Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 273 of 310
Found at i:90259758 original size:22 final size:23
Alignment explanation
Indices: 90259727--90259769 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
90259717 ACTACCATTT
90259727 TCTAAATAAAACA-TAATAAACA
1 TCTAAATAAAACATTAATAAACA
* *
90259749 TCTAACTAAAATATTAATAAA
1 TCTAAATAAAACATTAATAAA
90259770 ATAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (23 bp):
TCTAAATAAAACATTAATAAACA
Found at i:90264189 original size:14 final size:13
Alignment explanation
Indices: 90264171--90264195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90264161 ATATTCAATA
90264171 AAAAAAATCTTAC
1 AAAAAAATCTTAC
90264184 AAAAAAATCTTA
1 AAAAAAATCTTA
90264196 AATAAGAAAT
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:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAAATCTTAC
Found at i:90264191 original size:29 final size:29
Alignment explanation
Indices: 90264159--90264215 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
90264149 TCAATATATC
*
90264159 AAATATTCAATAAAAAAAATCTTACAAAA
1 AAATATTAAATAAAAAAAATCTTACAAAA
* * * *
90264188 AAATCTTAAATAAGAAATATTTTACAAA
1 AAATATTAAATAAAAAAAATCTTACAAA
90264216 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (29 bp):
AAATATTAAATAAAAAAAATCTTACAAAA
Found at i:90269493 original size:19 final size:19
Alignment explanation
Indices: 90269453--90269495 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
90269443 ATGCCCATAT
*
90269453 TTATTTTATCTAAATAAAA
1 TTATTTTATCTAAAAAAAA
*
90269472 TTATTTT-TTTAAAAAAATA
1 TTATTTTATCTAAAAAAA-A
90269491 TTATT
1 TTATT
90269496 AATAATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTTTATCTAAAAAAAA
Found at i:90270609 original size:16 final size:17
Alignment explanation
Indices: 90270588--90270622 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
90270578 GACATGAAAT
90270588 TAATAAAATAAATA-AA
1 TAATAAAATAAATATAA
*
90270604 TAATAATATAAATATAA
1 TAATAAAATAAATATAA
90270621 TA
1 TA
90270623 GCATTCCCAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATAAAATAAATATAA
Found at i:90272306 original size:6 final size:6
Alignment explanation
Indices: 90272276--90272336 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
90272266 AAAAGAAAGT
* * * * **
90272276 ATAATC ATAAAA ATAATA GTCATA ATAATA ATAATA ATAGA-A ATAACG
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATA-ATA ATAATA
90272324 ATAATA ATAATA A
1 ATAATA ATAATA A
90272337 AGTAAAGAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 1 0.02
6 41 0.95
7 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (6 bp):
ATAATA
Found at i:90272321 original size:21 final size:21
Alignment explanation
Indices: 90272276--90272335 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
90272266 AAAAGAAAGT
* * **
90272276 ATAATCATAAAAATAATAGTC
1 ATAATAATAATAATAATAGAA
90272297 ATAATAATAATAATAATAGAA
1 ATAATAATAATAATAATAGAA
**
90272318 ATAACGATAATAATAATA
1 ATAATAATAATAATAATA
90272336 AAGTAAAGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
ATAATAATAATAATAATAGAA
Found at i:90280562 original size:51 final size:51
Alignment explanation
Indices: 90280486--90280605 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
90280476 AACTAAGTTA
* *
90280486 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
* * *
90280537 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
*
90280588 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
90280606 TAAGTTTGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:90289210 original size:133 final size:131
Alignment explanation
Indices: 90289016--90289388 Score: 355
Period size: 133 Copynumber: 2.8 Consensus size: 131
90289006 AAATATAAGC
* * * * * *
90289016 AAATTTTTATAATAATATATATTTTTCTTCTCATC-AGAGTGTGCTTAAAAAGAATAGAATGTAC
1 AAATTTTTATAATAATATATATTTTACTTCTCATCGA-AGTGTGATTGAAAAG-TTAAAATGTGC
* * *
90289080 TCACTCATTTACCGACAAGGTATACATGACATGACATTTATCTCTGTATGACTCGAAAAA-ATAT
64 TCACTCATTTACCGACAAGGTATACATGACATGACATTTATCTCTGCACGAAT-GAAAAACATAT
* *
90289144 TAGT
128 CAAT
** *
90289148 AGTTTTTTTATAATAATATATATTTTACCTCTCATCGAAGTGTGATTGAAAATGTTAAAATGTGC
1 A-AATTTTTATAATAATATATATTTTACTTCTCATCGAAGTGTGATTGAAAA-GTTAAAATGTGC
* ** * *
90289213 TCACTCATTTATCGGTGAA-GTATACATGATATGACATTTATC-CTTGCACGAATTAAAAACATA
64 TCACTCATTTA-CCGACAAGGTATACATGACATGACATTTATCTC-TGCACGAATGAAAAACATA
90289276 TCAAT
127 TCAAT
* * ** * *
90289281 AAATTTTT-TAATAATAGATATTTTACTTGTCGGCGGAA-TGT-ATCTGAAAAGTTATAATATGC
1 AAATTTTTATAATAATATATATTTTACTTCTCATC-GAAGTGTGAT-TGAAAAGTTAAAATGTGC
* ** *
90289343 TTACTCATTTATTGATAAGGTATACATGACATGACATTTATCTCTG
64 TCACTCATTTACCGACAAGGTATACATGACATGACATTTATCTCTG
90289389 GGTGGCTTGG
Statistics
Matches: 197, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
129 3 0.02
130 46 0.23
131 31 0.16
132 15 0.08
133 96 0.49
134 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (131 bp):
AAATTTTTATAATAATATATATTTTACTTCTCATCGAAGTGTGATTGAAAAGTTAAAATGTGCTC
ACTCATTTACCGACAAGGTATACATGACATGACATTTATCTCTGCACGAATGAAAAACATATCAA
T
Found at i:90291283 original size:18 final size:17
Alignment explanation
Indices: 90291260--90291321 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 17
90291250 AAAAACTATG
90291260 TAAAATTATATAAATAAA
1 TAAAATTATATAAA-AAA
*
90291278 TAAAATGATAATAACAAGAA
1 TAAAATTAT-ATAA-AA-AA
*
90291298 TAAAATGTGTATAAAAAAA
1 TAAAAT-TATAT-AAAAAA
90291317 TAAAA
1 TAAAA
90291322 GTAATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.22
19 12 0.33
20 13 0.36
21 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (17 bp):
TAAAATTATATAAAAAA
Found at i:90291320 original size:19 final size:19
Alignment explanation
Indices: 90291268--90291321 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
90291258 TGTAAAATTA
*
90291268 TATAAATAAATAAAATGAT
1 TATAAAAAAATAAAATGAT
* *
90291287 AATAACAAGAATAAAATG-T
1 TATAA-AAAAATAAAATGAT
90291306 GTATAAAAAAATAAAA
1 -TATAAAAAAATAAAA
90291322 GTAATATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
TATAAAAAAATAAAATGAT
Found at i:90291362 original size:29 final size:27
Alignment explanation
Indices: 90291307--90291362 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
90291297 ATAAAATGTG
*
90291307 TATAAAAAAATAAAAGTAATATTAATA
1 TATAAAAAAATAAAAGTAATATGAATA
90291334 TATAAATATAAATAAAAGT-ATAATGAATA
1 TATAAA-A-AAATAAAAGTAAT-ATGAATA
90291363 GAAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 3 0.12
29 16 0.64
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (27 bp):
TATAAAAAAATAAAAGTAATATGAATA
Found at i:90291511 original size:3 final size:3
Alignment explanation
Indices: 90291505--90291546 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
90291495 CAACAACAAC
*
90291505 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT -AT CAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
90291547 GAAGATAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90291528 original size:15 final size:15
Alignment explanation
Indices: 90291508--90291546 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
90291498 CAACAACAAT
90291508 AATAATAATAATAAC
1 AATAATAATAATAAC
*
90291523 AATAATAATAATATC
1 AATAATAATAATAAC
90291538 AATAATAAT
1 AATAATAAT
90291547 GAAGATAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:90293601 original size:88 final size:88
Alignment explanation
Indices: 90293483--90293788 Score: 474
Period size: 88 Copynumber: 3.5 Consensus size: 88
90293473 TAGTTTTGAT
* *
90293483 CGCTTCAATGCCATTTCAGAGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGG
1 CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGG
*
90293548 AGATACAAATTGTGGCTTTGAGC
66 AGATACAAACTGTGGCTTTGAGC
* * *
90293571 CGCTCCAGTGCCATTTCAGGGAAAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGG
1 CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGG
** *
90293636 AGAT-C-TGCTGT-ACTTTGAGC
66 AGATACAAACTGTGGCTTTGAGC
*
90293656 CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGG
1 CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGG
* *
90293721 AGATACAGACTGTGGCTTCGAGC
66 AGATACAAACTGTGGCTTTGAGC
*
90293744 CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCATCGATCT
1 CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCT
90293789 GTTCCACTAC
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
85 73 0.37
86 4 0.02
87 5 0.03
88 115 0.58
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (88 bp):
CGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGG
AGATACAAACTGTGGCTTTGAGC
Found at i:90294063 original size:86 final size:86
Alignment explanation
Indices: 90293782--90294498 Score: 941
Period size: 86 Copynumber: 8.3 Consensus size: 86
90293772 ATTTGTAGCA
* *
90293782 TCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
*
90293847 GGGGGTTAAGGCCCATCGTCT
66 GGGGGTTAAGGCTCATCGTCT
* * * *
90293868 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCTTGTTACCCTATTACT
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAA--TTCAGCCTGTTACCCTACTGCT
*
90293933 TAGGGGGTTAAGGCCCATCGTCT
64 TAGGGGGTTAAGGCTCATCGTCT
* *
90293956 TCGATCTGCTCCACTACTGCTTAGGGAAACAAGATCTGTAATTTAGCCTGTTACCCTACTGCTTA
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
90294021 GGGGGTTAAGGCTCA-CTGTCT
66 GGGGGTTAAGGCTCATC-GTCT
* * * *
90294042 TCAATCTGCTCCACTATTGCTTAGGGTGACAAGATCTGTAATTCAGCCTATTACCCTACTGCTTA
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
*
90294107 GGGGGTTAAGGCTAATCGTCT
66 GGGGGTTAAGGCTCATCGTCT
* * * * * *
90294128 TCGATCTGCTCTATTACTACTTAAGGAGACAAGATCTGTAATTCGGCTTGTTACCCTACTGCTTA
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
* *
90294193 AGGGGTTAAGGCTCATCGTGT
66 GGGGGTTAAGGCTCATCGTCT
* * * *
90294214 TCGATCTGGTCCGCTACTACTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTATTGCTTA
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
* * *
90294279 GAGGGTTAAGGCTAACCGTCT
66 GGGGGTTAAGGCTCATCGTCT
* * * *
90294300 TCAATCTGCTCTACTACTGCTTAGGGAGACAAGATCTATAATTCGGCCTGTTACCCTACTGCTTA
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
* * **
90294365 GGGGGTTAAGGCCCGTCACCT
66 GGGGGTTAAGGCTCATCGTCT
* * * * * *
90294386 TCGATCTGTTCCCCTACTACTTAGGGTGATAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTT
1 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGT-AATTCAGCCTGTTACCCTACTGCTT
* **
90294451 AGGGGGTTAAGGCCCATCACCT
65 AGGGGGTTAAGGCTCATCGTCT
* * *
90294473 TCGATCTGTTCCCCTACTGTTTAGGG
1 TCGATCTGCTCCACTACTGCTTAGGG
90294499 TGATAAAATT
Statistics
Matches: 552, Mismatches: 74, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
85 1 0.00
86 400 0.72
87 70 0.13
88 81 0.15
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (86 bp):
TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTA
GGGGGTTAAGGCTCATCGTCT
Found at i:90294401 original size:44 final size:44
Alignment explanation
Indices: 90294347--90294498 Score: 155
Period size: 44 Copynumber: 3.5 Consensus size: 44
90294337 ATAATTCGGC
90294347 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCACCTTCGAT
* * * * **** ** *
90294391 CTGTTCCCCTACTACTTAGGGTGATAAGATTTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCACCTTCGA-T
*
90294434 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCACCTTCGAT
* *
90294478 CTGTTCCCCTACTGTTTAGGG
1 CTGTTACCCTACTGCTTAGGG
90294499 TGATAAAATT
Statistics
Matches: 80, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
42 1 0.01
43 29 0.36
44 49 0.61
45 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.32
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCACCTTCGAT
Found at i:90295865 original size:10 final size:10
Alignment explanation
Indices: 90295831--90295865 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
90295821 TGGCCTCTCC
90295831 TTTTTCTTTT
1 TTTTTCTTTT
* *
90295841 CTTTTCTTCT
1 TTTTTCTTTT
90295851 TTTTTCTTTT
1 TTTTTCTTTT
90295861 TTTTT
1 TTTTT
90295866 GAAGGTCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:90296521 original size:31 final size:32
Alignment explanation
Indices: 90296473--90296544 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
90296463 GATATTTTGA
*
90296473 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATAAGATATAATAT
**
90296503 TATTTTATTAA-TATTTTAATAAGATATTTTAT
1 TATTTTATTAATTA-TTTAATAAGATATAATAT
90296535 TATTTTATTA
1 TATTTTATTA
90296545 GTATATAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.25
31 14 0.39
32 13 0.36
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATAAGATATAATAT
Found at i:90298397 original size:46 final size:46
Alignment explanation
Indices: 90298345--90298618 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
90298335 AGTGTGCTCT
* **
90298345 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
90298391 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90298437 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90298483 ATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
90298529 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
90298575 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
90298619 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 214 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:90298925 original size:16 final size:17
Alignment explanation
Indices: 90298904--90298936 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90298894 ATGATGGAGC
90298904 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
90298920 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
90298937 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:90301707 original size:31 final size:32
Alignment explanation
Indices: 90301672--90301757 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 32
90301662 ATGATGTTAG
*
90301672 AGATATTATGA-TATTTTA-TAAT-TATTTAATT
1 AGATATTAT-ATTATTTTATTAATAT-TTTAATA
*
90301703 AGATA-AATATTATTTTATTAATATTTTAATA
1 AGATATTATATTATTTTATTAATATTTTAATA
90301734 AGATATTTTATTATTATTTTATTA
1 AGATA--TTA-TATTATTTTATTA
90301758 GTATATAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 1 0.02
30 9 0.20
31 20 0.44
32 1 0.02
34 1 0.02
35 13 0.29
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (32 bp):
AGATATTATATTATTTTATTAATATTTTAATA
Found at i:90301727 original size:11 final size:11
Alignment explanation
Indices: 90301713--90301757 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
90301703 AGATAAATAT
90301713 TATTTTATTAA
1 TATTTTATTAA
*
90301724 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
90301737 TATTTTATTAT
1 TATTTTATTAA
90301748 TATTTTATTA
1 TATTTTATTA
90301758 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:90303865 original size:16 final size:17
Alignment explanation
Indices: 90303844--90303876 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90303834 ATGATGGAGC
90303844 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
90303860 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
90303877 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:90307649 original size:19 final size:19
Alignment explanation
Indices: 90307625--90307666 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
90307615 AATTCTAATT
90307625 CAAATG-ATGCAATGCAATG
1 CAAATGTATGCAATG-AATG
*
90307644 CAAATGTATGGAATGAATG
1 CAAATGTATGCAATGAATG
90307663 CAAA
1 CAAA
90307667 AGAAAGGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (19 bp):
CAAATGTATGCAATGAATG
Found at i:90309989 original size:18 final size:18
Alignment explanation
Indices: 90309922--90309982 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
90309912 AAAAACTATG
90309922 TAAAA-GTATATAAATAAA
1 TAAAATGTATATAAA-AAA
90309940 TAAAATG-ATAATAACAAGAA
1 TAAAATGTAT-ATAA-AA-AA
90309960 TAAAATGTATATAAAAAA
1 TAAAATGTATATAAAAAA
90309978 TAAAA
1 TAAAA
90309983 GTAATATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
18 14 0.37
19 8 0.21
20 14 0.37
21 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (18 bp):
TAAAATGTATATAAAAAA
Found at i:90310050 original size:27 final size:27
Alignment explanation
Indices: 90309998--90310050 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
90309988 ATTAATACAT
** *
90309998 AAATATAAATAGAAGTATAATGAATAG
1 AAATATAAATAGAAACATAATAAATAG
90310025 AAATAT-AATAGAAACATAAATAAATA
1 AAATATAAATAGAAACAT-AATAAATA
90310051 ATTAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (27 bp):
AAATATAAATAGAAACATAATAAATAG
Found at i:90310135 original size:3 final size:3
Alignment explanation
Indices: 90310109--90310200 Score: 77
Period size: 3 Copynumber: 31.7 Consensus size: 3
90310099 GAATATAAAT
* * * * * *
90310109 ATA ATA CTA ATA GTA ATA AT- ATA ATA ATG ACA ATA GTA ACA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90310154 ATA ATA ATA ATA ATA ATA ATA AT- ATCA ATA ATA AT- ATCA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
90310199 AT
1 AT
90310201 GAAGATAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
2 10 0.14
3 58 0.81
4 4 0.06
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:90312868 original size:20 final size:20
Alignment explanation
Indices: 90312831--90312868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90312821 AGCTTAGAGT
* *
90312831 TTTTTTTTTCAATTAGGCCC
1 TTTTTTTTTAAATCAGGCCC
90312851 TTTTTTTTTAAATCAGGC
1 TTTTTTTTTAAATCAGGC
90312869 TCAATCCAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTTTTTTAAATCAGGCCC
Found at i:90314929 original size:9 final size:9
Alignment explanation
Indices: 90314897--90314959 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
90314887 TATAAAAAAG
90314897 AAAA-TATT
1 AAAATTATT
90314905 AAAATTAATAT
1 AAAATT-AT-T
90314916 AAAATTATT
1 AAAATTATT
90314925 AAAATTA-T
1 AAAATTATT
*
90314933 AAAATTATA
1 AAAATTATT
90314942 AAAACTTA-T
1 AAAA-TTATT
90314951 AAATATTAT
1 AAA-ATTAT
90314960 AAATTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 12 0.26
9 19 0.41
10 8 0.17
11 7 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTATT
Found at i:90314933 original size:17 final size:17
Alignment explanation
Indices: 90314913--90314969 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
90314903 TTAAAATTAA
90314913 TATAAAATTATTAAAAT
1 TATAAAATTATTAAAAT
*
90314930 TATAAAATTATAAAAACT
1 TATAAAATTATTAAAA-T
90314948 TAT-AAA-TATTATAAAT
1 TATAAAATTATTA-AAAT
90314964 TATAAA
1 TATAAA
90314970 TAATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.23
17 23 0.66
18 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TATAAAATTATTAAAAT
Found at i:90314958 original size:27 final size:26
Alignment explanation
Indices: 90314904--90314990 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 26
90314894 AAGAAAATAT
90314904 TAAAATTAATATAAAATTATTAAAATTA
1 TAAAATT-ATA-AAAATTATTAAAATTA
90314932 TAAAATTATAAAAACTTA-TAAATATTA
1 TAAAATTATAAAAA-TTATTAAA-ATTA
* *
90314959 T-AAATTATAAATAATAATAATAAATTA
1 TAAAATTATAAA-AATTATTA-AAATTA
90314986 TAAAA
1 TAAAA
90314991 GGAAATTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
26 20 0.39
27 19 0.37
28 12 0.24
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
TAAAATTATAAAAATTATTAAAATTA
Found at i:90314960 original size:9 final size:8
Alignment explanation
Indices: 90314913--90314969 Score: 71
Period size: 9 Copynumber: 6.8 Consensus size: 8
90314903 TTAAAATTAA
90314913 TATAAAAT
1 TATAAAAT
90314921 TATTAAAAT
1 TA-TAAAAT
90314930 TATAAAAT
1 TATAAAAT
90314938 TATAAAAACT
1 TAT-AAAA-T
90314948 TATAAATAT
1 TATAAA-AT
90314957 TAT-AAAT
1 TATAAAAT
90314964 TATAAA
1 TATAAA
90314970 TAATAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
7 5 0.11
8 15 0.34
9 19 0.43
10 5 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (8 bp):
TATAAAAT
Found at i:90314967 original size:7 final size:7
Alignment explanation
Indices: 90314922--90314989 Score: 50
Period size: 7 Copynumber: 9.1 Consensus size: 7
90314912 ATATAAAATT
90314922 ATTA-AA
1 ATTATAA
90314928 ATTATAAA
1 ATTAT-AA
90314936 ATTATAAAA
1 ATTAT--AA
90314945 ACTTATAAA
1 A-TTAT-AA
90314954 TATTATAA
1 -ATTATAA
90314962 ATTATAA
1 ATTATAA
*
90314969 ATAAT-A
1 ATTATAA
*
90314975 ATAATAA
1 ATTATAA
90314982 ATTATAA
1 ATTATAA
90314989 A
1 A
90314990 AGGAAATTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
6 10 0.19
7 19 0.35
8 9 0.17
9 11 0.20
10 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (7 bp):
ATTATAA
Found at i:90314988 original size:10 final size:9
Alignment explanation
Indices: 90314870--90314990 Score: 85
Period size: 10 Copynumber: 13.4 Consensus size: 9
90314860 AAATGGTTAA
*
90314870 AAAAATCAT
1 AAAAATTAT
90314879 AAAAATTAT
1 AAAAATTAT
90314888 ATAAAA--A-
1 A-AAAATTAT
90314895 AGAAAA-TAT
1 A-AAAATTAT
*
90314904 TAAAATTAAT
1 AAAAATT-AT
90314914 ATAAAATTAT
1 A-AAAATTAT
*
90314924 TAAAATTAT
1 AAAAATTAT
90314933 -AAAATTAT
1 AAAAATTAT
90314941 AAAAACTTAT
1 AAAAA-TTAT
*
90314951 AAATATTAT
1 AAAAATTAT
90314960 --AAATTAT
1 AAAAATTAT
*
90314967 AAATAATAAT
1 AAA-AATTAT
90314977 AATAAATTAT
1 AA-AAATTAT
90314987 AAAA
1 AAAA
90314991 GGAAATTTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 24
0.73 0.07 0.19
Matches are distributed among these distances:
7 11 0.12
8 14 0.15
9 29 0.32
10 30 0.33
11 7 0.08
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:90315738 original size:29 final size:29
Alignment explanation
Indices: 90315706--90315782 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
90315696 TTTTATGATT
* *
90315706 TTTTTATAATTTTTGTAATTTT-ATATAAA
