAGCCATTACTTTTTTTTTCAATCAATCGGGTACTTG
1 CTCAAACTTTTTAAAAAAATAAACAATTAAGCCATTACTTTTTTTTGCAATCAATCAAGTACTTA
*
11083291 AACT-TTCAAAATGCATCAAAAAGTCC
66 AACTGTT-AAAATGCATAAAAAAGTCC
* * * * *
11083317 CTCAAACTTTTT-CAAAAA-GAACAATTAAGCCACTGT-GTTTTTTTTGCACTCAATTAAGTACT
1 CTCAAACTTTTTAAAAAAATAAACAATTAAGCCA-T-TACTTTTTTTTGCAATCAATCAAGTACT
11083379 TAAACTGTTAAAATGCATAAAAAA
64 TAAACTGTTAAAATGCATAAAAAA
11083403 TGTACGTTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
89 13 0.18
90 45 0.62
91 15 0.21
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (91 bp):
CTCAAACTTTTTAAAAAAATAAACAATTAAGCCATTACTTTTTTTTGCAATCAATCAAGTACTTA
AACTGTTAAAATGCATAAAAAAGTCC
Found at i:11083569 original size:30 final size:28
Alignment explanation
Indices: 11083514--11083589 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 28
11083504 AATTATAAAA
*
11083514 AATAAAAATCAATAAAATTTATTAAATTTC
1 AATAAAAAT--ATAAAATATATTAAATTTC
*
11083544 AATAAAAATATAAACATATATTTAAATTTT
1 AATAAAAATATAAA-ATATA-TTAAATTTC
*
11083574 ATTAAAAAATATAAAA
1 AAT-AAAAATATAAAA
11083590 ATTGTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 4 0.10
30 20 0.50
31 11 0.28
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
AATAAAAATATAAAATATATTAAATTTC
Found at i:11083600 original size:48 final size:48
Alignment explanation
Indices: 11083546--11083638 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 48
11083536 TAAATTTCAA
* *
11083546 TAAAAATATAAACATATATT-TAAA-TTTTATTAAAAAAT-ATAAAAATTG
1 TAAAAATATAAA-AAAAATTGTAAATTTTTA-T-AAAAATCATAAAAATTG
11083594 TAAAAATATAAAAAAAATTGTAAATTTTTATAAAAATCATAAAAA
1 TAAAAATATAAAAAAAATTGTAAATTTTTATAAAAATCATAAAAA
11083639 AATATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
47 11 0.28
48 24 0.60
49 5 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (48 bp):
TAAAAATATAAAAAAAATTGTAAATTTTTATAAAAATCATAAAAATTG
Found at i:11083787 original size:16 final size:15
Alignment explanation
Indices: 11083762--11083792 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11083752 ACATGTGATG
11083762 AAAAATAATAAAAAT
1 AAAAATAATAAAAAT
11083777 AAAAATCAATAAAAAT
1 AAAAAT-AATAAAAAT
11083793 TATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:11083866 original size:10 final size:9
Alignment explanation
Indices: 11083851--11083964 Score: 59
Period size: 10 Copynumber: 11.9 Consensus size: 9
11083841 TTTTACAAAA
11083851 TTTATATTT
1 TTTATATTT
11083860 CTTTATATTT
1 -TTTATATTT
11083870 TTTATAATTT
1 TTTAT-ATTT
11083880 TCTTATGACTTT
1 T-TTAT-A-TTT
* *
11083892 ATAATATTT
1 TTTATATTT
* *
11083901 TATAAACTTT
1 TTTATA-TTT
*
11083911 TTTCTATATT
1 TTTATAT-TT
* *
11083921 TCTATATAT
1 TTTATATTT
11083930 TTTATAATTT
1 TTTAT-ATTT
* *
11083940 TGTATAATT
1 TTTATATTT
11083949 TTTA-ATTT
1 TTTATATTT
*
11083957 TTTTTATT
1 TTTATATT
11083965 AAAATTTAAT
Statistics
Matches: 77, Mismatches: 20, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
8 6 0.08
9 25 0.32
10 35 0.45
11 8 0.10
12 3 0.04
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTATATTT
Found at i:11083912 original size:41 final size:41
Alignment explanation
Indices: 11083867--11083946 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
11083857 TTTCTTTATA
11083867 TTTTTTATA-ATTTTCT-TATGACTTTATAATATTT-TATAAAC
1 TTTTTTATATA-TTTCTATAT-ACTTTATAAT-TTTGTATAAAC
* *
11083908 TTTTTTCTATATTTCTATATATTTTATAATTTTGTATAA
1 TTTTTTATATATTTCTATATACTTTATAATTTTGTATAA
11083947 TTTTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 3 0.09
41 27 0.79
42 4 0.12
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (41 bp):
TTTTTTATATATTTCTATATACTTTATAATTTTGTATAAAC
Found at i:11083930 original size:31 final size:29
Alignment explanation
Indices: 11083852--11083940 Score: 83
Period size: 31 Copynumber: 3.0 Consensus size: 29
11083842 TTTACAAAAT
* *
11083852 TTATATTTCTTTATATTTTTTATAATTTTC
1 TTATATTTCTATATATTTTATA-AATTTTC
* *
11083882 TTATGACTT-TATAATATTTTATAAACTTTTT
1 TTAT-ATTTCTAT-ATATTTTATAAA-TTTTC
11083913 TCTATATTTCTATATATTTTAT-AATTTT
1 T-TATATTTCTATATATTTTATAAATTTT
11083941 GTATAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
29 4 0.08
30 10 0.20
31 29 0.59
32 6 0.12
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (29 bp):
TTATATTTCTATATATTTTATAAATTTTC
Found at i:11083932 original size:21 final size:20
Alignment explanation
Indices: 11083851--11083932 Score: 53
Period size: 21 Copynumber: 4.0 Consensus size: 20
11083841 TTTTACAAAA
*
11083851 TTTATATTTCTTTATA-TTT
1 TTTATATTTCTATATATTTT
*
11083870 TTTATAATTTTCT-TATGACTTT
1 TTTAT-A-TTTCTATAT-ATTTT
* * *
11083892 ATAATATTT-TATAAACTTTT
1 TTTATATTTCTATATA-TTTT
11083912 TTCTATATTTCTATATATTTT
1 TT-TATATTTCTATATATTTT
11083933 ATAATTTTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
19 7 0.15
20 13 0.27
21 17 0.35
22 11 0.23
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (20 bp):
TTTATATTTCTATATATTTT
Found at i:11083945 original size:17 final size:17
Alignment explanation
Indices: 11083923--11083957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
11083913 TCTATATTTC
11083923 TATATATTTTATAATTTTG
1 TATA-ATTTT-TAATTTTG
11083942 TATAATTTTTAATTTT
1 TATAATTTTTAATTTT
11083958 TTTTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TATAATTTTTAATTTTG
Found at i:11086152 original size:16 final size:16
Alignment explanation
Indices: 11086115--11086153 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11086105 ATTTTGCTTA
11086115 AAATTCTTTAAAAATC
1 AAATTCTTTAAAAATC
11086131 ATAATT-TTTAAAAATAC
1 A-AATTCTTTAAAAAT-C
11086148 AAATTC
1 AAATTC
11086154 ATAAAAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTCTTTAAAAATC
Found at i:11087099 original size:15 final size:15
Alignment explanation
Indices: 11087075--11087208 Score: 56
Period size: 15 Copynumber: 8.3 Consensus size: 15
11087065 ACTAAAACTG
*
11087075 ATATACTAATATATA
1 ATATAATAATATATA
