Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 265 of 343
Found at i:87483276 original size:11 final size:10
Alignment explanation
Indices: 87483256--87483296 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
87483246 TTTAGAAAAC
87483256 TTTTA-AATT
1 TTTTATAATT
87483265 TTTTATATATT
1 TTTTATA-ATT
*
87483276 TTTTAGAA-T
1 TTTTATAATT
87483285 TTTTATAATT
1 TTTTATAATT
87483295 TT
1 TT
87483297 CTCAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 13 0.48
10 5 0.19
11 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:87483342 original size:18 final size:18
Alignment explanation
Indices: 87483305--87483351 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
87483295 TTCTCAAAAA
* *
87483305 TATAAAT-TTATAATTTT
1 TATAAATATTTTAAATTT
87483322 TATAAATATTTTAAATTT
1 TATAAATATTTTAAATTT
*
87483340 TATAATTATTTT
1 TATAAATATTTT
87483352 GATTCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATAAATATTTTAAATTT
Found at i:87484886 original size:9 final size:8
Alignment explanation
Indices: 87484867--87484891 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
87484857 CAATTGTCCG
87484867 AAAAAAGA
1 AAAAAAGA
87484875 AAAAAAGA
1 AAAAAAGA
87484883 AAAAAAGA
1 AAAAAAGA
87484891 A
1 A
87484892 GAGGGAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:87486135 original size:10 final size:9
Alignment explanation
Indices: 87486099--87486173 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 9
87486089 TCCATTAATT
87486099 TATA-AAAA
1 TATATAAAA
*
87486107 TCATAAAAAA
1 T-ATATAAAA
87486117 T-TATAAAA
1 TATATAAAA
87486125 TATATAGAAA
1 TATATA-AAA
*
87486135 TATAGAAAAA
1 TATA-TAAAA
*
87486145 AATTATAAAA
1 TA-TATAAAA
87486155 TATATAGAAA
1 TATATA-AAA
*
87486165 TATAGAAAA
1 TATATAAAA
87486174 AAATTATAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 8 0.15
9 14 0.26
10 29 0.54
11 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (9 bp):
TATATAAAA
Found at i:87486147 original size:30 final size:30
Alignment explanation
Indices: 87486111--87486185 Score: 150
Period size: 30 Copynumber: 2.5 Consensus size: 30
87486101 TAAAAATCAT
87486111 AAAAAATTATAAAATATATAGAAATATAGA
1 AAAAAATTATAAAATATATAGAAATATAGA
87486141 AAAAAATTATAAAATATATAGAAATATAGA
1 AAAAAATTATAAAATATATAGAAATATAGA
87486171 AAAAAATTATAAAAT
1 AAAAAATTATAAAAT
87486186 TCTATAAAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (30 bp):
AAAAAATTATAAAATATATAGAAATATAGA
Found at i:87486487 original size:9 final size:9
Alignment explanation
Indices: 87486443--87486565 Score: 54
Period size: 9 Copynumber: 14.4 Consensus size: 9
87486433 ATTTGATGCA
87486443 TTTTATAAAT
1 TTTTAT-AAT
*
87486453 TTTTAT-TT
1 TTTTATAAT
87486461 TTTTAT-A-
1 TTTTATAAT
**
87486468 TTTTACGAT
1 TTTTATAAT
87486477 TTTTATAA-
1 TTTTATAAT
87486485 -TTTAT--T
1 TTTTATAAT
87486491 TTTTATAA-
1 TTTTATAAT
87486499 TTTT-TAAT
1 TTTTATAAT
87486507 ATTTTAT-AT
1 -TTTTATAAT
*
87486516 TTTTATTAAAA
1 TTTTA-T-AAT
* *
87486527 TTTAATAAA
1 TTTTATAAT
*
87486536 TTTTATTGAT
1 TTTTA-TAAT
87486546 TTTTAT--T
1 TTTTATAAT
87486553 TTTTATAAT
1 TTTTATAAT
87486562 TTTT
1 TTTT
87486566 TGTCACATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
7 25 0.28
8 17 0.19
9 26 0.30
10 15 0.17
11 5 0.06
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:87486488 original size:23 final size:24
Alignment explanation
Indices: 87486462--87486518 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
87486452 TTTTTATTTT
*
87486462 TTTATATTTTACGATTTTT-ATAA
1 TTTATATTTTACAATTTTTAATAA
* * *
87486485 TTTATTTTTTATAATTTTTAATAT
1 TTTATATTTTACAATTTTTAATAA
87486509 TTTATATTTT
1 TTTATATTTT
87486519 TATTAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTATATTTTACAATTTTTAATAA
Found at i:87486519 original size:8 final size:8
Alignment explanation
Indices: 87486451--87486521 Score: 60
Period size: 8 Copynumber: 9.0 Consensus size: 8
87486441 CATTTTATAA
87486451 ATTTTTAT
1 ATTTTTAT
*
87486459 TTTTTTAT
1 ATTTTTAT
*
87486467 A-TTTTACG
1 ATTTTTA-T
87486475 ATTTTTAT
1 ATTTTTAT
*
87486483 A-ATTTAT
1 ATTTTTAT
87486490 -TTTTTAT
1 ATTTTTAT
87486497 AATTTTTA-
1 -ATTTTTAT
87486505 ATATTTTAT
1 AT-TTTTAT
87486514 ATTTTTAT
1 ATTTTTAT
87486522 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 17 0.34
8 20 0.40
9 13 0.26
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (8 bp):
ATTTTTAT
Found at i:87494796 original size:7 final size:6
Alignment explanation
Indices: 87494771--87494820 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
87494761 ATTAAGTCCA
* * *