1 TTTTAATAATTTTTATAATTTTCATA-AAA
* *
90315735 TTTTAATACTTTTTATGATTTTCATAAAA
1 TTTTAATAATTTTTATAATTTTCATAAAA
* *
90315764 TTATAATATGTTTTTATAA
1 TTTTAATA-ATTTTTATAA
90315783 AAATTTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 28 0.72
30 11 0.28
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTTAATAATTTTTATAATTTTCATAAAA
Found at i:90315785 original size:22 final size:22
Alignment explanation
Indices: 90315752--90315802 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
90315742 ACTTTTTATG
90315752 ATTTTCAT-AAAATTATAATATGT
1 ATTTT-ATAAAAATTATAA-ATGT
*
90315775 -TTTTATAAAAATTTTAAATGT
1 ATTTTATAAAAATTATAAATGT
90315796 ATTTTAT
1 ATTTTAT
90315803 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTTATAAAAATTATAAATGT
Found at i:90322315 original size:7 final size:7
Alignment explanation
Indices: 90322303--90322355 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
90322293 GCTTCCACGT
90322303 GAACTTG
1 GAACTTG
90322310 GAACTTG
1 GAACTTG
*
90322317 GAAGTTG
1 GAACTTG
*
90322324 GAAGTTG
1 GAACTTG
90322331 GAACTTG
1 GAACTTG
90322338 GAACTTG
1 GAACTTG
90322345 GAACTTG
1 GAACTTG
90322352 GAAC
1 GAAC
90322356 CAGCTTTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.26
Consensus pattern (7 bp):
GAACTTG
Found at i:90324128 original size:70 final size:70
Alignment explanation
Indices: 90324015--90324155 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
90324005 AAAGGTTAAG
*
90324015 GCTTTAGATTTATGTAAGTTATGTGTGAATGTGTTAGTTTGAGTTTGTTGATATAAAGAAGTGGC
1 GCTTTAGATTTATGTAAGCTATGTGTGAATGTGTTAGTTTGAGTTTGTTGATATAAAGAAGTGGC
90324080 TTAGA
66 TTAGA
90324085 GCTTTAGATTTATGTAAGCTATGTGTGAATGTGTTAGTTTGAGTTTGTTGATATAAAGAAGTGGC
1 GCTTTAGATTTATGTAAGCTATGTGTGAATGTGTTAGTTTGAGTTTGTTGATATAAAGAAGTGGC
90324150 TTAGA
66 TTAGA
90324155 G
1 G
90324156 GCTACGGATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.42
Consensus pattern (70 bp):
GCTTTAGATTTATGTAAGCTATGTGTGAATGTGTTAGTTTGAGTTTGTTGATATAAAGAAGTGGC
TTAGA
Found at i:90334832 original size:24 final size:24
Alignment explanation
Indices: 90334800--90334848 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
90334790 CATCATCTTT
90334800 TATATATATACTTTTACTTGAACA
1 TATATATATACTTTTACTTGAACA
90334824 TATATATATACTTTTACTTGAACA
1 TATATATATACTTTTACTTGAACA
90334848 T
1 T
90334849 TTCACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (24 bp):
TATATATATACTTTTACTTGAACA
Found at i:90356203 original size:10 final size:10
Alignment explanation
Indices: 90356176--90356223 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
90356166 TTAAATTCTA
*
90356176 AAAGATAAAT
1 AAAGATAATT
90356186 ACAA-ATAATT
1 A-AAGATAATT
*
90356196 AAATATAATT
1 AAAGATAATT
*
90356206 AAAGATAATA
1 AAAGATAATT
90356216 AAAGATAA
1 AAAGATAA
90356224 ATGAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAATT
Found at i:90356233 original size:20 final size:19
Alignment explanation
Indices: 90356174--90356233 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
90356164 AATTAAATTC
90356174 TAAAAGATAAATACAAATAA
1 TAAAAGATAAATA-AAATAA
* * *
90356194 TTAAATATAATTAAAGATAA
1 TAAAAGATAAATAAA-ATAA
90356214 TAAAAGATAAATGAAAATAA
1 TAAAAGATAAAT-AAAATAA
90356234 ATCCTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (19 bp):
TAAAAGATAAATAAAATAA
Found at i:90356832 original size:11 final size:11
Alignment explanation
Indices: 90356818--90356856 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
90356808 TTTTTTTTCT
90356818 TTTTTAATTAA
1 TTTTTAATTAA
90356829 TTTTTAATTAA
1 TTTTTAATTAA
* *
90356840 TTAATTAATTTA
1 TT-TTTAATTAA
90356852 TTTTT
1 TTTTT
90356857 GCTTAGGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAATTAA
Found at i:90358101 original size:20 final size:18
Alignment explanation
Indices: 90358076--90358144 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 18
90358066 TCACCCAAAC
90358076 AAAATAAAGTAATAAATAA
1 AAAATAAA-TAATAAATAA
90358095 TAAAATAAAATAATAAATAA
1 -AAAAT-AAATAATAAATAA
*
90358115 ATAATAAA-AATAAAT-A
1 AAAATAAATAATAAATAA
90358131 AAAATAAA-AATAAA
1 AAAATAAATAATAAA
90358145 AATTGGGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
16 14 0.30
17 7 0.15
18 3 0.07
19 4 0.09
20 15 0.33
21 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (18 bp):
AAAATAAATAATAAATAA
Found at i:90358107 original size:13 final size:13
Alignment explanation
Indices: 90358089--90358139 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 13
90358079 ATAAAGTAAT
90358089 AAATAATAAAATA
1 AAATAATAAAATA
90358102 AAATAAT-AAAT-
1 AAATAATAAAATA
90358113 AAATAATAAAA-A
1 AAATAATAAAATA
90358125 TAAAT-A-AAAATA
1 -AAATAATAAAATA
90358137 AAA
1 AAA
90358140 ATAAAAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 14 0.41
12 9 0.26
13 11 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:90358113 original size:17 final size:17
Alignment explanation
Indices: 90358089--90358144 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
90358079 ATAAAGTAAT
90358089 AAAT-AATAAAATAAAA
1 AAATAAATAAAATAAAA
*
90358105 TAATAAAT-AAATAATAA
1 AAATAAATAAAATAA-AA
*
90358122 AAATAAATAAAA-ATAA
1 AAATAAATAAAATAAAA
90358138 AAATAAA
1 AAATAAA
90358145 AATTGGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 18 0.53
17 13 0.38
18 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAATAAAATAAAA
Found at i:90358116 original size:16 final size:16
Alignment explanation
Indices: 90358077--90358144 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
90358067 CACCCAAACA
*
90358077 AAATAAAGTAATAAAT
1 AAATAAAATAATAAAT
*
90358093 -AATAAAATAAAATAAT
1 AAATAAAATAATA-AAT
90358109 AAAT-AAATAATAAAAAT
1 AAATAAAATAAT--AAAT
90358126 AAATAAAAATAA-AAAT
1 AAAT-AAAATAATAAAT
90358142 AAA
1 AAA
90358145 AATTGGGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 10 0.23
16 16 0.37
17 10 0.23
18 1 0.02
19 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (16 bp):
AAATAAAATAATAAAT
Found at i:90358116 original size:24 final size:23
Alignment explanation
Indices: 90358077--90358147 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 23
90358067 CACCCAAACA
90358077 AAATAAAGTAATAAATAAT-AAAAT
1 AAATAAA--AATAAATAATAAAAAT
90358101 AAAATAATAAATAAATAATAAAAAT
1 -AAATAA-AAATAAATAATAAAAAT
90358126 AAATAAAAATAAA-AATAAAAAT
1 AAATAAAAATAAATAATAAAAAT
90358148 TGGGTTGCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.20
23 7 0.16
24 16 0.36
25 11 0.25
26 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (23 bp):
AAATAAAAATAAATAATAAAAAT
Found at i:90358143 original size:12 final size:12
Alignment explanation
Indices: 90358076--90358147 Score: 71
Period size: 12 Copynumber: 5.9 Consensus size: 12
90358066 TCACCCAAAC
90358076 AAAATAAAGTAATA
1 AAAATAAA--AATA
90358090 AATAAT-AAAAT-
1 AA-AATAAAAATA
90358101 AAAATAATAAATA
1 AAAATAA-AAATA
90358114 AATAATAAAAAT-
1 AA-AATAAAAATA
90358126 -AAATAAAAATA
1 AAAATAAAAATA
90358137 AAAATAAAAAT
1 AAAATAAAAAT
90358148 TGGGTTGCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
10 12 0.24
11 4 0.08
12 17 0.33
13 6 0.12
14 9 0.18
15 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:90361671 original size:5 final size:5
Alignment explanation
Indices: 90361661--90361692 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
90361651 TTCAAATTGC
90361661 TATTT TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TA
90361693 CATCTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:90362258 original size:131 final size:131
Alignment explanation
Indices: 90362024--90362373 Score: 567
Period size: 131 Copynumber: 2.7 Consensus size: 131
90362014 TAATTATTCA
* * *
90362024 TTTAAAAATTCTTAAAAACGAAGGAAATGTTCGATGTTTGGCAATTCAGGAAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * *
90362089 GTGCTAGGTTGCGATTTCCCGTTCATTCAAAACAATCGATTATTCCTTTGGGATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCTCGTTCATTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
90362154 C
131 C
*
90362155 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTTGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
90362220 GTGCTGGGTTGCGATTTCTCGTTCGTTCAAAACAATCGAATATTCCTTTGGAATTTCAGTCATGT
66 GTGCTGGGTTGCGATTTCTCGTTCATTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
90362285 C
131 C
*
90362286 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTA-C
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
90362350 TGTGCTGGGTTTCGATTTTTCGTT
66 -GTGCTGGGTTGCGATTTCTCGTT
90362374 AGACTAAACA
Statistics
Matches: 204, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
130 1 0.00
131 203 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCTCGTTCATTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
C
Found at i:90363368 original size:28 final size:29
Alignment explanation
Indices: 90363327--90363386 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
90363317 ATTGGGGAGT
*
90363327 CATGTTGACCAACGGTCCTCCACTAGCGG
1 CATGTTGACCAACGGTCCTCCACTAGCAG
*
90363356 CATG-TGACCAACGGTTCTCCACTAGCAG
1 CATGTTGACCAACGGTCCTCCACTAGCAG
90363384 CAT
1 CAT
90363387 CTACCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (29 bp):
CATGTTGACCAACGGTCCTCCACTAGCAG
Found at i:90366691 original size:14 final size:13
Alignment explanation
Indices: 90366655--90366691 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
90366645 AAAATTAAAT
90366655 CTAAATAATTATC
1 CTAAATAATTATC
*
90366668 CTTAATAATTATC
1 CTAAATAATTATC
90366681 CTAATATAATT
1 CTAA-ATAATT
90366692 GGAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:90371794 original size:16 final size:17
Alignment explanation
Indices: 90371771--90371813 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
90371761 TCTATAATGC
*
90371771 ATTATAAATTATATAAT
1 ATTATAAATAATATAAT
90371788 A-TATAAAGATAATATAAT
1 ATTAT-AA-ATAATATAAT
90371806 ATTATAAA
1 ATTATAAA
90371814 CTAGAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.14
17 4 0.18
18 12 0.55
19 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTATAAATAATATAAT
Found at i:90372477 original size:14 final size:14
Alignment explanation
Indices: 90372458--90372485 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90372448 ATTGGACTAC
90372458 TTAATTATTATAAT
1 TTAATTATTATAAT
90372472 TTAATTATTATAAT
1 TTAATTATTATAAT
90372486 ATTGAATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTATTATAAT
Found at i:90374421 original size:19 final size:19
Alignment explanation
Indices: 90374397--90374458 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
90374387 TTTGGTTCAG
90374397 ACTTTCAATTGGTTGCTTT
1 ACTTTCAATTGGTTGCTTT
* *
90374416 ACTTTCAA-TGGCTTTGGTTGAC
1 ACTTTCAATTGG--TTGCTT--T
90374438 ACTTTCAATTGGTTGCTTT
1 ACTTTCAATTGGTTGCTTT