11087090 ATATAATAATATAGT-
1 ATATAATAATATA-TA
* *
11087105 ATATAACTATTACTAAA
1 ATATAA-TAATA-TATA
11087122 ATTATTAATACATATATA
1 A-TA-TAATA-ATATATA
11087140 ATAATAATAAT-TATTA
1 AT-ATAATAATATA-TA
* * * *
11087156 TTATTATTATTATATT
1 ATA-TAATAATATATA
* *
11087172 ACATAATATATTATATG
1 ATATAATA-A-TATATA
* *
11087189 ATATAACATTATATA
1 ATATAATAATATATA
11087204 ATATA
1 ATATA
11087209 GTAAGAGGAT
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
15 35 0.40
16 17 0.19
17 22 0.25
18 9 0.10
19 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (15 bp):
ATATAATAATATATA
Found at i:11087197 original size:22 final size:22
Alignment explanation
Indices: 11087157--11087208 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11087147 TAATTATTAT
* *
11087157 TATTATTATTATATTACATAATA
1 TATTA-TATGATATAACATAATA
*
11087180 TATTATATGATATAACATTATA
1 TATTATATGATATAACATAATA
*
11087202 TAATATA
1 TATTATA
11087209 GTAAGAGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTATATGATATAACATAATA
Found at i:11090961 original size:24 final size:23
Alignment explanation
Indices: 11090934--11091001 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
11090924 TAAGTAAATT
*
11090934 ATTTATTAATTTACATTTGTATTC
1 ATTTATTAA-TTACACTTGTATTC
11090958 ATTTTCATT-ATTACACTTGTATTC
1 A-TTT-ATTAATTACACTTGTATTC
* *
11090982 AATTATTACCTTACACTTGT
1 ATTTATTA-ATTACACTTGT
11091002 CACTCCTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 3 0.08
23 2 0.05
24 25 0.68
25 4 0.11
26 3 0.08
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTTATTAATTACACTTGTATTC
Found at i:11092279 original size:12 final size:12
Alignment explanation
Indices: 11092262--11092296 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11092252 AGTGTTGAAT
11092262 CGGTAACAGTAA
1 CGGTAACAGTAA
*
11092274 CGGTAACGGTAA
1 CGGTAACAGTAA
*
11092286 CAGTAACAGTA
1 CGGTAACAGTA
11092297 GTCGGCACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:11092947 original size:22 final size:22
Alignment explanation
Indices: 11092905--11092950 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11092895 CTAACTAAAC
*
11092905 TCATATATTTTTCTTCTTCAAT
1 TCATATATTTTTATTCTTCAAT
*
11092927 TCATATCTTTTTATTAC-TCAAT
1 TCATATATTTTTATT-CTTCAAT
11092949 TC
1 TC
11092951 CCTACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
TCATATATTTTTATTCTTCAAT
Found at i:11100469 original size:93 final size:93
Alignment explanation
Indices: 11100362--11100532 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
11100352 ACCCCTAAGT
* *
11100362 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11100427 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
11100455 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11100520 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11100533 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11100529 original size:46 final size:46
Alignment explanation
Indices: 11100357--11100529 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
11100347 AACCCACCCC
* * *
11100357 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
11100403 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
11100451 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
11100496 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11100530 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:11102939 original size:15 final size:15
Alignment explanation
Indices: 11102915--11102962 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
11102905 AGGAAACCGA
11102915 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
11102930 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
11102944 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
11102960 ATA
1 ATA
11102963 CGATACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:11105989 original size:46 final size:46
Alignment explanation
Indices: 11105919--11106090 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
11105909 AACCCGCCCC
* * *
11105919 TAAGTGAACTCGGACTCAATTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * *
11105965 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * ** *
11106013 TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
11106058 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
11106091 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 57 0.57
47 26 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:11106036 original size:93 final size:93
Alignment explanation
Indices: 11105924--11106094 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11105914 GCCCCTAAGT
* * ** * *
11105924 GAACTCGGACTCAATTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11105989 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
11106017 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11106082 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11106095 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11114811 original size:33 final size:33
Alignment explanation
Indices: 11114769--11114877 Score: 146
Period size: 33 Copynumber: 3.3 Consensus size: 33
11114759 CGTGTGACAT
* * *
11114769 GCCCGTGTGGGCACACATGCTCAACTCAGCCTA
1 GCCCATGTGGGCACACATGCCCAACTCGGCCTA
*
11114802 GCTCATGTGGGCACACATGCCCAACTCGGCCTA
1 GCCCATGTGGGCACACATGCCCAACTCGGCCTA
* * *
11114835 GCCCATGTGGGCTCACACGCCCAACTTGGCCTA
1 GCCCATGTGGGCACACATGCCCAACTCGGCCTA
*
11114868 GCCCGTGTGG
1 GCCCATGTGG
11114878 CTCATATTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.18, C:0.37, G:0.27, T:0.18
Consensus pattern (33 bp):
GCCCATGTGGGCACACATGCCCAACTCGGCCTA
Found at i:11120679 original size:29 final size:29
Alignment explanation
Indices: 11120624--11120679 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11120614 AATAGCTTAG
* **
11120624 ACCGTGTGTCACACATGGCCTGTCACACA
1 ACCGTGTGTCACACATGACCTACCACACA
11120653 ACCGTGTGTCACACATGACCTACCACA