87494771 TTTA-T TTTATT TTTATT TTTATTT TTTGTT TTTATG TTTATT GTTATT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTATT
87494819 TT
1 TT
87494821 CTTAGACTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 4 0.11
6 28 0.76
7 5 0.14
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:87494802 original size:19 final size:19
Alignment explanation
Indices: 87494775--87494812 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87494765 AGTCCATTTA
*
87494775 TTTTATTTTTATTTTTATT
1 TTTTATTTTTATGTTTATT
*
87494794 TTTTGTTTTTATGTTTATT
1 TTTTATTTTTATGTTTATT
87494813 GTTATTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTATTTTTATGTTTATT
Found at i:87497779 original size:25 final size:24
Alignment explanation
Indices: 87497712--87497812 Score: 98
Period size: 25 Copynumber: 4.1 Consensus size: 24
87497702 TCAATATGAT
*
87497712 TCTTGCGAGCTTCCCAAATAA-TAGC
1 TCTTG-GAGCTTCCC-AATAATTGGC
87497737 TCTCTGGAGCTTCCCAATAATTGGC
1 TCT-TGGAGCTTCCCAATAATTGGC
* *
87497762 TCCTTGGAGCTTCCCAATAAATGAC
1 T-CTTGGAGCTTCCCAATAATTGGC
* *
87497787 TCTTATGAGCTTCCCGAT-ATTGGC
1 TCTT-GGAGCTTCCCAATAATTGGC
87497811 TC
1 TC
87497813 ACTTGAACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.22
25 47 0.72
26 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (24 bp):
TCTTGGAGCTTCCCAATAATTGGC
Found at i:87499513 original size:21 final size:20
Alignment explanation
Indices: 87499485--87499536 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 20
87499475 GAAGTTAACT
87499485 TTAACGGTCAACTATTAAAG
1 TTAACGGTCAACTATTAAAG
87499505 TTAAACGGTCAACTATTAAAG
1 TT-AACGGTCAACTATTAAAG
*
87499526 TTAGCGGTCAA
1 TTAACGGTCAA
87499537 AGGGCCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TTAACGGTCAACTATTAAAG
Found at i:87499654 original size:31 final size:32
Alignment explanation
Indices: 87499619--87499687 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
87499609 ATTACTGATC
* * * *
87499619 TTGAAAAAGTTTGAGGGCCTTTTTGATG-TTT
1 TTGAAAAAATTTGAAGGCATTTTTGATGCATT
*
87499650 TTGAAAAAATTTGAAGGCATTTTTTATGCATT
1 TTGAAAAAATTTGAAGGCATTTTTGATGCATT
87499682 TTGAAA
1 TTGAAA
87499688 GTCCAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (32 bp):
TTGAAAAAATTTGAAGGCATTTTTGATGCATT
Found at i:87501453 original size:21 final size:21
Alignment explanation
Indices: 87501427--87501487 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
87501417 GAAGCTTGAA
87501427 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGCACATAAG
* *
87501448 GGCTAAACAGAAACCCAT-AG
1 GGCTAAACAGAAGCACATAAG
* * *
87501468 GGTTGAACAGAAGCTCATAA
1 GGCTAAACAGAAGCACATAA
87501488 AAGCTGAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (21 bp):
GGCTAAACAGAAGCACATAAG
Found at i:87501486 original size:20 final size:20
Alignment explanation
Indices: 87501427--87501486 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
87501417 GAAGCTTGAA
87501427 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGCACAT-AG
* *
87501448 GGCTAAACAGAAACCCATAG
1 GGCTAAACAGAAGCACATAG
* * *
87501468 GGTTGAACAGAAGCTCATA
1 GGCTAAACAGAAGCACATA
87501487 AAAGCTGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (20 bp):
GGCTAAACAGAAGCACATAG
Found at i:87501503 original size:41 final size:42
Alignment explanation
Indices: 87501430--87501524 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
87501420 GCTTGAAGGC
* **
87501430 TAAACAGAAGCACATAAGGGCTAAACAGAAACCCAT-AGGGT
1 TAAACAGAAGCTCATAAAAGCTAAACAGAAACCCATAAGGGT
* *
87501471 TGAACAGAAGCTCATAAAAGCTGAAC-GAAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAAAGCTAAACAG-AAACCCATAAGGGT
*
87501513 TAAACAAAAGCT
1 TAAACAGAAGCT
87501525 TAATAGAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 29 0.64
42 15 0.33
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAAAGCTAAACAGAAACCCATAAGGGT
Found at i:87501535 original size:42 final size:41
Alignment explanation
Indices: 87501458--87501566 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 41
87501448 GGCTAAACAG
* *
87501458 AAACCCAT-AGGGTTGAACAGAAGCTCATAAAAGCTGAACGA
1 AAACCCATAAGGGTTAAACAAAAGCT-ATAAAAGCTGAACGA
* *
87501499 AAACCCATAAGGGTTAAACAAAAGCT-TAATAGAGCTGAATGG
1 AAACCCATAAGGGTTAAACAAAAGCTATAA-A-AGCTGAACGA
* * * *
87501541 AAACTCATATGAGTTAAATAAAAGCT
1 AAACCCATAAGGGTTAAACAAAAGCT
87501567 CGTGAGAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
40 3 0.05
41 9 0.16
42 45 0.79
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACAAAAGCTATAAAAGCTGAACGA
Found at i:87506270 original size:18 final size:18
Alignment explanation
Indices: 87506247--87506282 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