90374457 AC
1 AC
90374459 ATTTAAGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.09
19 10 0.29
20 5 0.15
21 5 0.15
22 8 0.24
23 3 0.09
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (19 bp):
ACTTTCAATTGGTTGCTTT
Found at i:90374442 original size:41 final size:41
Alignment explanation
Indices: 90374381--90374458 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
90374371 AGGCAATTCT
*
90374381 AATGGCTTTGGTTCAGACTTTCAATTGGTTGCTTTACTTTC
1 AATGGCTTTGGTTCACACTTTCAATTGGTTGCTTTACTTTC
*
90374422 AATGGCTTTGGTTGACACTTTCAATTGGTTGCTTTAC
1 AATGGCTTTGGTTCACACTTTCAATTGGTTGCTTTAC
90374459 ATTTAAGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.45
Consensus pattern (41 bp):
AATGGCTTTGGTTCACACTTTCAATTGGTTGCTTTACTTTC
Found at i:90377218 original size:72 final size:72
Alignment explanation
Indices: 90377043--90377219 Score: 203
Period size: 72 Copynumber: 2.4 Consensus size: 72
90377033 NNNNNNAAAG
* *
90377043 ACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
* *
90377108 TTTTTTTTTAAA
63 --TATTTTGAAA
* * ** *
90377120 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATAAGTTGA-A
1 ACAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATA
90377184 TTTTGAAA
65 TTTTGAAA
*
90377192 ACAGAAATTGAAATTACCTCAGCGTGTC
1 ACAGAAATTGAAAATACCTCAGCGTGTC
90377220 ATCTAAGTCC
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
72 33 0.38
74 1 0.01
75 32 0.36
77 22 0.25
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (72 bp):
ACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATAT
TTTGAAA
Found at i:90379868 original size:32 final size:32
Alignment explanation
Indices: 90379832--90379896 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
90379822 TGTATGCATT
90379832 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
90379864 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
90379896 T
1 T
90379897 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:90383703 original size:124 final size:124
Alignment explanation
Indices: 90383546--90383813 Score: 527
Period size: 124 Copynumber: 2.2 Consensus size: 124
90383536 CTCTAATACA
90383546 ATTTGTGGCGTTTATTATAGAAACCCCGCTAAAGCCCCTAATATTCAGAGGAAACGCTGCCGTTT
1 ATTTGTGGCGTTTATTATAGAAACCCCGCTAAAGCCCCTAATATTCAGAGGAAACGCTGCCGTTT
90383611 TACTCTAATGTATAATTAAATTTTGTGGCGTTTTTTGGAAAATGCCACTATTGCCTATC
66 TACTCTAATGTATAATTAAATTTTGTGGCGTTTTTTGGAAAATGCCACTATTGCCTATC
90383670 ATTTGTGGCGTTTATTATAGAAACCCCGCTAAAGCCCCTAATATTCAGAGGAAACGCTGCCGTTT
1 ATTTGTGGCGTTTATTATAGAAACCCCGCTAAAGCCCCTAATATTCAGAGGAAACGCTGCCGTTT
90383735 TACTCTAATGTATAATTAAATTTTGTGGCGTTTTTTGGAAAATGCCACTATTGCCTATC
66 TACTCTAATGTATAATTAAATTTTGTGGCGTTTTTTGGAAAATGCCACTATTGCCTATC
90383794 ATTTGTGGCGTTTATGTATA
1 ATTTGTGGCGTTTAT-TATA
90383814 AACGCCGCTA
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 139 0.97
125 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (124 bp):
ATTTGTGGCGTTTATTATAGAAACCCCGCTAAAGCCCCTAATATTCAGAGGAAACGCTGCCGTTT
TACTCTAATGTATAATTAAATTTTGTGGCGTTTTTTGGAAAATGCCACTATTGCCTATC
Found at i:90384351 original size:15 final size:15
Alignment explanation
Indices: 90384328--90384359 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
90384318 AAATAATAAT
90384328 TTATATATATTTATC
1 TTATATATATTTATC
*
90384343 TTATTTATATTTATC
1 TTATATATATTTATC
90384358 TT
1 TT
90384360 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:90385381 original size:16 final size:16
Alignment explanation
Indices: 90385360--90385438 Score: 74
Period size: 16 Copynumber: 5.1 Consensus size: 16
90385350 ACCGCCGCTA
90385360 ATGATAAAATTAATTT
1 ATGATAAAATTAATTT
90385376 ATGATAAAATTAATTT
1 ATGATAAAATTAATTT
* * **
90385392 -TAAAAAAAGGAAATTT
1 ATGATAAAA-TTAATTT
*
90385408 A--AAAAAATTAATTT
1 ATGATAAAATTAATTT
*
90385422 ATGATAAAATTGATTT
1 ATGATAAAATTAATTT
90385438 A
1 A
90385439 ACAATCTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.12
15 12 0.24
16 33 0.65
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (16 bp):
ATGATAAAATTAATTT
Found at i:90389934 original size:26 final size:26
Alignment explanation
Indices: 90389905--90389961 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
90389895 ATGGTACAAA
90389905 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
*
90389931 ATGATAATGGTTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
90389957 ATGAT
1 ATGAT
90389962 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
ATGATAATGGGTTAGGTAAATGTTCC
Found at i:90402421 original size:13 final size:13
Alignment explanation
Indices: 90402403--90402429 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90402393 ACACTCTTTT
90402403 TTTTGTGTGTCCC
1 TTTTGTGTGTCCC
90402416 TTTTGTGTGTCCC
1 TTTTGTGTGTCCC
90402429 T
1 T
90402430 AAGTAATAGT
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:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (13 bp):
TTTTGTGTGTCCC
Found at i:90407184 original size:77 final size:75
Alignment explanation
Indices: 90406955--90407210 Score: 245
Period size: 75 Copynumber: 3.4 Consensus size: 75
90406945 TTCTGTTTTT
* ** *
90406955 AAAAATCAACTCATATTGCGAAAGATGAGTTAAGCCTCAAG-ACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTAAGCCT-TGGCACACGCTGAGGTATTTTCAATTT
*
90407019 CTG-TCTTTCAA
65 CTGTTC-ATCAA
* * * * * **
90407030 AAAAACCAACTCATATTGAGAGAAATGAGTTGAGCCTCAGG-ACATACTGAGGTAATTTT-AATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTAAGCCT-TGGCACACGCTGAGGT-ATTTTCAATT
* *
90407093 TTTGTTCATAAA
64 TCTGTTCATCAA
* * *
90407105 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACACGCTGAGATTTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTTGG--CACACGCTGAGGTATTTTCAATT
*
90407170 TCTGTTCGTC--
64 TCTGTTCATCAA
*
90407180 AAAAATCAACTCATATTGCGAGAGGTGAGTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTT
90407211 GACTCTCAGG
Statistics
Matches: 150, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
74 2 0.01
75 117 0.78
76 11 0.07
77 20 0.13
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTTGGCACACGCTGAGGTATTTTCAATTTC
TGTTCATCAA
Found at i:90409132 original size:22 final size:22
Alignment explanation
Indices: 90409107--90409151 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
90409097 TTAATTTTAA
*
90409107 TATTATTCATACTATTATATTT
1 TATTACTCATACTATTATATTT
** *
90409129 TATTACTGTTATTATTATATTT
1 TATTACTCATACTATTATATTT
90409151 T
1 T
90409152 TATTTATTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTACTCATACTATTATATTT
Found at i:90409333 original size:11 final size:12
Alignment explanation
Indices: 90409314--90409411 Score: 59
Period size: 11 Copynumber: 8.7 Consensus size: 12
90409304 CATATTACGC
90409314 ATATATATATTA
1 ATATATATATTA
90409326 ATAT-TATATT-
1 ATATATATATTA
*
90409336 ATGTATATTATT-
1 ATATATA-TATTA
* * *
90409348 TTTTAAATATT-
1 ATATATATATTA
*
90409359 ATATATATATTT
1 ATATATATATTA
90409371 ATATAT-TATGT-
1 ATATATATAT-TA
*
90409382 ATATAT-TTTTA
1 ATATATATATTA
*
90409393 ATATATA-ATGA
1 ATATATATATTA
90409404 ATATATAT
1 ATATATAT
90409412 TATGTACATA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
10 4 0.06
11 46 0.67
12 19 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
ATATATATATTA
Found at i:90409369 original size:39 final size:38
Alignment explanation
Indices: 90409314--90409482 Score: 100
Period size: 35 Copynumber: 4.2 Consensus size: 38
90409304 CATATTACGC
90409314 ATATA-TATAT-TAATATTATATTATGTATATTATTTTTTA
1 ATATATTATATAT-ATATTATATTATGTATA-TA-TTTTTA
90409353 A-ATATTATATATATATTTATATATTATGTATATATTTTTA
1 ATATATTATATATATA--T-TATATTATGTATATATTTTTA
* * *
90409393 ATATA-TA-ATGA-ATA-TATATTATGTACATACTCTTA
1 ATATATTATAT-ATATATTATATTATGTATATATTTTTA
* *
90409428 ATATTATTATGTATTTATTTTTAATATATATGTATATATTTATGTA
1 ATA-TATTA--TATATA-TATT-ATAT-TATGTATATATTT-T-TA
90409474 ATATTATTA
1 ATA-TATTA
90409483 ATAGTTTTTT
Statistics
Matches: 103, Mismatches: 8, Indels: 31
0.73 0.06 0.22
Matches are distributed among these distances:
35 21 0.20
36 2 0.02
37 2 0.02
38 3 0.03
39 14 0.14
40 14 0.14
41 7 0.07
42 14 0.14
43 4 0.04
44 10 0.10
45 1 0.01
46 11 0.11
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
ATATATTATATATATATTATATTATGTATATATTTTTA
Found at i:90409371 original size:19 final size:19
Alignment explanation
Indices: 90409349--90409389 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
90409339 TATATTATTT
90409349 TTTAAATATTATATATATA
1 TTTAAATATTATATATATA
* *
90409368 TTTATATATTATGTATATA
1 TTTAAATATTATATATATA
90409387 TTT
1 TTT
90409390 TTAATATATA
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:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTAAATATTATATATATA
Found at i:90409407 original size:22 final size:21
Alignment explanation
Indices: 90409361--90409412 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
90409351 TAAATATTAT
* *
90409361 ATATATATTTATATATTATGT
1 ATATATATTTATATATAATGA
*
90409382 ATATATTTTTAATATATAATGA
1 ATATATATTT-ATATATAATGA
90409404 ATATATATT
1 ATATATATT
90409413 ATGTACATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
ATATATATTTATATATAATGA
Found at i:90409408 original size:45 final size:44
Alignment explanation
Indices: 90409314--90409414 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 44
90409304 CATATTACGC
90409314 ATATATATATTAATATTATATTATGTATATTATTTTTTAAATATT
1 ATATATATATT-ATATTATATTATGTATATTATTTTTTAAATATT
*
90409359 ATATATATATT-TA-TATATTATGTATA-TA-TTTTTAATATATA
1 ATATATATATTATATTATATTATGTATATTATTTTTTAA-ATATT
90409400 ATGAATATATATTAT
1 AT--ATATATATTAT
90409415 GTACATACTC
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
40 7 0.14
41 8 0.16
42 13 0.25
43 11 0.22
44 1 0.02
45 11 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (44 bp):
ATATATATATTATATTATATTATGTATATTATTTTTTAAATATT
Found at i:90409461 original size:21 final size:23
Alignment explanation
Indices: 90409406--90409482 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
90409396 TATAATGAAT
* * *
90409406 ATATATTATGTACATA-CTCTTA
1 ATATATTATGTATATATTTATTA
*
90409428 ATATTATTATGTATTTATTT-TTA
1 ATA-TATTATGTATATATTTATTA
90409451 ATATA-TATGTATATATTTATGTA
1 ATATATTATGTATATATTTAT-TA
90409474 ATATTATTA
1 ATA-TATTA
90409483 ATAGTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
21 12 0.27
22 6 0.13
23 22 0.49
24 3 0.07
25 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (23 bp):
ATATATTATGTATATATTTATTA
Found at i:90409467 original size:25 final size:23
Alignment explanation
Indices: 90409425--90409505 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 23
90409415 GTACATACTC
*
90409425 TTAATATTATTATGTATTTATTT
1 TTAATATTATTATATATTTATTT
90409448 TTAATATATATGTATATATTTA--T
1 TTAATAT-TAT-TATATATTTATTT
*