1 ACCGTGTGTCACACATGACCTACCACA
11120680 TGGCCTGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.20
Consensus pattern (29 bp):
ACCGTGTGTCACACATGACCTACCACACA
Found at i:11128663 original size:34 final size:34
Alignment explanation
Indices: 11128625--11128689 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
11128615 TGACAGTCTA
11128625 GTATCAGT-TAGGGCCTTAGCCCAATACAGTATCG
1 GTATCAGTGT-GGGCCTTAGCCCAATACAGTATCG
*
11128659 GTATCAGTGTGGGCCTTAGCCCAATTCAGTA
1 GTATCAGTGTGGGCCTTAGCCCAATACAGTA
11128690 ACAGTAACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
GTATCAGTGTGGGCCTTAGCCCAATACAGTATCG
Found at i:11128962 original size:34 final size:34
Alignment explanation
Indices: 11128924--11128991 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11128914 TCATACGTGT
11128924 ATGCAAAAATGTCATGCTCGAATATAGTCATACA
1 ATGCAAAAATGTCATGCTCGAATATAGTCATACA
11128958 ATGCAAAAATGTCATGCTCGAATATAGTCATACA
1 ATGCAAAAATGTCATGCTCGAATATAGTCATACA
11128992 TATCATAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (34 bp):
ATGCAAAAATGTCATGCTCGAATATAGTCATACA
Found at i:11129192 original size:17 final size:19
Alignment explanation
Indices: 11129156--11129194 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
11129146 AAAGCCCATA
11129156 ACACGGCTCATGTGGGCCC
1 ACACGGCTCATGTGGGCCC
*
11129175 ACACGGC-CGTGT-GGCCC
1 ACACGGCTCATGTGGGCCC
11129192 ACA
1 ACA
11129195 AAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.18, C:0.38, G:0.31, T:0.13
Consensus pattern (19 bp):
ACACGGCTCATGTGGGCCC
Found at i:11136234 original size:25 final size:25
Alignment explanation
Indices: 11136206--11136258 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
11136196 AATTTGATAT
*
11136206 TTCAGCAGAGAAGGCATTGTTGAGA
1 TTCAGCAGAAAAGGCATTGTTGAGA
11136231 TTCAGCAGAAAAGGCATTGTTGAGA
1 TTCAGCAGAAAAGGCATTGTTGAGA
11136256 TTC
1 TTC
11136259 GCAAACTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (25 bp):
TTCAGCAGAAAAGGCATTGTTGAGA
Found at i:11136880 original size:15 final size:16
Alignment explanation
Indices: 11136846--11136884 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
11136836 CATAAAATTG
11136846 AGATTAATTTATAGGA
1 AGATTAATTTATAGGA
11136862 AGATTAATTTATA-GA
1 AGATTAATTTATAGGA
11136877 AGA-TAATT
1 AGATTAATT
11136885 AAATTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (16 bp):
AGATTAATTTATAGGA
Found at i:11136918 original size:29 final size:29
Alignment explanation
Indices: 11136883--11136941 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11136873 TAGAAGATAA
11136883 TTAAATTATTTGTTTCACTAATGATATTC
1 TTAAATTATTTGTTTCACTAATGATATTC
11136912 TTAAATTATTTGTTTCACTAATGATATTC
1 TTAAATTATTTGTTTCACTAATGATATTC
11136941 T
1 T
11136942 AACACATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (29 bp):
TTAAATTATTTGTTTCACTAATGATATTC
Found at i:11137173 original size:59 final size:62
Alignment explanation
Indices: 11136998--11137166 Score: 195
Period size: 63 Copynumber: 2.7 Consensus size: 62
11136988 ATATTATTTT
* ** *
11136998 TTAATATTATATATTATGATTTTTATT-CATTCATATTTTAATAATAATTATATT-AAGAATGTT
1 TTAA-ATTATATATTATTATCATTATTAAATT-ATA-TTTAATAATAATTATATTAAAGAATG-T
11137061 A
62 A
* * *
11137062 TTAAATTATATATTATTATCTTTATTAAATTATTTTTAATAATAATTATATTAAAGTATG-A
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
*
11137123 TTAAATTATTTATTATT-T-ATTATTAAATTATATTTAATAATAAT
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAAT
11137167 CCTATTATAA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
59 24 0.25
60 1 0.01
61 17 0.18
62 18 0.19
63 28 0.29
64 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (62 bp):
TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
Found at i:11139651 original size:28 final size:28
Alignment explanation
Indices: 11139602--11139696 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
11139592 AAATATATCA
11139602 AAATTAACCGAATTAG-CTGATTTAACTG
1 AAATTAACCGAATTAGTC-GATTTAACTG
* *
11139630 AAAGTAACCGAATTAGTCGATTTAATTG
1 AAATTAACCGAATTAGTCGATTTAACTG
* *
11139658 AAATTAACTG-ATATAGTCGATTTATCTG
1 AAATTAACCGAAT-TAGTCGATTTAACTG
11139686 AAATTAACCGA
1 AAATTAACCGA
11139697 TTTTTAAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.04
28 54 0.95
29 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (28 bp):
AAATTAACCGAATTAGTCGATTTAACTG
Found at i:11160152 original size:13 final size:12
Alignment explanation
Indices: 11160129--11160162 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
11160119 TTTCTATTCA
11160129 TTTTGATTTTCC
1 TTTTGATTTTCC
11160141 TTTTGAATTTTCC
1 TTTTG-ATTTTCC
11160154 TTTTG-TTTT
1 TTTTGATTTT
11160163 GCATGCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 5 0.24
13 12 0.57
ACGTcount: A:0.09, C:0.12, G:0.09, T:0.71
Consensus pattern (12 bp):
TTTTGATTTTCC
Found at i:11170829 original size:46 final size:46
Alignment explanation
Indices: 11170670--11170890 Score: 144
Period size: 46 Copynumber: 4.7 Consensus size: 46
11170660 GTAAGGTGCT
* * * * *
11170670 GATGCCATGTCCCAGACATAGTCTTACACTAGCTATCATCTTCGAGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCGTC-TCAAGACC
* * * * ** *
11170719 GATGCCATGTCCCAGACATGGTCTTACATTGAC-ACATCTTGTAG-TC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTCGTC-TCAAGACC
* * * *
11170765 AATG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCAAGACC
** * * * *
11170811 GATG-CATGTCTTAGACATGCCTTACACTAGCACTCGTCTCAATACC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCAAGACC
11170857 GATGCCATGTCCCAGACATCGTCTTACACTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT
11170891 CCCATAATGT
Statistics
Matches: 133, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 45 0.34
47 21 0.16
48 11 0.08
49 29 0.22
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCAAGACC
Found at i:11179208 original size:5 final size:5
Alignment explanation