87506237 AGTAGACCCA
87506247 GGGTCGATCAATTCATAT
1 GGGTCGATCAATTCATAT
87506265 GGGTCGATCAATTCATAT
1 GGGTCGATCAATTCATAT
87506283 ACAGTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
GGGTCGATCAATTCATAT
Found at i:87507969 original size:221 final size:220
Alignment explanation
Indices: 87507586--87508021 Score: 836
Period size: 221 Copynumber: 2.0 Consensus size: 220
87507576 TCATCATTAA
*
87507586 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATTACACTATCACAGA
1 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
87507651 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
66 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
87507716 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAATCGTCGAAACAGGGTTACAAAGC
131 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAATCGTCGAAACAGGGTTACAAAGC
87507781 ATTACCGAACATGTTCAGATCTTTCT
196 ATTACCGAAC-TGTTCAGATCTTTCT
87507807 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
1 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
87507872 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
66 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
*
87507937 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
131 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAATCGTCGAAACAGGGTTACAAAGC
*
87508002 ATTACCGAACTTTTCAGATC
196 ATTACCGAACTGTTCAGATC
87508022 AAATACAAAT
Statistics
Matches: 212, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
220 9 0.04
221 203 0.96
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (220 bp):
GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAATCGTCGAAACAGGGTTACAAAGC
ATTACCGAACTGTTCAGATCTTTCT
Found at i:87509653 original size:15 final size:14
Alignment explanation
Indices: 87509619--87509678 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
87509609 TATAGATAAC
* *
87509619 AAGAAAACCAGGATT
1 AAGAAATCCAAGA-T
*
87509634 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
87509648 AGAGAAATCCAAGAT
1 A-AGAAATCCAAGAT
87509663 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
87509678 A
1 A
87509679 CAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 3 0.08
15 36 0.92
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:87509654 original size:30 final size:30
Alignment explanation
Indices: 87509620--87509678 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
87509610 ATAGATAACA
* *
87509620 AGAAAACCAGGATTAA-GAAGTCCAAGATAG
1 AGAAAACCAAGA-TAAGGAAATCCAAGATAG
*
87509650 AGAAATCCAAGATAAGGAAATCCAAGATA
1 AGAAAACCAAGATAAGGAAATCCAAGATA
87509679 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAGGAAATCCAAGATAG
Found at i:87512964 original size:16 final size:16
Alignment explanation
Indices: 87512945--87512976 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87512935 AATTGTTTTA
87512945 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
87512961 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
87512977 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:87515283 original size:21 final size:21
Alignment explanation
Indices: 87515259--87515298 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
87515249 AGCTCGAAGG
*
87515259 CTAAACAGAAGCACATAAGTT
1 CTAAACAGAAACACATAAGTT
* *
87515280 CTAAATAGAAACCCATAAG
1 CTAAACAGAAACACATAAG
87515299 GTTGAACGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.17
Consensus pattern (21 bp):
CTAAACAGAAACACATAAGTT
Found at i:87515338 original size:21 final size:20
Alignment explanation
Indices: 87515287--87515340 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
87515277 GTTCTAAATA
*
87515287 GAAACCCATAAGGTTGAACG
1 GAAACCCATAAGGCTGAACG
* ** *
87515307 GAAGCTTATAAGAGCTGAATG
1 GAAACCCATAAG-GCTGAACG
87515328 GAAACCCATAAGG
1 GAAACCCATAAGG
87515341 GTTAAACTGA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (20 bp):
GAAACCCATAAGGCTGAACG
Found at i:87515365 original size:42 final size:42
Alignment explanation
Indices: 87515287--87515388 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
87515277 GTTCTAAATA
* *
87515287 GAAACCCATAA-GGTTGAACGGAAGCTTATAAGAGCTGAATG
1 GAAACCCATAAGGGTTAAACGGAAGCTAATAAGAGCTGAATG
*
87515328 GAAACCCATAAGGGTTAAACTGAAGCTCAAT-AGAGCTGAATG
1 GAAACCCATAAGGGTTAAACGGAAGCT-AATAAGAGCTGAATG
* * * *
87515370 AAAACTCATATGAGTTAAA
1 GAAACCCATAAGGGTTAAA
87515389 TAAAAGCTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 11 0.21
42 39 0.75
43 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTAATAAGAGCTGAATG
Found at i:87518006 original size:249 final size:248