90409471 GTAATATTATTA-ATAGTTT-TTT
1 TTAATATTATTATATA-TTTATTT
*
90409493 TTAACATTATTAT
1 TTAATATTATTAT
90409506 CATTTCTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.06
21 5 0.10
22 14 0.29
23 14 0.29
24 3 0.06
25 9 0.19
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (23 bp):
TTAATATTATTATATATTTATTT
Found at i:90409543 original size:23 final size:23
Alignment explanation
Indices: 90409515--90409566 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
90409505 TCATTTCTCA
* *
90409515 TATATATGTGTATCGTATATGTTTT
1 TATATAT-AGTAT-GTATATATTTT
*
90409540 TATATATATTATGTATATATTTT
1 TATATATAGTATGTATATATTTT
90409563 TATA
1 TATA
90409567 ATATCCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.58
24 3 0.12
25 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (23 bp):
TATATATAGTATGTATATATTTT
Found at i:90409543 original size:25 final size:23
Alignment explanation
Indices: 90409515--90409765 Score: 100
Period size: 24 Copynumber: 10.9 Consensus size: 23
90409505 TCATTTCTCA
* *
90409515 TATATATGTGTATCGTATATGTTTT
1 TATATATAT-TAT-GTATATATTTT
90409540 TATATATATTATGTATATATTTT
1 TATATATATTATGTATATATTTT
* *
90409563 TATAATATCCTTAT-TAT-TATTAT
1 TAT-ATAT-ATTATGTATATATTTT
* * *
90409586 TAT-TATTATTA-GTATGTGTGTT
1 TATATA-TATTATGTATATATTTT
*
90409608 T-TAT-TA-TATGTATATATCTT
1 TATATATATTATGTATATATTTT
90409628 TA-ATATA-TATGTATATA--TT
1 TATATATATTATGTATATATTTT
*
90409647 TATGAAATATTAT-TA-ATAGTTGTT
1 TAT-ATATATTATGTATATA-TT-TT
* * *
90409671 TTTTTAACATTAT-TAT-TATTTCT
1 TATAT-ATATTATGTATATATTT-T
* *
90409694 AATATGTATATACTATGTAAATATTTT
1 --TA--TATATATTATGTATATATTTT
* *
90409721 AATACTATATTATGTATACATTTT
1 TATA-TATATTATGTATATATTTT
*
90409745 TGATATATATTACGTATATAT
1 T-ATATATATTATGTATATAT
90409766 ATATTTTTAA
Statistics
Matches: 171, Mismatches: 28, Indels: 55
0.67 0.11 0.22
Matches are distributed among these distances:
19 6 0.04
20 16 0.09
21 27 0.16
22 10 0.06
23 26 0.15
24 54 0.32
25 17 0.10
26 5 0.03
27 5 0.03
28 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:90409791 original size:37 final size:39
Alignment explanation
Indices: 90409750--90409829 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 39
90409740 ATTTTTGATA
* * *
90409750 TATATTACG-TATATATATATTTTTAATATTGTATT-TT
1 TATATTACGTTATATATATATCTTTAATACTATATTATT
* *
90409787 TATA-TATGTTATGTATATATCTTTAATACTATATTATT
1 TATATTACGTTATATATATATCTTTAATACTATATTATT
90409825 TATAT
1 TATAT
90409830 ATTTTCTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 3 0.09
37 26 0.74
38 6 0.17
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (39 bp):
TATATTACGTTATATATATATCTTTAATACTATATTATT
Found at i:90410008 original size:22 final size:22
Alignment explanation
Indices: 90409978--90410036 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
90409968 TGTATACATT
*
90409978 TTTTAAATACTATATTATATATA
1 TTTT-AATACTATATTATATACA
** *
90410001 TTTTAATACCGTATTATGTACA
1 TTTTAATACTATATTATATACA
* *
90410023 TTTTATTATTATAT
1 TTTTAATACTATAT
90410037 CTATTTTTAC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTTAATACTATATTATATACA
Found at i:90410077 original size:21 final size:22
Alignment explanation
Indices: 90410053--90410173 Score: 73
Period size: 21 Copynumber: 5.7 Consensus size: 22
90410043 TTACCCCTAT
90410053 TATAT-TTATTATTAATATTAG
1 TATATATTATTATTAATATTAG
*
90410074 TATATATT-TTATT-ATACGT-G
1 TATATATTATTATTAATA-TTAG
*
90410094 TATATA-TATATACTT--TTTGTA-
1 TATATATTAT-TA-TTAATAT-TAG
* * *
90410115 TATAGTATTATTGTTATATATCAT
1 TATA-TATTATTATTA-ATATTAG
90410139 TATAT-TTATTATTAATATTAG
1 TATATATTATTATTAATATTAG
90410160 TATATATT-TTATTA
1 TATATATTATTATTA
90410174 TACGTGTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 28
0.68 0.08 0.25
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
21 37 0.48
22 17 0.22
23 5 0.06
24 6 0.08
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (22 bp):
TATATATTATTATTAATATTAG
Found at i:90410086 original size:28 final size:27
Alignment explanation
Indices: 90410050--90410172 Score: 81
Period size: 28 Copynumber: 4.3 Consensus size: 27
90410040 TTTTTACCCC
*
90410050 TATTATATTTATTATTAATATTAGTATA
1 TATTTTATTTATTATTAATATTA-TATA
90410078 TATTTTA-TTA-TACGTGT-ATATATATATA
1 TATTTTATTTATTA--T-TAATAT-TATATA
* * * * *
90410106 CTTTTTGTATATAGTATTATTGTTATATA
1 -TATTT-TATTTATTATTAATATTATATA
*
90410135 TCATTATATTTATTATTAATATTAGTATA
1 T-ATTTTATTTATTATTAATATTA-TATA
90410164 TATTTTATT
1 TATTTTATT
90410173 ATACGTGTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
26 2 0.03
27 3 0.04
28 37 0.51
29 21 0.29
30 5 0.07
31 2 0.03
32 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (27 bp):
TATTTTATTTATTATTAATATTATATA
Found at i:90410116 original size:39 final size:39
Alignment explanation
Indices: 90410073--90410204 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 39
90410063 ATTAATATTA
90410073 GTATATATTTTATTATACGTGTATATATATATACTTTTT
1 GTATATATTTTATTATACGTGTATATATATATACTTTTT
* * * * * *
90410112 GTATATAGTATTATTGTTATATATCAT-TATATTTATTATTAATATTA
1 G--TATA-TATT-TT-AT-TATA-CGTGTATATATA-TA-TACTTTTT
90410159 GTATATATTTTATTATACGTGTATATATATATACTTTTT
1 GTATATATTTTATTATACGTGTATATATATATACTTTTT
90410198 GTATATA
1 GTATATA
90410205 GTATTATTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
39 13 0.18
40 4 0.06
41 15 0.21
42 5 0.07
43 4 0.06
44 5 0.07
45 15 0.21
46 4 0.06
47 6 0.08
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (39 bp):
GTATATATTTTATTATACGTGTATATATATATACTTTTT
Found at i:90410132 original size:43 final size:43
Alignment explanation
Indices: 90410085--90410218 Score: 143
Period size: 43 Copynumber: 3.1 Consensus size: 43
90410075 ATATATTTTA
90410085 TTATACGTGTATATATATATACTTTTTGTATATAGTATTATTG
1 TTATACGTGTATATATATATACTTTTTGTATATAGTATTATTG
* * * * *
90410128 TTATA--TATCAT-TATATTTA-TTATT-AATATTAGTATATATTTTA
1 TTATACGTGT-ATATATATATACTTTTTGTATA-TAGTAT-TA--TTG
90410171 TTATACGTGTATATATATATACTTTTTGTATATAGTATTATTG
1 TTATACGTGTATATATATATACTTTTTGTATATAGTATTATTG
90410214 TTATA
1 TTATA
90410219 TATCATTATA
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
39 3 0.04
40 10 0.14
41 11 0.15
42 2 0.03
43 19 0.27
44 2 0.03
45 11 0.15
46 10 0.14
47 3 0.04
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (43 bp):
TTATACGTGTATATATATATACTTTTTGTATATAGTATTATTG
Found at i:90410135 original size:37 final size:37
Alignment explanation
Indices: 90410094--90410221 Score: 98
Period size: 37 Copynumber: 3.1 Consensus size: 37
90410084 ATTATACGTG
90410094 TATATATATATACTTTTTGTATATAGTATTATTGTTA
1 TATATATATATACTTTTTGTATATAGTATTATTGTTA
* *
90410131 TATATCAT-TATA-TTTATTATTAATATTAGTATATATTTTATTATA
1 TATAT-ATATATACTTT-TT-GT-ATA-TAGTAT-TA--TT-GT-TA
90410176 CGTGTATATATATATACTTTTTGTATATAGTATTATTGTTA
1 ----TATATATATATACTTTTTGTATATAGTATTATTGTTA
90410217 TATAT
1 TATAT
90410222 CATTATATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
36 3 0.04
37 16 0.23
38 3 0.04
39 3 0.04
40 6 0.08
41 4 0.06
42 1 0.01
43 4 0.06
44 1 0.01
45 4 0.06
46 6 0.08
47 3 0.04
48 3 0.04
49 11 0.15
50 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (37 bp):
TATATATATATACTTTTTGTATATAGTATTATTGTTA
Found at i:90410144 original size:18 final size:17
Alignment explanation
Indices: 90410094--90410230 Score: 54
Period size: 18 Copynumber: 7.9 Consensus size: 17
90410084 ATTATACGTG
*
90410094 TATATATA-TATACTTTT
1 TATATATATTATA-TTGT
* *
90410111 TGTATATAGTATTATTGT
1 TATATATATTA-TATTGT
90410129 TATATATCATTATA-T-T
1 TATATAT-ATTATATTGT
*
90410145 TAT-TAT-TAATATTAG-
1 TATATATATTATATT-GT
* *
90410160 TATATATTTTATTATACGT
1 TATATATATTA-TAT-TGT
*
90410179 GTATATATA-TATACTTTT
1 -TATATATATTATA-TTGT
* *
90410197 TGTATATAGTATTATTGT
1 TATATATATTA-TATTGT
90410215 TATATATCATTATATT
1 TATATAT-ATTATATT
90410231 TATTATTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 31
0.67 0.10 0.23
Matches are distributed among these distances:
13 4 0.04
14 1 0.01
15 6 0.07
16 7 0.08
17 17 0.19
18 35 0.39
19 13 0.14
20 7 0.08
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.56
Consensus pattern (17 bp):
TATATATATTATATTGT
Found at i:90410146 original size:86 final size:86
Alignment explanation
Indices: 90410051--90410238 Score: 376
Period size: 86 Copynumber: 2.2 Consensus size: 86
90410041 TTTTACCCCT
90410051 ATTATATTTATTATTAATATTAGTATATATTTTATTATACGTGTATATATATATACTTTTTGTAT
1 ATTATATTTATTATTAATATTAGTATATATTTTATTATACGTGTATATATATATACTTTTTGTAT
90410116 ATAGTATTATTGTTATATATC
66 ATAGTATTATTGTTATATATC
90410137 ATTATATTTATTATTAATATTAGTATATATTTTATTATACGTGTATATATATATACTTTTTGTAT
1 ATTATATTTATTATTAATATTAGTATATATTTTATTATACGTGTATATATATATACTTTTTGTAT
90410202 ATAGTATTATTGTTATATATC
66 ATAGTATTATTGTTATATATC
90410223 ATTATATTTATTATTA
1 ATTATATTTATTATTA
90410239 TAATTATTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (86 bp):
ATTATATTTATTATTAATATTAGTATATATTTTATTATACGTGTATATATATATACTTTTTGTAT
ATAGTATTATTGTTATATATC
Found at i:90415508 original size:15 final size:15
Alignment explanation
Indices: 90415488--90415518 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90415478 GTCATGTAAG
90415488 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
90415503 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
90415518 T
1 T
90415519 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:90416479 original size:15 final size:15
Alignment explanation
Indices: 90416455--90416484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90416445 TGGAGATCGA
*
90416455 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
90416470 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
90416485 CAAGAAGGGA
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:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:90419822 original size:18 final size:19
Alignment explanation
Indices: 90419789--90419824 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
90419779 TGTTTGTTTA
*
90419789 ATTTTTATATATTTTTTGG
1 ATTTTTATATAATTTTTGG
90419808 ATTTTTA-ATAATTTTTG
1 ATTTTTATATAATTTTTG
90419825 TGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTTTTATATAATTTTTGG
Found at i:90419832 original size:19 final size:19
Alignment explanation
Indices: 90419791--90419832 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
90419781 TTTGTTTAAT
* *
90419791 TTTTATATATTTTTTGGAT
1 TTTTATATAATTTTTGGAA
90419810 TTTTA-ATAATTTTTGTGAA
1 TTTTATATAATTTTTG-GAA
90419829 TTTT
1 TTTT
90419833 TTTAGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTTATATAATTTTTGGAA
Found at i:90424160 original size:21 final size:23
Alignment explanation
Indices: 90424135--90424183 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
90424125 TTCAATTATT