Indices: 11179195--11179225 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
11179185 TAATAAATAG
*
11179195 TAAAA TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
11179226 GCACGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:11185267 original size:13 final size:13
Alignment explanation
Indices: 11185249--11185275 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11185239 GAGTGACCCA
11185249 CACTTGTAGCAGC
1 CACTTGTAGCAGC
11185262 CACTTGTAGCAGC
1 CACTTGTAGCAGC
11185275 C
1 C
11185276 CTTCTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (13 bp):
CACTTGTAGCAGC
Found at i:11189517 original size:46 final size:48
Alignment explanation
Indices: 11189288--11189555 Score: 209
Period size: 46 Copynumber: 5.6 Consensus size: 48
11189278 GCGTTTATCA
* *
11189288 ATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-TACTCATC-TCGAGGCCG
* * * *
11189337 ATGCCATGTCCTAGACATGGTCTTACACTAGTTCTCACATATCCG-TGCC-
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTACT--CATCT-CGAGGCCG
* *
11189386 ATTGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-ACCG
1 A-TGCCATGTCCCAGACATGGTCTTACACTAGTACTCATCTCG-AGGCCG
* * *
11189433 ATG-CATGTCTCAGACAT-GTCTTACACTGGCTTA-T-GTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG--TACTCATCTCGAGGCCG
* * * *
11189479 ATG-CATGTCCCAGACAT-GTCTTACACTAGTACTCGTCTCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTACTCATCTCGAGGCCG
* * *
11189525 ATGTCGTGTCCCAGGCATGGTCTTACACTAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG
11189556 CTCTCATAAT
Statistics
Matches: 180, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
44 12 0.07
45 18 0.10
46 55 0.31
47 13 0.07
48 15 0.08
49 32 0.18
50 30 0.17
51 5 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGTACTCATCTCGAGGCCG
Found at i:11189601 original size:46 final size:45
Alignment explanation
Indices: 11189431--11189604 Score: 124
Period size: 46 Copynumber: 3.8 Consensus size: 45
11189421 ATCTCGTAAC
* * * * * * *
11189431 CGATGCATGTCTCAGACATGTCTTACACTGGCTTATGTCTCGAGGC-
1 CGATGGATGTCCCAGACTTGTCTTACACTAGC-T-CGTCTCAATGCT
* *
11189477 CGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCT
1 CGATGGATGTCCCAGACTTGTCTTACACTAG--CTCGTCTCAATGCT
* *
11189524 -GATGTCG-TGTCCCAGGCATGGTCTTACACTAGCTC-TCAT-AATGCAGT
1 CGATG--GATGTCCCAGAC-TTGTCTTACACTAGCTCGTC-TCAATGC--T
11189571 CGATGGATGTCCCAGACTTGTCTTACACTAGCTC
1 CGATGGATGTCCCAGACTTGTCTTACACTAGCTC
11189605 ACCCAAATCA
Statistics
Matches: 106, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
45 7 0.07
46 62 0.58
47 20 0.19
48 17 0.16
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (45 bp):
CGATGGATGTCCCAGACTTGTCTTACACTAGCTCGTCTCAATGCT
Found at i:11193406 original size:25 final size:25
Alignment explanation
Indices: 11193359--11193406 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11193349 AACTTTTCTT
**
11193359 TAGGTAAAATCGACAAAGTAAAAAG
1 TAGGTAAAATCGACAAACCAAAAAG
*
11193384 TAGGTAAAATCGA-AAACCCAAAA
1 TAGGTAAAATCGACAAACCAAAAA
11193407 CCAAAACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (25 bp):
TAGGTAAAATCGACAAACCAAAAAG
Found at i:11194582 original size:8 final size:8
Alignment explanation
Indices: 11194569--11194595 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11194559 ACCAAAAAGG
11194569 AAAATGAA
1 AAAATGAA
11194577 AAAATGAA
1 AAAATGAA
11194585 AAAATGAA
1 AAAATGAA
11194593 AAA
1 AAA
11194596 GAAGAGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAATGAA
Found at i:11207431 original size:19 final size:19
Alignment explanation
Indices: 11207383--11207436 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
11207373 TAATGAGTAT
11207383 ATCATG-CATATCATGTGC
1 ATCATGTCATATCATGTGC
* *
11207401 ATC-TCATAATATCATGTGC
1 ATCAT-GTCATATCATGTGC
11207420 ATCATGTCATATCATGT
1 ATCATGTCATATCATGT
11207437 ATAACAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 3 0.10
19 24 0.83
20 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (19 bp):
ATCATGTCATATCATGTGC
Found at i:11215420 original size:24 final size:25
Alignment explanation
Indices: 11215393--11215439 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11215383 GCCTAGCCTC
*
11215393 TTTTAAT-AACTGGGGCAAAGCCAA
1 TTTTAATAAACTGGGGAAAAGCCAA
**
11215417 TTTTGGTAAACTGGGGAAAAGCC
1 TTTTAATAAACTGGGGAAAAGCC
11215440 CTTTTCGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (25 bp):
TTTTAATAAACTGGGGAAAAGCCAA
Found at i:11215507 original size:10 final size:10
Alignment explanation
Indices: 11215492--11215551 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
11215482 TATAATGAGT
11215492 ATATCATGGC
1 ATATCATGGC
11215502 ATATCATGTGC
1 ATATCATG-GC
* *
11215513 ATCTCATGAC
1 ATATCATGGC
11215523 ATATCATGTGC
1 ATATCATG-GC
* *
11215534 ATACCATGTC
1 ATATCATGGC
*
11215544 AAATCATG
1 ATATCATG
11215552 TATAACAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 23 0.57
11 17 0.43
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (10 bp):
ATATCATGGC
Found at i:11215514 original size:11 final size:11
Alignment explanation
Indices: 11215478--11215552 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
11215468 GCCTAACCCA
*
11215478 TGCATATAATG
1 TGCATATCATG
* *
11215489 AGTATATCATG
1 TGCATATCATG
11215500 -GCATATCATG
1 TGCATATCATG
*
11215510 TGCATCTCATG
1 TGCATATCATG
*
11215521 -ACATATCATG
1 TGCATATCATG
*
11215531 TGCATACCATG
1 TGCATATCATG
*
11215542 T-CAAATCATG
1 TGCATATCATG
11215552 T
1 T
11215553 ATAACAATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
10 25 0.49
11 26 0.51
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (11 bp):
TGCATATCATG
Found at i:11215514 original size:32 final size:32
Alignment explanation
Indices: 11215478--11215542 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
11215468 GCCTAACCCA
* *
11215478 TGCATATAATGAGTATATCATG-GCATATCATG