Alignment explanation
Indices: 87517294--87518178 Score: 1222
Period size: 249 Copynumber: 3.6 Consensus size: 248
87517284 ATATAATAAT
*
87517294 AATAACATACAATAGATAATG-AACGTATGGTTTGAAACTAATTAACAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* ** * * * * *
87517358 TACAATGTTAAAATTGAAAAATTTAGGTTAAAAATGGTTATCATGGTGTTGGCATCAATCTTGAG
66 TACAATGTTAAAA-TAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAG
* * *
87517423 TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATCCCTAT
130 TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTAT
* *
87517488 CACATGCATATGCGTGTGAAAA-GAAAAATTTGTGAACACAAATGTGTGATTAAA
195 CACATGCATATGCGTGTGAAAACAAAAAATTT-TGAACACAAATGTGTGTTTAAA
* * *
87517542 AAGAGCATACAATAGATAATGAAACGTATGGTTTGAAAATAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
*
87517607 TACAATGTTAAAATAATAAGAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGA
66 TACAATGTTAAAATAA-AA-AAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGA
* *
87517672 GTGGGTGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAGTAGAA-TCTTT
129 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTC-TT
*
87517736 ATCACATGCATATGTGTGTGAAAACAAAAAATTTTGAACACAAATGTGTGTTTAAA
193 ATCACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATGTGTGTTTAAA
* * * * * *
87517792 AATAACAGAAAATAGATAATGAAATGTATGGTTTGAAATTAATTAATAATAACACACGAAACATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
** * *
87517857 TATGATGTTAAAATGAAAAAAAATAAATTAAAATTTTTTATCATGATGTTGTCATCAATCTTGAG
66 TACAATGTTAAAAT-AAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAG
* ** * * *
87517922 TTGATGTCGAGTTAACTTATGTTACCAAATCAATCAAACACATTTATATATAATAGAATTCTTAT
130 TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTAT
* * ** * *
87517987 CACACGCATATGCGTGTGAATACAAAAAAAATTGAACACAAATCTGTGTTCAAA
195 CACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATGTGTGTTTAAA
* * **
87518041 TATAACATACAATAGATAACGAAATATATGGTTTGAAACTAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* *
87518106 TACAATGTTAAAATACAAAAAA-AGATTAAAATTGTTTATCAT-AGTTTTGTCATCAATCTTGAG
66 TACAATGTTAAAATAAAAAAAATAGATTAAAATTGTTTATCATGA-TGTTGTCATCAATCTTGAG
*
87518169 TTGATGTCGA
130 TGGATGTCGA
87518179 TTACACACAC
Statistics
Matches: 569, Mismatches: 60, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
246 1 0.00
247 46 0.08
248 28 0.05
249 270 0.47
250 214 0.38
251 10 0.02
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (248 bp):
AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
TACAATGTTAAAATAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAGT
GGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTATC
ACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATGTGTGTTTAAA
Found at i:87524651 original size:28 final size:28
Alignment explanation
Indices: 87524618--87524673 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
87524608 AATATAATTA
*
87524618 TTTTATATTAAATAATATTAAAATATTT
1 TTTTATATAAAATAATATTAAAATATTT
* *
87524646 TTTTATATAAAATTATATTACAATATTT
1 TTTTATATAAAATAATATTAAAATATTT
87524674 AAAATATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTTATATAAAATAATATTAAAATATTT
Found at i:87525892 original size:3 final size:3
Alignment explanation
Indices: 87525884--87525924 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
87525874 TCACCTCTAG
87525884 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
87525925 AGTAGAATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:87528590 original size:20 final size:20
Alignment explanation
Indices: 87528556--87528602 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
87528546 ATATTGTTAC
87528556 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
87528576 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
87528596 TATTATT
1 TATTATT
87528603 ACTAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:87528599 original size:23 final size:21
Alignment explanation
Indices: 87528557--87528602 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
87528547 TATTGTTACT
87528557 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
87528578 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
87528597 ATTATT
1 ATTATT
87528603 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:87528665 original size:13 final size:14
Alignment explanation
Indices: 87528641--87528671 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
87528631 ATTATTATCA
87528641 ATATTAATATATGT
1 ATATTAATATATGT
87528655 ATATT-ATATATGT
1 ATATTAATATATGT
87528668 ATAT
1 ATAT