90424135 TAATTAT-AATAAACT-AATTAA
1 TAATTATAAATAAACTAAATTAA
*
90424156 TAATT-TAAATAAATTAAATTAA
1 TAATTATAAATAAACTAAATTAA
*
90424178 TCATTA
1 TAATTA
90424184 AGTTATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 10 0.43
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTATAAATAAACTAAATTAA
Found at i:90431139 original size:54 final size:54
Alignment explanation
Indices: 90431057--90431165 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
90431047 AGATCCTGTC
* * *
90431057 AGTTGCCCCATCATCAGCAAGCAAGCAGTCAATTCTGGATACCTGGTTTATCAA
1 AGTTGCCCCATCACCAACAAGCAAGCAGTCAATTCTCGATACCTGGTTTATCAA
* **
90431111 AGTTGCCCCATCACCAACAAGCAAGCAGTCAATTCTCGATGCCTTTTTTATCAA
1 AGTTGCCCCATCACCAACAAGCAAGCAGTCAATTCTCGATACCTGGTTTATCAA
90431165 A
1 A
90431166 TTCAACCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
AGTTGCCCCATCACCAACAAGCAAGCAGTCAATTCTCGATACCTGGTTTATCAA
Found at i:90445693 original size:18 final size:18
Alignment explanation
Indices: 90445670--90445762 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
90445660 CCCAACTACT
*
90445670 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
90445688 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
90445706 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
90445724 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
90445742 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
90445760 GTA
1 GTA
90445763 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:90445722 original size:36 final size:36
Alignment explanation
Indices: 90445670--90445762 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
90445660 CCCAACTACT
*
90445670 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
90445706 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
90445742 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
90445763 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:90447618 original size:20 final size:20
Alignment explanation
Indices: 90447590--90447629 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
90447580 TCCGACTAGA
90447590 GGATGGGTTAAACTTAATAC
1 GGATGGGTTAAACTTAATAC
*
90447610 GGATTGGTTAAACTTAATAC
1 GGATGGGTTAAACTTAATAC
90447630 AAATGGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
GGATGGGTTAAACTTAATAC
Found at i:90449846 original size:26 final size:26
Alignment explanation
Indices: 90449807--90449862 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
90449797 TGATACAAAT
90449807 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90449833 TGATAAT-GGTTTAGGTAAATGTTCCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
90449859 TGAT
1 TGAT
90449863 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:90454129 original size:18 final size:19
Alignment explanation
Indices: 90454091--90454136 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
90454081 TTATAAATAG
*
90454091 TATTATTTTCATATATCCT
1 TATTATTTTCATATATACT
90454110 TA-TATTTATCAT-TATACT
1 TATTATTT-TCATATATACT
90454128 TATTATTTT
1 TATTATTTT
90454137 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATTTTCATATATACT
Found at i:90460720 original size:12 final size:12
Alignment explanation
Indices: 90460703--90460730 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
90460693 GCTGAGGTAT
90460703 TTTTAATTTCTG
1 TTTTAATTTCTG
90460715 TTTTAATTTCTG
1 TTTTAATTTCTG
90460727 TTTT
1 TTTT
90460731 TTAAAAAGTC
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:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTAATTTCTG
Found at i:90460805 original size:88 final size:87
Alignment explanation
Indices: 90460625--90460890 Score: 308
Period size: 85 Copynumber: 3.0 Consensus size: 87
90460615 TGCTGAAGTA
* * *
90460625 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTTGGCTCA
1 TTTT-AATTTCTGTTTTT--AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--GA
* *
90460690 CACGCTGAGGTATTTTTAA--TTTCTG
61 CACGCTGAGGTATTTTCAATTTTTGTG
* * * *
90460715 TTTTAATTTCTGTTTTTTAAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTG-TTTTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACG
*
90460780 CTGAGGTATTGTCAATTTTTGTG
65 CTGAGGTATTTTCAATTTTTGTG
* * *
90460803 TTTTAATTTATG--TTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTCTGTTTTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGC
* *
90460866 TAAGGTATTTTCAATTTCTGT-
66 TGAGGTATTTTCAATTTTTGTG
90460887 TTTT
1 TTTT
90460891 CAAATAAATC
Statistics
Matches: 153, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
84 4 0.03
85 63 0.41
86 17 0.11
88 52 0.34
89 8 0.05
90 9 0.06
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (87 bp):
TTTTAATTTCTGTTTTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTATTTTCAATTTTTGTG
Found at i:90460980 original size:71 final size:72
Alignment explanation
Indices: 90460819--90461249 Score: 360
Period size: 71 Copynumber: 5.9 Consensus size: 72
90460809 TTTATGTTTC
* * * * *
90460819 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAA-TT-
* **
90460884 TGTTTTTCA
64 TGATCATCA
* * *
90460893 AATAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAATTT
1 AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTT
90460958 -ATCATCA
65 GATCATCA
*
90460965 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAA-TT-
* *
90461030 TGCTCAATTTA
64 TGATC-A-TCA
* * * *
90461041 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACATGCTGAGGTGTTT
1 --------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTT
* **
90461103 TCAATTTCTATTTTTCA
58 TCAATTT-GA-TCATCA
* ** * * *
90461120 AAAAATCAACTCATATTGTGAGAGGTGAGTTGGGCCTCAAGTCACATTGAGGTATTTT--A--TC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTG
90461181 ATCA--A
66 ATCATCA
* * * *
90461186 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTT
90461250 CTGTTTTAAT
Statistics
Matches: 291, Mismatches: 43, Indels: 50
0.76 0.11 0.13
Matches are distributed among these distances:
66 53 0.18
68 2 0.01
69 1 0.00
70 2 0.01
71 91 0.31
72 9 0.03
73 2 0.01
74 18 0.06
75 52 0.18
76 2 0.01
79 3 0.01
80 2 0.01
81 17 0.06
84 37 0.13
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTG
ATCATCA
Found at i:90461129 original size:155 final size:153
Alignment explanation
Indices: 90460819--90462064 Score: 554
Period size: 161 Copynumber: 7.8 Consensus size: 153
90460809 TTTATGTTTC
* * * * * *
90460819 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGG-----TA-TT-T-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTATTTTATTTCTC
* * *
90460876 TCAATTTCTGTTTTTCAAATAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCA-AGTCACA
66 TCAATTTCTGTTTTTC-AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACA-T-GC-
**
90460940 TTGAGGTATTTTCAA-TT-TA-TCATC-A
126 -TGAGGTATTTTCAATTTCTATTTTTCAA
* * *
90460965 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTATTTT--ATTTC
*
90461030 TGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTG
64 T-CTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTG
*
90461095 AGGTGTTTTCAATTTCTATTTTTC-A
128 AGGTATTTTCAATTTCTATTTTTCAA
* **
90461120 AAAAATCAACTCATATTGTGAGAGGTGAGTTGGGCCTCAAGTCAC-ATTGAGGTATTTTA--TC-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGA-TGAGGTATTTTATTTCT
* *
90461181 ATCAA------------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
65 CTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA---CATGCT
90461234 GAGGTATTTTCAATTTCTGTTTTAATTTCCGTGTTTCAAAA
127 GAGGTATTTTCAATTTC-----T-A--T---T-TTTC--AA
* *
90461275 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTA-TTTT-ATTTC
*
90461340 TGTTTTCTTCAATTTCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
64 -----TC-TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---
* *
90461405 ACCTGTTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTCAAA
120 ACATGCTGAGGTATTTTCAATTTC-----T-A--T---T-TTTC-AA
*
90461452 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGG-----TATTT-T-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTATTTTATTTCTC
90461510 T-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTG
66 TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACATGCTG
* *
90461574 AGGTAATTTCAATTTCTGTTTTCTTCAATTTA
128 AGGTATTTTCAATTTCT-ATTT-TTC-A---A
* * * * * * *
90461606 TGTTTTTCAAAAATCAGCTCATATTGCGAGAGCTGAGTTGAGCCTCAGGGCATGCTGAGG-----
1 --------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTATTT
*
90461666 TA-TT-T-TCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
58 TATTTCTCTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG---C-
* * * * *
90461728 GCTCACATGTTGAGATCTCTTCAATTTCTGTTTTTCAA
117 -CTCACATGCTGAGGTATTTTCAATTTCTATTTTTCAA
* * *
90461766 TTTCTGTGCATCAAAATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTCAGGACACGCTGAGGT
1 ---------A--AAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCAAGTCACGATGAGGT
*
90461830 A----A--T-T-TCAATTTCTGTTTGTT-AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCC
54 ATTTTATTTCTCTCAATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG--
* * * *
90461886 TCGGCTCACATGTTGAGATCTTTTCAATTTCTGTTTTTCAA
116 -C--CTCACATGCTGAGGTATTTTCAATTTCTATTTTTCAA
* * * *
90461927 TTTCTGTGCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTA
1 ---------A--AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTA
* * * *
90461992 TTTTCAATTGATGTTTTTTTCAATTTAC-GCTTTTCAAAAATCAACTCATATTACGAGAGGTGAG
55 --TT---TT-A--TTTCTCTCAATTT-CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
90462056 TTGAGCCTC
111 TTGAGCCTC
90462065 GGGGAACGCT
Statistics
Matches: 922, Mismatches: 71, Indels: 188
0.78 0.06 0.16
Matches are distributed among these distances:
137 39 0.04
140 21 0.02
145 1 0.00
146 47 0.05
148 1 0.00
149 4 0.00
150 1 0.00
151 10 0.01
152 17 0.02
153 4 0.00
154 7 0.01
155 140 0.15
156 9 0.01
157 16 0.02
159 2 0.00
160 1 0.00
161 219 0.24
162 64 0.07
163 59 0.06
164 41 0.04
165 3 0.00
166 24 0.03
167 1 0.00
169 3 0.00
170 4 0.00
171 2 0.00
172 3 0.00
174 1 0.00
175 1 0.00
176 3 0.00
177 96 0.10
178 77 0.08
181 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (153 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACGATGAGGTATTTTATTTCTC
TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTGAGG
TATTTTCAATTTCTATTTTTCAA
Found at i:90461165 original size:226 final size:222
Alignment explanation
Indices: 90460733--90461345 Score: 782
Period size: 226 Copynumber: 2.7 Consensus size: 222
90460723 TCTGTTTTTT
* * * *
90460733 AAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA--T
* *
90460798 TTGTGTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
64 TTCTGTTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---AC
*