1 TGCATATAATGA-CATATCATGTGCATACCATG
* *
11215510 TGCATCTCATGACATATCATGTGCATACCATG
1 TGCATATAATGACATATCATGTGCATACCATG
11215542 T
1 T
11215543 CAAATCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (32 bp):
TGCATATAATGACATATCATGTGCATACCATG
Found at i:11215519 original size:21 final size:22
Alignment explanation
Indices: 11215495--11215552 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
11215485 AATGAGTATA
*
11215495 TCATGGCATATCATGTGCAT-C
1 TCATGACATATCATGTGCATAC
11215516 TCATGACATATCATGTGCATAC
1 TCATGACATATCATGTGCATAC
* *
11215538 -CATGTCAAATCATGT
1 TCATGACATATCATGT
11215553 ATAACAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATGACATATCATGTGCATAC
Found at i:11220782 original size:26 final size:26
Alignment explanation
Indices: 11220746--11220807 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
11220736 GGAAAGGTAC
11220746 GTATATGAAATAAGCTATAATGTTGA
1 GTATATGAAATAAGCTATAATGTTGA
* *
11220772 GTATATGAAATGAGCTATGATGTTGA
1 GTATATGAAATAAGCTATAATGTTGA
*
11220798 ATATAT-AAAT
1 GTATATGAAAT
11220808 GGATAGTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (26 bp):
GTATATGAAATAAGCTATAATGTTGA
Found at i:11239648 original size:50 final size:50
Alignment explanation
Indices: 11239573--11239799 Score: 364
Period size: 50 Copynumber: 4.5 Consensus size: 50
11239563 CCATGGCAAC
* *
11239573 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGG
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
11239623 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
*
11239673 AAGTAATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* * *
11239723 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* **
11239773 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
11239800 CTGATCAGTG
Statistics
Matches: 165, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 143 0.87
51 22 0.13
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:11239813 original size:31 final size:31
Alignment explanation
Indices: 11239775--11239985 Score: 325
Period size: 31 Copynumber: 6.8 Consensus size: 31
11239765 ACAAATGACA
11239775 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
11239806 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11239837 AGTGAAAAGTGGTAGCTTCTGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11239868 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
11239899 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11239930 AATGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
11239961 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11239986 AAGTGACAAG
Statistics
Matches: 165, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
30 1 0.01
31 162 0.98
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:11240057 original size:46 final size:49
Alignment explanation
Indices: 11240007--11240132 Score: 177
Period size: 49 Copynumber: 2.6 Consensus size: 49
11239997 GATTTCCGTA
* * *
11240007 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTACGTG
*
11240053 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTACGTG
* *
11240102 TAAGACTATAGCTGGGCTATGACATCGATAT
1 TAAGACCATAGCTGGGCTATGGCATCGATAT
11240133 ATGAAGATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
46 24 0.34
47 1 0.01
48 13 0.18
49 33 0.46
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTACGTG
Found at i:11240876 original size:20 final size:18
Alignment explanation
Indices: 11240837--11240876 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
11240827 CGTGTGACTC
*
11240837 TCTAAAGTGTGAAAATTT
1 TCTAAAGTGTGAAAAGTT
11240855 TCTAAAGTGTTGCAAAAGTT
1 TCTAAAGTG-TG-AAAAGTT
11240875 TC
1 TC
11240877 ATATGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (18 bp):
TCTAAAGTGTGAAAAGTT
Found at i:11244366 original size:29 final size:29
Alignment explanation
Indices: 11244324--11244381 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
11244314 TGAAAAGTAA
11244324 GCAATAAATGAATTAGTCCAGATTTTAAT
1 GCAATAAATGAATTAGTCCAGATTTTAAT
11244353 GCAATAAATGAATTAGTCCAGATTTTAAT
1 GCAATAAATGAATTAGTCCAGATTTTAAT
11244382 TCAAAAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
GCAATAAATGAATTAGTCCAGATTTTAAT
Found at i:11255645 original size:27 final size:27
Alignment explanation
Indices: 11255607--11255658 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
11255597 TGTATTAAGC
11255607 ATAAATTTTTTGTTGGAAAAAAAGGGA
1 ATAAATTTTTTGTTGGAAAAAAAGGGA
11255634 ATAAATTTTTTGTTGGAAAAAAAGG
1 ATAAATTTTTTGTTGGAAAAAAAGG
11255659 AAAAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (27 bp):
ATAAATTTTTTGTTGGAAAAAAAGGGA
Found at i:11255671 original size:26 final size:27
Alignment explanation
Indices: 11255615--11255671 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11255605 GCATAAATTT
* ***
11255615 TTTGTTGGAAAAAAAGGGAATAAATTT
1 TTTGTTGGAAAAAAAGGGAAAAAAAAC
11255642 TTTGTTGGAAAAAAA-GGAAAAAAAAC
1 TTTGTTGGAAAAAAAGGGAAAAAAAAC
11255668 TTTG
1 TTTG
11255672 CATTTGAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (27 bp):
TTTGTTGGAAAAAAAGGGAAAAAAAAC
Found at i:11263131 original size:19 final size:19
Alignment explanation
Indices: 11263107--11263157 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
11263097 ACAAAATAAC
*
11263107 TCAAAATAATTT-TTAAAAT
1 TCAAAAT-ATTTATAAAAAT
11263126 TCAAAATATTTATAAAAAT
1 TCAAAATATTTATAAAAAT
*
11263145 TCCAAA-ATTTATA
1 TCAAAATATTTATA
11263158 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAAATATTTATAAAAAT
Found at i:11263606 original size:3 final size:3
Alignment explanation
Indices: 11263598--11263636 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11263588 ATTCTCCCTA
11263598 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11263637 AGTTTTGGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11267834 original size:46 final size:46
Alignment explanation