87528672 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:87528768 original size:12 final size:12
Alignment explanation
Indices: 87528753--87528784 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
87528743 TATATTTCAT
*
87528753 TATTATTTTTAA
1 TATTATTATTAA
87528765 TATTATTATTAA
1 TATTATTATTAA
87528777 TATTATTA
1 TATTATTA
87528785 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:87528892 original size:26 final size:25
Alignment explanation
Indices: 87528800--87528908 Score: 80
Period size: 26 Copynumber: 4.3 Consensus size: 25
87528790 TATTTATTCC
* * *
87528800 TAATATGTATATTATGTA-AATGTCT
1 TAATAT-TATATTATATATAATTTTT
* *
87528825 TAATATTATATTATATGTATTTTTT
1 TAATATTATATTATATATAATTTTT
*
87528850 TATATATGT-TATGTATATA-AGTTTTT
1 TA-ATAT-TATAT-TATATATAATTTTT
* *
87528876 TAATATTATATTTTATACATATTTTT
1 TAATATTATATTATATATA-ATTTTT
87528902 TAATATT
1 TAATATT
87528909 TTTAGTTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
24 15 0.22
25 20 0.29
26 27 0.40
27 6 0.09
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (25 bp):
TAATATTATATTATATATAATTTTT
Found at i:87528964 original size:21 final size:20
Alignment explanation
Indices: 87528931--87528973 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
87528921 TTTTATATAC
87528931 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
87528951 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
87528972 TA
1 TA
87528974 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:87535341 original size:21 final size:21
Alignment explanation
Indices: 87535319--87535358 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
87535309 TAAATCAGTA
*
87535319 AAATACTTA-ATAAATAATAT
1 AAATACATACATAAATAATAT
*
87535339 AAATACATACATTAATAATA
1 AAATACATACATAAATAATA
87535359 GTATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATACATACATAAATAATAT
Found at i:87535932 original size:8 final size:9
Alignment explanation
Indices: 87535855--87536071 Score: 75
Period size: 9 Copynumber: 22.7 Consensus size: 9
87535845 AAAAAATCAT
87535855 TAAAAATTA
1 TAAAAATTA
87535864 TAAAAATT-
1 TAAAAATTA
*
87535872 TAAAAATAA
1 TAAAAATTA
87535881 T-AAAATTGA
1 TAAAAATT-A
* *
87535890 CATAAACTTA
1 TA-AAAATTA
** *
87535900 TGGAACTTA
1 TAAAAATTA
*
87535909 CAAAAAATTA
1 -TAAAAATTA
87535919 TAAAAATTA
1 TAAAAATTA
*
87535928 TAAAACATCA
1 TAAAA-ATTA
**
87535938 TCAAATTTTA
1 T-AAAAATTA
* *
87535948 TAGATATTA
1 TAAAAATTA
87535957 TAAAAAATT-
1 T-AAAAATTA
87535966 TATAAAATTA
1 TA-AAAATTA
87535976 -AGAAAGCA-TA
1 TA-AAA--ATTA
*
87535986 TAAAACATATT
1 TAAAA-AT-TA
*
87535997 TAAAATTTTA
1 TAAAA-ATTA
87536007 TAAAAAAAATTA
1 T---AAAAATTA
87536019 TAAAAACTTA
1 TAAAAA-TTA
*
87536029 TAAAAAATA
1 TAAAAATTA
87536038 TAAAAATTA
1 TAAAAATTA
* *
87536047 AAAAAATTC
1 TAAAAATTA
*
87536056 TAAAAAATTC
1 T-AAAAATTA
87536066 TAAAAA
1 TAAAAA
87536072 AATTCTAAAT
Statistics
Matches: 157, Mismatches: 31, Indels: 40
0.69 0.14 0.18
Matches are distributed among these distances:
8 13 0.08
9 76 0.48
10 43 0.27
11 17 0.11
12 4 0.03
13 4 0.03
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:87535932 original size:19 final size:19
Alignment explanation
Indices: 87535846--87536072 Score: 87
Period size: 19 Copynumber: 11.8 Consensus size: 19
87535836 TTTTATCCTA
* *
87535846 AAAAATCATTAAAAATTAT
1 AAAAATTATAAAAAATTAT
*
87535865 AAAAATT-T-AAAAATAAT
1 AAAAATTATAAAAAATTAT
* * *
87535882 -AAAATTGACATAAACTTAT
1 AAAAATT-ATAAAAAATTAT
** * *
87535901 GGAACTTACAAAAAATTAT
1 AAAAATTATAAAAAATTAT
* *
87535920 AAAAATTATAAAACATCAT
1 AAAAATTATAAAAAATTAT
* * * *
87535939 -CAAATTTTATAGATATTAT
1 AAAAATTATA-AAAAATTAT
*
87535958 AAAAAATT-TATAAAATTA-
1 -AAAAATTATAAAAAATTAT
87535976 AGAAAGCA-TATAAAACATATT-T
1 A-AAA--ATTATAAAA-A-ATTAT
*
87535998 AAAATTTTATAAAAAAAATTAT
1 AAAA-ATTAT--AAAAAATTAT
87536020 AAAAACTTATAAAAAA-TAT
1 AAAAA-TTATAAAAAATTAT
*
87536039 AAAAATTA-AAAAAATTCT
1 AAAAATTATAAAAAATTAT
*
87536057 AAAAAATTCTAAAAAA
1 -AAAAATTATAAAAAA
87536073 ATTCTAAATC
Statistics
Matches: 155, Mismatches: 31, Indels: 43
0.68 0.14 0.19
Matches are distributed among these distances:
16 6 0.04
17 15 0.10
18 16 0.10
19 62 0.40
20 23 0.15
21 15 0.10
22 14 0.09
23 4 0.03
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:87536022 original size:22 final size:21
Alignment explanation
Indices: 87535984--87536035 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
87535974 TAAGAAAGCA
* * **
87535984 TATAAAACATATTTAAAATTT
1 TATAAAAAAAATTTAAAAACT
87536005 TATAAAAAAAATTATAAAAACT
1 TATAAAAAAAATT-TAAAAACT
87536027 TATAAAAAA
1 TATAAAAAA