90460862 ACGCTAAGGTATTTTCAATTTCTGTTTTTCAAATAAATCAACTCATATTGTGAGAGGTGAGTTGA
126 ACGCTAAGGTATTTTCAATTTCTATTTTTCAAATAAATCAACTCATATTGTGAGAGGTGAGTTGA
*
90460927 ACCTCAAGTCACATTGAGGTATTTTCAATTTATCA
191 ACCTCAAGTCACATTGAGGTATTTT--A-TCATCA
* * * * *
90460962 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCAAT
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
* * *
90461027 TTCTG-CTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACAT
64 TTCTGTTTTAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACAC
* * **
90461091 GCTGAGGTGTTTTCAATTTCTATTTTTCAAA-AAATCAACTCATATTGTGAGAGGTGAGTTGGGC
128 GCTAAGGTATTTTCAATTTCTATTTTTCAAATAAATCAACTCATATTGTGAGAGGTGAGTTGAAC
90461155 CTCAAGTCACATTGAGGTATTTTATCATCA
193 CTCAAGTCACATTGAGGTATTTTATCATCA
90461185 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
** * *
90461250 CTGTTTTAATTTCCGTGTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAG
66 CTGTTTTAATTTATGT-TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-
* * * *
90461315 GTCACGATGAGGTATTTTTAATTTCTGTTTT
125 --CACGCTAAGGTATTTTCAATTTCTATTTT
90461346 CTTCAATTTC
Statistics
Matches: 335, Mismatches: 36, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
221 64 0.19
222 11 0.03
223 5 0.01
224 1 0.00
226 91 0.27
227 31 0.09
228 9 0.03
229 29 0.09
230 41 0.12
231 53 0.16
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (222 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGTTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCT
AAGGTATTTTCAATTTCTATTTTTCAAATAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTC
AAGTCACATTGAGGTATTTTATCATCA
Found at i:90461194 original size:66 final size:66
Alignment explanation
Indices: 90461119--90461243 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
90461109 TCTATTTTTC
* * * *
90461119 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGGGCCTCAAGTCACATTGAGGTATTTTATCATC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGGTATTTTATCATC
90461184 A
66 A
* *
90461185 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGGTATTTT
90461244 CAATTTCTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (66 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGGTATTTTATCATC
A
Found at i:90461338 original size:89 final size:88
Alignment explanation
Indices: 90461184--90461522 Score: 470
Period size: 89 Copynumber: 3.8 Consensus size: 88
90461174 TTTTATCATC
* * *
90461184 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTCAATT
90461249 TCTGTTTTAATTTCCGTGTTTCAA
66 TCTGTTTTAATTTCCGTGTTTC-A
* *
90461273 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTCAATT
* *
90461338 TCTGTTTTCTTCAATTTCTGTTTTTC-
66 TCTG--TT-TT-AATTTCCGTGTTTCA
* * * * *
90461364 --AACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC-CTGTTGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCAC-GATGAGGTATTTTCAAT
*
90461426 TTCTGTTTTAATTTCCATGTTTCA
65 TTCTGTTTTAATTTCCGTGTTTCA
*
90461450 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTCAATT
90461515 TCTGTTTT
66 TCTGTTTT
90461523 TCAAAAATCA
Statistics
Matches: 218, Mismatches: 23, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
85 11 0.05
86 2 0.01
87 2 0.01
88 64 0.29
89 123 0.56
91 2 0.01
92 2 0.01
93 12 0.06
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTCAATT
TCTGTTTTAATTTCCGTGTTTCA
Found at i:90461553 original size:73 final size:73
Alignment explanation
Indices: 90461452--90461595 Score: 225
Period size: 73 Copynumber: 2.0 Consensus size: 73
90461442 ATGTTTCAAA
* * * *
90461452 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGATGAGGTAATTTCAATTTC
90461517 TGTTTTTC
66 TGTTTTTC
* * *
90461525 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGATGAGGTAATTTCAATTTC
90461590 TGTTTT
66 TGTTTT
90461596 CTTCAATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGATGAGGTAATTTCAATTTC
TGTTTTTC
Found at i:90461599 original size:250 final size:242
Alignment explanation
Indices: 90461275--90461846 Score: 679
Period size: 250 Copynumber: 2.3 Consensus size: 242
90461265 TGTTTCAAAA
* * * * * *
90461275 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
90461340 TGTTTTCTTCAATTTCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TGTTTTCTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAG
* *
90461405 ACCTGTTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTCAAAAAAAATCAACTCATATTG
131 ACATGCTGAGGTATTTTCAATTTCTG----------C-T-TTTC-AAAAAAATCAACTCATATTG
* * *
90461470 CGAGAGGTGAGTTGAACCTCAGG-TCAC-GATGAGGTATTTTTAATTTCTG-TTT-T-T-C
183 CGAGAGGTGAGTTGAACCTC-GGCTCACAGATGAGATATCTTCAATTTCTGTTTTCTGTGC
* *
90461525 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
90461590 TGTTTTCTTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGCTGAGTTGAGCCTCAGG
66 TGTTTTCTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAG
*
90461655 GCATGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
131 ACATGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
90461720 GAGCCTCGGCTCACATGTTGAGATCTCTTCAATTTCTGTTTTTCAATTTCTGTGC
196 GAACCTCGGCTCACA-GATGAGATATCTTCAATTTCTG----T---TTTCTGTGC
*
90461775 ATCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 A--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
90461840 TCTGTTT
64 TCTGTTT
90461847 GTTAAAAATC
Statistics
Matches: 281, Mismatches: 25, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
236 2 0.01
237 43 0.15
238 4 0.01
239 18 0.06
240 1 0.00
247 3 0.01
248 1 0.00
249 1 0.00
250 142 0.51
252 66 0.23
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (242 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTCTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAG
ACATGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAACCTCGGCTCACAGATGAGATATCTTCAATTTCTGTTTTCTGTGC
Found at i:90461602 original size:16 final size:16
Alignment explanation
Indices: 90461581--90461611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90461571 CTGAGGTAAT
*
90461581 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
90461597 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
90461612 TCAAAAATCA
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:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:90461662 original size:89 final size:90
Alignment explanation
Indices: 90461511--90461686 Score: 291
Period size: 89 Copynumber: 2.0 Consensus size: 90
90461501 AGGTATTTTT
* *
90461511 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAG
1 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAGACATGCTGAG
90461576 GTAATTTCAATTTCTG-TTTTCTTC
66 GTAATTTCAATTTCTGCTTTTCTTC
* * *
90461600 AATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGCTGAGTTGAGCCTCAGGGCATGCTGAG
1 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAGACATGCTGAG
*
90461665 GTATTTTCAATTTCTGCTTTTC
66 GTAATTTCAATTTCTGCTTTTC
90461687 AAAAAAATCA
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 75 0.94
90 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (90 bp):
AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAGACATGCTGAG
GTAATTTCAATTTCTGCTTTTCTTC
Found at i:90461785 original size:325 final size:320
Alignment explanation
Indices: 90461347--90462000 Score: 847
Period size: 325 Copynumber: 2.0 Consensus size: 320
90461337 TTCTGTTTTC
* * *
90461347 TTCAATTTCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCTGTT
1 TTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTT
* * *
90461412 GAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTCAAAAAAAATCAACTCATATTGCGAGAGG
66 GAGATATCTTCAATTTCTGTTTTAATTTCCATGTTGCAAAAAAAATCAACTCATATTGCGAGAGG
* * *
90461477 TGAGTTGAA-CCTCAGGTCACGATGAGGTATTTTTAATTTCTGTTT-TTCAAAAATCAACTCATA
131 TGAGTT-AAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTT-AAAAATCAACTCATA
* *
90461540 TTGCGAGAGGTGAGTTGAGCCTCAAG-ACATGCTGAGGTAATTTCAATTTCTGTTTTCTTCAATT
194 TCGCGAGAGGTGAGTTGAGCCTC-AGCACATGCTGAGATAATTTCAATTTCTG-TTT-TTCAATT
*** * * * * *
90461604 TATGTTTTTCAAAAATCAGCTCATATTGCGAGAGCTGAGTTGAGCCTCAGGGCATGCTGAGGTAT
256 TATGTGCATC-AAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAGACACGCTAAGGTAT
90461669 T
320 T
*
90461670 TTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* **
90461734 ATGTTGAGATCTCTTCAATTTCTGTTTTTCAATTT-C-TG-TGC-ATCAAAATCAACTCATATTG
61 ATGTTGAGATATCTTCAATTTCTG-TTTT-AATTTCCATGTTGCAAAAAAAATCAACTCATATTG
*
90461795 CGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTTAAAAATCAAC
124 CGAGAGGTGAGTTAAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTTAAAAATCAAC
* * **
90461860 TCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGATCTTTTCAATTTCTGTTTTTC
189 TCATATCGCGAGAGGTGAGTTGAGCCTCAG--CACATGCTGAGATAATTTCAATTTCTGTTTTTC
* *
90461925 AATTTCTGTGCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGG
252 AATTTATGTGCATCAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAGACACGCTAAGG
90461990 TATT
317 TATT
90461994 TTCAATT
1 TTCAATT
90462001 GATGTTTTTT
Statistics
Matches: 289, Mismatches: 30, Indels: 23
0.85 0.09 0.07
Matches are distributed among these distances:
323 16 0.06
324 60 0.21
325 150 0.52
326 7 0.02
327 46 0.16
328 5 0.02
329 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (320 bp):
TTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTT
GAGATATCTTCAATTTCTGTTTTAATTTCCATGTTGCAAAAAAAATCAACTCATATTGCGAGAGG
TGAGTTAAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTTAAAAATCAACTCATATC
GCGAGAGGTGAGTTGAGCCTCAGCACATGCTGAGATAATTTCAATTTCTGTTTTTCAATTTATGT
GCATCAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAAGACACGCTAAGGTATT
Found at i:90461838 original size:413 final size:409
Alignment explanation
Indices: 90461186--90462089 Score: 1039
Period size: 413 Copynumber: 2.2 Consensus size: 409
90461176 TTATCATCAA
90461186 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
*
90461251 TGTTTTAATTTCCGTGTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGG
66 TG--------T-CGTGTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG
* * * ***
90461316 TCACGATGAGGTATTTTTAATTTCTGTTTTCTTCAATTTCTGTTTTTCAACAATCAACTCATATT
121 TCACGATGAGATATCTTCAATTTCTGTTTTCTTCAATTTCTGTGCATCAACAATCAACTCATATT
* * *
90461381 GCGAGAGGTGAGTTGAGCCTCAAGACCTGTTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGT
186 GCGAGAGGTGAGTTAAGCCTCAAGACCTGCTGAGGTAATTTCAATTTCTG-------TT---TG-
* *
90461446 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG-TCAC-GATGAGGTATTT
240 TT----AAAAATCAACTCATATCGCGAGAGGTGAGTTGAACCTC-GGCTCACAGATGAGATATTT
*
90461509 TTAATTTCTG-TTT-T-T-CA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
300 TCAATTTCTGTTTTCTGTGCACAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * ** * *
90461569 TGCTGAGGTAATTTCAATTTCTGTTTTCTTCAATTTATGTTTTTC