Indices: 11267781--11267956 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
11267771 TGGTTGAGCA
* * *
11267781 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATTCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * *
11267827 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
* * *
11267874 TCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
11267920 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11267957 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.66
47 33 0.32
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:11267937 original size:93 final size:93
Alignment explanation
Indices: 11267778--11267948 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11267768 GGATGGTTGA
* * *
11267778 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATTCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11267843 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
11267871 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11267936 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11267949 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:11276672 original size:15 final size:15
Alignment explanation
Indices: 11276654--11276682 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11276644 TAAGGTTTTT
11276654 TTAATTTTAATTTAA
1 TTAATTTTAATTTAA
11276669 TTAATTTTAATTTA
1 TTAATTTTAATTTA
11276683 GTTTTAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATTTTAATTTAA
Found at i:11277924 original size:22 final size:23
Alignment explanation
Indices: 11277872--11277924 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
11277862 CTGTTTGAGA
*
11277872 ATGTCAATCAATTAAAAATTAAT
1 ATGTCAATTAATTAAAAATTAAT
* *
11277895 AT-TCAATTAATTGAAAATTGAT
1 ATGTCAATTAATTAAAAATTAAT
11277917 ATGT-AATT
1 ATGTCAATT
11277925 TTAGTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (23 bp):
ATGTCAATTAATTAAAAATTAAT
Found at i:11280615 original size:20 final size:20
Alignment explanation
Indices: 11280585--11280629 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11280575 CTGTTTTGTT
11280585 ATGGG-CCAACTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
11280604 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
11280624 ATGGGC
1 ATGGGC
11280630 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:11284344 original size:20 final size:19
Alignment explanation
Indices: 11284291--11284345 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
11284281 ATCATATGAG
* *
11284291 ACTGTTTTGTTATGGGCCA
1 ACTGTATTGATATGGGCCA
* *
11284310 ACTGTATTAAAATGGGCCCA
1 ACTGTATTGATATGGG-CCA
11284330 ACTGTATTGATATGGG
1 ACTGTATTGATATGGG
11284346 AAAGGCCCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (19 bp):
ACTGTATTGATATGGGCCA
Found at i:11286131 original size:35 final size:37
Alignment explanation
Indices: 11286092--11286169 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
11286082 TATTTATTTA
*
11286092 TTTATATCATT-GT-TGTTATTATTATTATTCCTCAT
1 TTTATATCATTGGTGTATTATTATTATTATTCCTCAT
* *
11286127 TTTATTATTATTGGTGTATTATTATTATTATTCTTCAT
1 TTTA-TATCATTGGTGTATTATTATTATTATTCCTCAT
11286165 TTTAT
1 TTTAT
11286170 TATTATTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 4 0.11
36 6 0.16
37 3 0.08
38 24 0.65
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.63
Consensus pattern (37 bp):
TTTATATCATTGGTGTATTATTATTATTATTCCTCAT
Found at i:11286193 original size:25 final size:24
Alignment explanation
Indices: 11286143--11286225 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
11286133 ATTATTGGTG
* *
11286143 TATTATTATTATTATTCT-TCATTT
1 TATTATTATTTTTATTTTATCA-TT
11286167 TATTATTATTTTCTATTTTATCATT
1 TATTATTATTTT-TATTTTATCATT
11286192 TATTATTATTATTTA--TTATCAATAT
1 TATTATTATT-TTTATTTTATC-AT-T
11286217 TATTATTAT
1 TATTATTAT
11286226 CATTGCTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.10
24 13 0.25
25 29 0.56
26 5 0.10
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTATTATTTTTATTTTATCATT
Found at i:11286239 original size:71 final size:70
Alignment explanation
Indices: 11286143--11286290 Score: 160
Period size: 71 Copynumber: 2.1 Consensus size: 70
11286133 ATTATTGGTG
* * * *
11286143 TATTATTATTATTATTCTTCATTTTATTATT-ATTTTCTAT-TTTATCATT-TATTATTATTATT
1 TATTATTATTATCATTCTT-ATTTTATT-TTCA-TTACTATCATTATCATTAT-TTACTATTATT
11286205 TATTATCAA
62 TATTATCAA
*
11286214 TATTATTATTATCATTGC-TATTTTTATTTTCATTACTATCATTATTATTATTTACTATTATTTA
1 TATTATTATTATCATT-CTTA-TTTTATTTTCATTACTATCATTATCATTATTTACTATTATTTA
*
11286278 TTATCAT
64 TTATCAA
11286285 TATTAT
1 TATTAT
11286291 CACCATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
70 9 0.14
71 55 0.83
72 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (70 bp):
TATTATTATTATCATTCTTATTTTATTTTCATTACTATCATTATCATTATTTACTATTATTTATT
ATCAA
Found at i:11286343 original size:3 final size:3
Alignment explanation
Indices: 11285987--11286330 Score: 155
Period size: 3 Copynumber: 110.3 Consensus size: 3
11285977 GTTTCTTTAC
* *
11285987 TTA TTA TTA -CA TTA TTAA TTGA TCTA TTA TTA CTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TT-A TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
* * * ** * *
11286033 TTCA CTA TTA CTA TTA TTT TCTA ACA TTA TTA TTA CTA TTA CTA TTA
1 TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
11286080 TTTA TTTA TTTA TT- TATA TCA TTG TTG TTA TTA TTA TTA TTCC TCA
1 -TTA -TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
* *
11286126 TT- TTA TTA TTA TTGG TGTA TTA TTA TTA TTA TTC TTCA TT- TTA TTA
1 TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * *
11286172 TTA TTT TCTA TT- TTA TCA TTTA TTA TTA TTA TTTA TTA TCA ATA TTA
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * * *
11286219 TTA TTA TCA TTG CTA TTT TTA TT- TTCA TTA CTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* * * ** *