87536036 TATAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TATAAAAAAAATTTAAAAACT
Found at i:87536023 original size:10 final size:10
Alignment explanation
Indices: 87536010--87536072 Score: 78
Period size: 10 Copynumber: 6.6 Consensus size: 10
87536000 AATTTTATAA
87536010 AAAAAATTAT
1 AAAAAATTAT
*
87536020 AAAAACTTAT
1 AAAAAATTAT
87536030 AAAAAA-TAT
1 AAAAAATTAT
87536039 -AAAAATTA-
1 AAAAAATTAT
*
87536047 AAAAAATTCT
1 AAAAAATTAT
*
87536057 AAAAAATTCT
1 AAAAAATTAT
87536067 AAAAAA
1 AAAAAA
87536073 ATTCTAAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
8 5 0.11
9 12 0.26
10 30 0.64
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:87536076 original size:11 final size:11
Alignment explanation
Indices: 87536045--87536080 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
87536035 ATATAAAAAT
87536045 TAAAAAAATTC
1 TAAAAAAATTC
87536056 T-AAAAAATTC
1 TAAAAAAATTC
87536066 TAAAAAAATTC
1 TAAAAAAATTC
87536077 TAAA
1 TAAA
87536081 TCATAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:87538903 original size:20 final size:20
Alignment explanation
Indices: 87538874--87538914 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
87538864 AGTTAGCATT
87538874 TATTTAAAAATTA-TAAAAA
1 TATTTAAAAATTACTAAAAA
87538893 TATTATAAAAATTACTAAAAA
1 TATT-TAAAAATTACTAAAAA
87538914 T
1 T
87538915 GTATGTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TATTTAAAAATTACTAAAAA
Found at i:87541316 original size:22 final size:21
Alignment explanation
Indices: 87541274--87541316 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
87541264 TATAATAGTT
*
87541274 CAAATAAATAAGTTTTCTAAA
1 CAAATAAATAAATTTTCTAAA
87541295 CAAATTAAATAAATGTTT-TAAA
1 CAAA-TAAATAAAT-TTTCTAAA
87541317 AGGACCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (21 bp):
CAAATAAATAAATTTTCTAAA
Found at i:87547242 original size:40 final size:41
Alignment explanation
Indices: 87547171--87547397 Score: 268
Period size: 40 Copynumber: 5.7 Consensus size: 41
87547161 TTCTAACACG
* * * * *
87547171 AGCCTACGGGTCTTT-AACCCGGATTCCATTCCAGTACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* *
87547210 AGCCTGCGGGTTTTTAAACCCAGATACAATTCCAGCA-TAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* * *
87547250 AGTCTGCGAGTCTTTAAACCCGGATACAACTCCAGCA-TAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
*
87547290 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAACA-TAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* * *
87547330 AGCCTGCGGGTCTTTAAACCTGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* *
87547370 AGCCTGCGGGTCTTGAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
87547398 CACATCAAAT
Statistics
Matches: 161, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
39 14 0.09
40 146 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
Found at i:87550332 original size:48 final size:48
Alignment explanation
Indices: 87550180--87550304 Score: 232
Period size: 48 Copynumber: 2.6 Consensus size: 48
87550170 TGTGCCTATG
87550180 TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
*
87550228 TAAGACCATGTTTGGGACATGGCATCGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
*
87550276 TAAGACCATGTTTGGAACATGGCATTGGC
1 TAAGACCATGTTTGGGACATGGCATTGGC
87550305 ACTGACATGA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
Found at i:87552978 original size:25 final size:25
Alignment explanation
Indices: 87552944--87552995 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
87552934 AATCTTTACA
87552944 TTGACTCATATTTGGACCAACTGCC
1 TTGACTCATATTTGGACCAACTGCC
87552969 TTGACTCATATTTGGACCAACTGCC
1 TTGACTCATATTTGGACCAACTGCC
87552994 TT
1 TT
87552996 ATCGAGCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (25 bp):
TTGACTCATATTTGGACCAACTGCC
Found at i:87562592 original size:23 final size:23
Alignment explanation
Indices: 87562562--87562647 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 23
87562552 CCATAACTCA
*
87562562 TATGAGCTTACCGTTTTAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
*
87562585 TATGAGCTTACC-ATTCAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
** * *
87562607 TCGGAGTTTACCGTTTCA-ATCCT
1 TATGAGCTTACCGTTTCAGCT-CT
* *
87562630 TAGGGGCTTACCGTTTCA
1 TATGAGCTTACCGTTTCA
87562648 ATTTTACGGA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (23 bp):
TATGAGCTTACCGTTTCAGCTCT
Found at i:87562661 original size:23 final size:24
Alignment explanation
Indices: 87562608--87562664 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
87562598 TTCAGCTCTT
*
87562608 CGGAGTTTACCGTTTCAATCCTTA