365 CGCTAAGGTAATTTCAATTGATGTTTTCTTCAATTTACGCTTTTC
* * *
90461614 AAAAATCAGCTCATATTGCGAGAGCTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* *
90461679 TG-C-T-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGTT
66 TGTCGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG-TCAC--GAT
*
90461739 GAGATCTCTTCAATTTCTG-TTT-TTCAATTTCTGTGCATCAA-AATCAACTCATATTGCGAGAG
128 GAGATATCTTCAATTTCTGTTTTCTTCAATTTCTGTGCATCAACAATCAACTCATATTGCGAGAG
*
90461801 GTGAGTTAAGCCTCAGGACAC-GCTGAGGTAATTTCAATTTCTGTTTGTTAAAAATCAACTCATA
193 GTGAGTTAAGCCTCAAGAC-CTGCTGAGGTAATTTCAATTTCTGTTTGTTAAAAATCAACTCATA
* * *
90461865 TCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGATCTTTTCAATTTCTGTTTTTCAATTT
257 TCGCGAGAGGTGAGTTGAACCTCGGCTCACA-GATGAGATATTTTCAATTTCTG----T---TTT
*
90461930 CTGTGCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTATTT
314 CTGTGCA-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATT
*
90461995 TCAATTGATGTTTTTTTCAATTTACGCTTTTC
378 TCAATTGATGTTTTCTTCAATTTACGCTTTTC
* * *
90462027 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
90462090 AATGTTTTTT
Statistics
Matches: 419, Mismatches: 37, Indels: 55
0.82 0.07 0.11
Matches are distributed among these distances:
397 2 0.00
398 40 0.10
400 18 0.04
402 2 0.00
403 2 0.00
406 2 0.00
408 3 0.01
409 1 0.00
410 1 0.00
411 2 0.00
413 197 0.47
414 59 0.14
415 3 0.01
416 21 0.05
417 1 0.00
418 1 0.00
428 64 0.15
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (409 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TGTCGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAG
ATATCTTCAATTTCTGTTTTCTTCAATTTCTGTGCATCAACAATCAACTCATATTGCGAGAGGTG
AGTTAAGCCTCAAGACCTGCTGAGGTAATTTCAATTTCTGTTTGTTAAAAATCAACTCATATCGC
GAGAGGTGAGTTGAACCTCGGCTCACAGATGAGATATTTTCAATTTCTGTTTTCTGTGCACAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTGATGTTT
TCTTCAATTTACGCTTTTC
Found at i:90461902 original size:161 final size:159
Alignment explanation
Indices: 90461347--90462009 Score: 825
Period size: 161 Copynumber: 4.1 Consensus size: 159
90461337 TTCTGTTTTC
* *
90461347 TTCAATTTCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCTGTT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTT
* * **
90461412 GAGGTATTTTCAATTTCTG-TTTT-AATTTCCATGTTTCAAAAAAAATCAACTCATATTGCGAGA
66 GAGATATTTTCAATTTCTGTTTTTCAATTT-C-TG-TGC-ATCAAAATCAACTCATATTGCGAGA
* *
90461475 GGTGAGTTGAA-CCTCAGGTCACGATGAGGTATT
127 GGTGAGTT-AAGCCTCAGGACACGCTGAGGTATT
* *
90461508 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTT
* * * *** *
90461573 GAGGTAATTTCAATTTCTGTTTTCTTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAG
66 GAGATATTTTCAATTTCTG-TTT-TTCAATTTCTGTGCATC-AAAATCAACTCATATTGCGAGAG
* * * *
90461638 CTGAGTTGAGCCTCAGGGCATGCTGAGGTATT
128 GTGAGTTAAGCCTCAGGACACGCTGAGGTATT
* *
90461670 TTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
90461734 ATGTTGAGATCTCTTCAATTTCTGTTTTTCAATTTCTGTGCATCAAAATCAACTCATATTGCGAG
61 ATGTTGAGATATTTTCAATTTCTGTTTTTCAATTTCTGTGCATCAAAATCAACTCATATTGCGAG
*
90461799 AGGTGAGTTAAGCCTCAGGACACGCTGAGGTAAT
126 AGGTGAGTTAAGCCTCAGGACACGCTGAGGTATT
* *
90461833 TTCAATTTCTGTTTGTT-AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
1 TTCAATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA
*
90461896 TGTTGAGATCTTTTCAATTTCTGTTTTTCAATTTCTGTGCATCAAAATCAACTCATATTGCGAGA
62 TGTTGAGATATTTTCAATTTCTGTTTTTCAATTTCTGTGCATCAAAATCAACTCATATTGCGAGA
* * *
90461961 GGTGAGTTGAGCCTCAAGACACGCTAAGGTATT
127 GGTGAGTTAAGCCTCAGGACACGCTGAGGTATT
**
90461994 TTCAATTGATGTTTTT
1 TTCAATTTCTGTTTTT
90462010 TTCAATTTAC
Statistics
Matches: 447, Mismatches: 43, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
160 2 0.00
161 230 0.51
162 64 0.14
163 67 0.15
164 55 0.12
165 8 0.02
166 21 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (159 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTT
GAGATATTTTCAATTTCTGTTTTTCAATTTCTGTGCATCAAAATCAACTCATATTGCGAGAGGTG
AGTTAAGCCTCAGGACACGCTGAGGTATT
Found at i:90461925 original size:14 final size:14
Alignment explanation
Indices: 90461906--90461933 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90461896 TGTTGAGATC
90461906 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
90461920 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
90461934 GCATCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:90462011 original size:88 final size:87
Alignment explanation
Indices: 90461832--90462236 Score: 369
Period size: 88 Copynumber: 4.6 Consensus size: 87
90461822 GCTGAGGTAA
* **
90461832 TTTCAATTTCTG-TTTGTTAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTCAATTTCTGCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG---ACA
* * * * * *
90461896 TGTTGAGATCTTTTCAATT-TCTGTT
62 CGCTGAGGTATTTTCAATTATGTTTT
** * *
90461921 TTTCAATTTCTG-TGCATC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTCAATTTCTGCT-TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGACACG
*
90461984 CTAAGGTATTTTCAATTGATGTTTT
64 CTGAGGTATTTTCAATT-ATGTTTT
90462009 TTTCAATTTAC-GCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGA-AC
1 TTTCAATTT-CTGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC--GGACAC
90462072 GCTGAGGTATTTTCAATTAATG-TTT
63 GCTGAGGTATTTTCAATT-ATGTTTT
* * * *
90462097 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGCGTTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GG--ACAC
* * * *
90462162 GCCGAGGTATTTTCAA-AATCTGTT
63 GCTGAGGTATTTTCAATTATGTTTT
*** * * *
90462186 TGGAAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
90462237 TCTTTGCTCA
Statistics
Matches: 267, Mismatches: 36, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
86 17 0.06
87 3 0.01
88 144 0.54
89 85 0.32
90 18 0.07
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGACACGCT
GAGGTATTTTCAATTATGTTTT
Found at i:90462063 original size:89 final size:88
Alignment explanation
Indices: 90461939--90462153 Score: 333
Period size: 89 Copynumber: 2.4 Consensus size: 88
90461929 TCTGTGCATC
* *
90461939 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAGACACGCTAAGGTATTTTCAATTGA
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGAAGA-ACGCTAAGGTATTTTCAATTAA
90462003 TGTTTTTTTCAATTTACGCTTTTCA
65 TG-TTTTTTCAATTTACGCTTTTCA
** *
90462028 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATTAAT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGAAGAACGCTAAGGTATTTTCAATTAAT
*
90462093 GTTTTTTCAATTTATGCTTTTCA
66 GTTTTTTCAATTTACGCTTTTCA
* *
90462116 AAAATCAACTCATATTACGAGCGTTGAGTTGAGCCTCG
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCG
90462154 GGTCACATGC
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
88 57 0.49
89 58 0.50
90 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (88 bp):
AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGAAGAACGCTAAGGTATTTTCAATTAAT
GTTTTTTCAATTTACGCTTTTCA
Found at i:90462261 original size:88 final size:89
Alignment explanation
Indices: 90462110--90462322 Score: 218
Period size: 88 Copynumber: 2.4 Consensus size: 89
90462100 CAATTTATGC
* * * *
90462110 TTTTCAAAAATCAACTCATATTACGAG-CGTTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-TT
1 TTTTCAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGCTCACATGCCGAGCTATTT
*
90462173 TTCAAAATCTGTTTGGAAAAT-TCT-G
65 TTCAAAATCTGTTT-G-AAATGCCTAG
* ** * *
90462198 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTTTGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
** *
90462263 TCAATTTCTGTTTGTAATGCCTAG
66 TCAAAATCTGTTTGAAATGCCTAG
* * * *
90462287 TTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTT
90462323 AAGCTCAGGA
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
87 3 0.03
88 53 0.51
89 48 0.46
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (89 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
TCAAAATCTGTTTGAAATGCCTAG
Found at i:90474935 original size:24 final size:24
Alignment explanation
Indices: 90474907--90474956 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
90474897 ATGAAAGTTT
* *
90474907 AATGCCAATG-ATGTAATGCAATGC
1 AATGCAAATGTATGGAATG-AATGC
90474931 AATGCAAATGTATGGAATGAATGC
1 AATGCAAATGTATGGAATGAATGC
90474955 AA
1 AA
90474957 AAGAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (24 bp):
AATGCAAATGTATGGAATGAATGC
Found at i:90480738 original size:19 final size:19
Alignment explanation
Indices: 90480703--90480740 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
90480693 ATGTATTTCA
*
90480703 TTATATATATATATATTTT
1 TTATAAATATATATATTTT
90480722 TTATAAATAGTAT-TATTTT
1 TTATAAATA-TATATATTTT
90480741 CATATATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATAAATATATATATTTT
Found at i:90480756 original size:18 final size:18
Alignment explanation
Indices: 90480732--90480777 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
90480722 TTATAAATAG
*
90480732 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
90480751 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
90480769 TATTATTTT
1 TATTATTTT
90480778 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:90485483 original size:24 final size:24
Alignment explanation
Indices: 90485423--90485493 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
90485413 CCTCGTCTCT
* *
90485423 GGAACATGGTCTTTCGGTACATGA
1 GGAACATGGTCTCTCGGCACATGA
* * * *
90485447 GGAGCTTGCTCTCTCGGCCCATGA
1 GGAACATGGTCTCTCGGCACATGA
* *
90485471 GGAACGTGGTCTCTCAGCACATG
1 GGAACATGGTCTCTCGGCACATG
90485494 CGGACGATGT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (24 bp):
GGAACATGGTCTCTCGGCACATGA
Found at i:90488700 original size:12 final size:12
Alignment explanation
Indices: 90488683--90488713 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
90488673 GTGAATAAAG
90488683 AAGATAAATGGA
1 AAGATAAATGGA
90488695 AAGAT-AATGGA
1 AAGATAAATGGA
90488706 AAGATAAA
1 AAGATAAA
90488714 ACGTGGCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:90491613 original size:20 final size:20
Alignment explanation
Indices: 90491590--90491627 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
90491580 AAATTTTTGG
90491590 ATTTTTGAAATTTATTTTTA
1 ATTTTTGAAATTTATTTTTA
90491610 ATTTTTGAAATTTATTTT
1 ATTTTTGAAATTTATTTT
90491628 GAACTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTTGAAATTTATTTTTA
Found at i:90492930 original size:17 final size:17
Alignment explanation
Indices: 90492899--90492941 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
90492889 AAATTTAAAC
90492899 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
90492915 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
*
90492932 -TTTTATTTAA
1 ATTTTAATTAA
90492942 TAAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Done.