11286264 TTTA CTA TTA TTTA TTA TCA TTA TTA TCA CCA TT- TCCTA CTA TTA TTA
1 -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA
11286312 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
11286331 CACCATTATT
Statistics
Matches: 254, Mismatches: 61, Indels: 52
0.69 0.17 0.14
Matches are distributed among these distances:
2 13 0.05
3 197 0.78
4 42 0.17
5 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:11288471 original size:18 final size:18
Alignment explanation
Indices: 11288445--11288479 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11288435 AAATAAACAC
* *
11288445 ATAATTATTCAATTAATT
1 ATAACTATTCAAATAATT
11288463 ATAACTATTCAAATAAT
1 ATAACTATTCAAATAAT
11288480 ATTATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAACTATTCAAATAATT
Found at i:11291641 original size:18 final size:19
Alignment explanation
Indices: 11291608--11291645 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11291598 AGACTCCAGG
*
11291608 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
11291627 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
11291645 T
1 T
11291646 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:11297136 original size:12 final size:13
Alignment explanation
Indices: 11297119--11297148 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
11297109 AATTTAAAAG
11297119 ATAAAAAATT-AA
1 ATAAAAAATTAAA
11297131 ATAAAAAATTAAA
1 ATAAAAAATTAAA
11297144 ATAAA
1 ATAAA
11297149 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAATTAAA
Found at i:11298407 original size:16 final size:16
Alignment explanation
Indices: 11298370--11298409 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
11298360 ATTTTGGCAC
*
11298370 TCTTTTTTTCCTACTT
1 TCTTTTGTTCCTACTT
*
11298386 TC-TTTGTTCCTATTT
1 TCTTTTGTTCCTACTT
11298401 TCTTTTGTT
1 TCTTTTGTT
11298410 TTAGTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (16 bp):
TCTTTTGTTCCTACTT
Found at i:11298422 original size:15 final size:15
Alignment explanation
Indices: 11298377--11298424 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11298367 CACTCTTTTT
*
11298377 TTCCTACTTTCTTTG
1 TTCCTATTTTCTTTG
11298392 TTCCTATTTTCTTTTG
1 TTCCTATTTTC-TTTG
*
11298408 TT-TTAGTTTTCTTTG
1 TTCCTA-TTTTCTTTG
11298423 TT
1 TT
11298425 ATTGTTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.06, C:0.17, G:0.08, T:0.69
Consensus pattern (15 bp):
TTCCTATTTTCTTTG
Found at i:11310061 original size:6 final size:6
Alignment explanation
Indices: 11310046--11310074 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11310036 CATTAAACTG
11310046 GAAAAA -AAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
11310075 TAGTGAGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:11310442 original size:3 final size:3
Alignment explanation
Indices: 11310434--11310462 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11310424 GCCTTCATTA
11310434 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
11310463 GTGCATCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:11310676 original size:26 final size:26
Alignment explanation
Indices: 11310640--11310691 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11310630 TTATTAAAGT
11310640 AAGATGTTTAATAAATATGAAATTTA
1 AAGATGTTTAATAAATATGAAATTTA
11310666 AAGATGTTTAATAAATATGAAATTTA
1 AAGATGTTTAATAAATATGAAATTTA
11310692 TGATACACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (26 bp):
AAGATGTTTAATAAATATGAAATTTA
Found at i:11310999 original size:6 final size:6
Alignment explanation
Indices: 11310988--11311013 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11310978 CCATGCAAGA
11310988 CCCAAC CCCAAC CCCAAC CCCAAC CC
1 CCCAAC CCCAAC CCCAAC CCCAAC CC
11311014 TAACATCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCAAC
Found at i:11311027 original size:6 final size:6
Alignment explanation
Indices: 11311018--11311049 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
11311008 CAACCCTAAC
11311018 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT
1 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT
11311050 AATTTCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTAT
Found at i:11312085 original size:24 final size:24
Alignment explanation
Indices: 11312050--11312099 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11312040 ACAGATAAGG
11312050 TGTGTAACAAAAAAACTAAAAAAT
1 TGTGTAACAAAAAAACTAAAAAAT
* *
11312074 TGTG-AACGAAAAAAAGTCAAAAAT
1 TGTGTAAC-AAAAAAACTAAAAAAT
11312098 TG
1 TG
11312100 GACTATTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.20
Consensus pattern (24 bp):
TGTGTAACAAAAAAACTAAAAAAT
Found at i:11316365 original size:42 final size:43
Alignment explanation
Indices: 11316309--11316403 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
11316299 GAGATTTATG
** * *
11316309 TGTAAGACCATGTCTGGAACATTGGCATC-ATATTTGATTTCA
1 TGTAAGACCATGTCTGGAACAGAGGCATCGATAATTGATTACA
* * *
11316351 TGTAAGACCCTGTCTGGGATAGAGGCATCGATAATTGATTACA
1 TGTAAGACCATGTCTGGAACAGAGGCATCGATAATTGATTACA
11316394 TGTAAGACCA
1 TGTAAGACCA
11316404 CGTTTGGGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 24 0.55
43 20 0.45
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGAACAGAGGCATCGATAATTGATTACA
Found at i:11316421 original size:43 final size:42
Alignment explanation
Indices: 11316265--11316421 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
11316255 TGTGATTTCG
* **
11316265 TGTAAGACCACGTCTAGGACGTTGGCATCACT--TTGAGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCA-TAATT--GA-TTACA
* * * * *
11316309 TGTAAGACCATGTCTGGAACATTGGCATCATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATAATTGATTACA
* *
11316351 TGTAAGACC-CTGTCTGGGATAG-AGGCATCGATAATTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATAATTGATTACA
*
11316394 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
11316422 TGTACGAGTC
Statistics