1 CGGAGCTTACCGTTTCAATCCTTA
* *
87562632 -GGGGCTTACCGTTTCAAT-TTTA
1 CGGAGCTTACCGTTTCAATCCTTA
87562654 CGGAGCTTACC
1 CGGAGCTTACC
87562665 ATTTATCGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
CGGAGCTTACCGTTTCAATCCTTA
Found at i:87564720 original size:19 final size:17
Alignment explanation
Indices: 87564687--87564739 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
87564677 AATCAAAATG
*
87564687 AATTAAAATTAAAAAGA
1 AATTAAAATTAAAAAAA
87564704 AATTATAAATTATAAAAAA
1 AATTA-AAATTA-AAAAAA
* *
87564723 AATCAAATATGAAAAAA
1 AATTAAA-ATTAAAAAA
87564740 TTAAAAAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.17
18 13 0.43
19 12 0.40
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (17 bp):
AATTAAAATTAAAAAAA
Found at i:87566207 original size:15 final size:16
Alignment explanation
Indices: 87566180--87566210 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87566170 GACGATAAAA
87566180 ATATTTTTCATTATAT
1 ATATTTTTCATTATAT
87566196 ATATTTTT-ATTATAT
1 ATATTTTTCATTATAT
87566211 TACTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTTTTCATTATAT
Found at i:87587951 original size:12 final size:12
Alignment explanation
Indices: 87587934--87587958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87587924 TTGTGAAAAT
87587934 AAAATAAAATAA
1 AAAATAAAATAA
87587946 AAAATAAAATAA
1 AAAATAAAATAA
87587958 A
1 A
87587959 GAACACAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:87620046 original size:55 final size:55
Alignment explanation
Indices: 87619934--87620055 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
87619924 TGACATGGCA
* * *
87619934 GTGGTCGAACCTGCCAAAACAACACGGGCGTGCGACACGTCCGTGTGGAAGAACC
1 GTGGTCGAACCTGCCAAAAAAACACGGGCGTGCGACACGCCCGTGTGCAAGAACC
** * *
87619989 GTGGGT-GAACCTGTTAAAAAAACACGGGCGTGCGACACGCCCGTGT-CTAGCACCC
1 GT-GGTCGAACCTGCCAAAAAAACACGGGCGTGCGACACGCCCGTGTGCAAG-AACC
87620044 GTGGTCGAACCT
1 GTGGTCGAACCT
87620056 ATTAGATTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
54 5 0.09
55 49 0.86
56 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.30, T:0.16
Consensus pattern (55 bp):
GTGGTCGAACCTGCCAAAAAAACACGGGCGTGCGACACGCCCGTGTGCAAGAACC
Found at i:87635250 original size:16 final size:16
Alignment explanation
Indices: 87635229--87635283 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
87635219 GGGCTTAAGG
87635229 GCATTTTGGTCATTTA
1 GCATTTTGGTCATTTA
*
87635245 GCATTTTGGTCATTTT
1 GCATTTTGGTCATTTA
* *
87635261 GCATTTGGGTCATTTG
1 GCATTTTGGTCATTTA
87635277 GCATTTT
1 GCATTTT
87635284 AATGAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.51
Consensus pattern (16 bp):
GCATTTTGGTCATTTA
Found at i:87636716 original size:31 final size:31
Alignment explanation
Indices: 87636681--87636742 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
87636671 TATTGCTTAT
87636681 TATGGTTGTATGTTAATTATCGGTAAGTTTA
1 TATGGTTGTATGTTAATTATCGGTAAGTTTA
*
87636712 TATGGTTGTATGTTAATTATCGGTGAGTTTA
1 TATGGTTGTATGTTAATTATCGGTAAGTTTA
87636743 CTTTCTAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (31 bp):
TATGGTTGTATGTTAATTATCGGTAAGTTTA
Found at i:87639892 original size:21 final size:21
Alignment explanation
Indices: 87639866--87639906 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87639856 AAACAATCAT
* *
87639866 AAAAAGTATTGATACCTTTTC
1 AAAAAGTATGGACACCTTTTC
87639887 AAAAAGTATGGACACCTTTT
1 AAAAAGTATGGACACCTTTT
87639907 ACTAGGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
AAAAAGTATGGACACCTTTTC
Found at i:87640449 original size:37 final size:37
Alignment explanation
Indices: 87640379--87640450 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
87640369 AAGTTGAGTC
* * *
87640379 TTAAGGTTTAGGTAGAAACCTTAAGTGAGTTGTAATA
1 TTAAGATTTAGGTAGAAACCTTAAGGGAATTGTAATA
* * *
87640416 TTAAGATTTGGGTAGAAACGTTATGGGAATTGTAA
1 TTAAGATTTAGGTAGAAACCTTAAGGGAATTGTAA
87640451 GGTTAAACAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (37 bp):
TTAAGATTTAGGTAGAAACCTTAAGGGAATTGTAATA
Found at i:87642878 original size:16 final size:16
Alignment explanation
Indices: 87642857--87642899 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
87642847 GGAGTTTTGA
87642857 GTTTTCTTTATGTTTT
1 GTTTTCTTTATGTTTT
87642873 GTTTTCTTTATGTTTT
1 GTTTTCTTTATGTTTT
*
87642889 GTATTCTTTAT
1 GTTTTCTTTAT
87642900 TATTCTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.07, G:0.12, T:0.72
Consensus pattern (16 bp):
GTTTTCTTTATGTTTT
Found at i:87646415 original size:40 final size:40
Alignment explanation
Indices: 87646223--87646448 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