Matches: 89, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.28
43 35 0.39
44 27 0.30
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATAATTGATTACA
Found at i:11322192 original size:30 final size:30
Alignment explanation
Indices: 11322134--11322193 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11322124 TTCCCAAGCC
*
11322134 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
11322164 TAGGGGCAAAA-TGGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGT-GTAATTATACAAAAGTT
11322194 CATATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:11322967 original size:51 final size:49
Alignment explanation
Indices: 11322843--11323035 Score: 233
Period size: 49 Copynumber: 3.9 Consensus size: 49
11322833 TATTGTGAGG
* * * ** *
11322843 TCACATGTGTTGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
* * *
11322892 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAATTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GA
* * * * *
11322943 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
*
11322992 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
11323036 GCTTCGGCTA
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 77 0.64
50 4 0.03
51 40 0.33
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
Found at i:11323021 original size:100 final size:100
Alignment explanation
Indices: 11322843--11323035 Score: 323
Period size: 100 Copynumber: 1.9 Consensus size: 100
11322833 TATTGTGAGG
* **
11322843 TCACATGTGTTGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
11322908 AAGTGCAGGCTACTATGCATACCTGATAATTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAATTTCGA
* *
11322943 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
11323008 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCATACCAGATA
11323036 GCTTCGGCTA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAATTTCGA
Found at i:11325223 original size:51 final size:51
Alignment explanation
Indices: 11325137--11325248 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
11325127 TGAGTACTTC
*
11325137 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
11325188 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
*
11325239 TGACAAGTGA
1 TGATAAGTGA
11325249 TAAATGTGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (51 bp):
TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
Found at i:11335822 original size:12 final size:12
Alignment explanation
Indices: 11335805--11335832 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11335795 ATTTAAAAAT
11335805 TTAATATTTTTA
1 TTAATATTTTTA
11335817 TTAATATTTTTA
1 TTAATATTTTTA
11335829 TTAA
1 TTAA
11335833 AAAAACGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTAATATTTTTA
Found at i:11337049 original size:162 final size:162
Alignment explanation
Indices: 11336772--11337294 Score: 766
Period size: 162 Copynumber: 3.2 Consensus size: 162
11336762 TTTGATACAG
* * * ** * *
11336772 TGTCTATTGCTAGTAGCTTTGGGAGATTACAAACTCCGAAGATATGGGACTGCTCCCAATTGGAA
1 TGTCTATTGCTAATAGCCTTGGGAGATTGCAAACTATGAAGATATGAGACTGCTCCCAATTGAAA
*
11336837 GAAATAATCCAAGGCTCAGAAGTGT-AAGACATAAACCTCCAAAGTTTAAGGGAAGTAAAAGTTA
66 GAAATAATCCAAGGCTCAGAAGTGTCAA-ACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTA
* *
11336901 GAAACTACCATAATTTGAGGTATCTCTTCCCAA
130 GAAACTGCAATAATTTGAGGTATCTCTTCCCAA
*
11336934 TGTCTATTGCTAATAGCCTTGGGAGATTGCAAACTTTGAAGATATGAGACTGCTCCCAATTGAAA
1 TGTCTATTGCTAATAGCCTTGGGAGATTGCAAACTATGAAGATATGAGACTGCTCCCAATTGAAA
* *
11336999 G-AATAATTCAAGGCTCAGAAGTGTCAAACATAAGCCTCCAAAGTTTTAAGGGAAGTAGAAGTTA
66 GAAATAATCCAAGGCTCAGAAGTGTCAAACATAAGCCTCCAAAG-TTTAAGGGAAGTAAAAGTTA
*
11337063 GAAACTGCAATAATTTGATGTATCTCTTCCCAA
130 GAAACTGCAATAATTTGAGGTATCTCTTCCCAA
* * * * *
11337096 TATCTATTGCTAATAGCCTTAGGAGAGATTGCAAACTATGCAGATAAGTGACTGCTTCCAATT-A
1 TGTCTATTGCTAATAGCCTT-GG-GAGATTGCAAACTATGAAGATATGAGACTGCTCCCAATTGA
*
11337160 GAAGAAATAATCCAAAGCTCAGAAGTGTCAAACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGT
64 -AAGAAATAATCCAAGGCTCAGAAGTGTCAAACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGT
11337225 T-GAAAACTGCAATAATTTGAGGTATCTCTTCCCAA
128 TAG-AAACTGCAATAATTTGAGGTATCTCTTCCCAA
* *
11337260 TGTTTATTGCTAATAGCCTTGGGGGATTGCAAACT
1 TGTCTATTGCTAATAGCCTTGGGAGATTGCAAACT
11337295 CTAGAGAGGT
Statistics
Matches: 328, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
161 37 0.11
162 141 0.43
163 6 0.02
164 104 0.32
165 40 0.12
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (162 bp):
TGTCTATTGCTAATAGCCTTGGGAGATTGCAAACTATGAAGATATGAGACTGCTCCCAATTGAAA
GAAATAATCCAAGGCTCAGAAGTGTCAAACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTAG
AAACTGCAATAATTTGAGGTATCTCTTCCCAA
Found at i:11341532 original size:20 final size:20
Alignment explanation
Indices: 11341507--11341545 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11341497 GATAATCATC
*
11341507 GTAGGTATCGATACTAATGA
1 GTAGGTATCGATACCAATGA
*
11341527 GTAGGTATTGATACCAATG
1 GTAGGTATCGATACCAATG
11341546 TAAAAATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
GTAGGTATCGATACCAATGA
Found at i:11341902 original size:20 final size:20
Alignment explanation
Indices: 11341877--11341919 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11341867 GAGAACGACG
11341877 ATCATGCATCACCAAACTCA
1 ATCATGCATCACCAAACTCA
11341897 ATCATGCATCACCAAACTCA
1 ATCATGCATCACCAAACTCA
11341917 ATC
1 ATC
11341920 TTTAGCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.35, G:0.05, T:0.21
Consensus pattern (20 bp):
ATCATGCATCACCAAACTCA
Found at i:11346715 original size:15 final size:15
Alignment explanation
Indices: 11346695--11346724 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11346685 CATTTTATTT
*
11346695 ATATTAGGATAATTA
1 ATATTAAGATAATTA
11346710 ATATTAAGATAATTA
1 ATATTAAGATAATTA
11346725 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Done.