87646213 TTGAATGATG
* * * * *
87646223 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
87646263 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
87646303 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
87646343 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
87646383 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
87646424 -CCGGGGTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
87646449 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87646454 original size:40 final size:40
Alignment explanation
Indices: 87646279--87646481 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
87646269 CTAAGATCCA
* **
87646279 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCG
1 AAGGCATTTGTACGAGTTACTAAATCCGGGTTAAG-TCCCG
*
87646319 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCCG
*
87646359 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCCG
* *
87646399 AAGGCATTTGTACGAGTTACTATAA-CCGGGGTATGTCCCG
1 AAGGCATTTGTACGAGTTACTA-AATCCGGGTTAAGTCCCG
* * * *
87646439 AAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCG
1 AAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAGTCCCG
87646478 AAGG
1 AAGG
87646482 TACGTGATTT
Statistics
Matches: 148, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 16 0.11
40 130 0.88
41 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCCG
Found at i:87646455 original size:120 final size:120
Alignment explanation
Indices: 87646223--87646481 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 120
87646213 TTGAATGATG
* *
87646223 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
* **
87646288 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * ** *
87646343 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCAT
** * *
87646406 TTGTACGAGTTACTATAA-CCGGGGTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
87646463 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
87646482 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
119 18 0.15
120 90 0.77
121 9 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:87649594 original size:26 final size:26
Alignment explanation
Indices: 87649564--87649652 Score: 160
Period size: 26 Copynumber: 3.4 Consensus size: 26
87649554 TGAAATTCCC
87649564 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87649590 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87649616 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87649642 ATCATGGAACA
1 ATCATGGAACA
87649653 ATTATCAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87655103 original size:21 final size:21
Alignment explanation
Indices: 87655079--87655118 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
87655069 CCAATCCCAT
87655079 GCAT-CAGATAATAACAACATG
1 GCATGCAG-TAATAACAACATG
87655100 GCATGCAGTAATAACAACA
1 GCATGCAGTAATAACAACA
87655119 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (21 bp):
GCATGCAGTAATAACAACATG
Found at i:87656681 original size:26 final size:26
Alignment explanation
Indices: 87656651--87656732 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
87656641 TAAAATTCCC
87656651 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87656677 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87656703 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87656729 ATCA
1 ATCA
87656733 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87657619 original size:17 final size:17
Alignment explanation
Indices: 87657586--87657620 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
87657576 ATTTGAGTAA
*
87657586 ATTTACTTATCGTATTC
1 ATTTACTTATCGCATTC
*
87657603 ATTTACTTATTGCATTC
1 ATTTACTTATCGCATTC
87657620 A
1 A
87657621 CTTAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTACTTATCGCATTC
Found at i:87664283 original size:40 final size:41
Alignment explanation
Indices: 87664232--87664314 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
87664222 TAAATGTTCA
*
87664232 ATTTTTGCATATTTTATAATCTTCTATGATTAATATACATT
1 ATTTTTGCATATTTTACAATCTTCTATGATTAATATACATT
87664273 ATTTTT-CATATTTTACAATCTTCTATGATTAATATACATT
1 ATTTTTGCATATTTTACAATCTTCTATGATTAATATACATT
87664313 AT
1 AT
87664315 GCTTTTATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 35 0.85
41 6 0.15
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.53
Consensus pattern (41 bp):
ATTTTTGCATATTTTACAATCTTCTATGATTAATATACATT
Found at i:87667769 original size:36 final size:36
Alignment explanation
Indices: 87667717--87667820 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
87667707 AGTCCTTCTT
*
87667717 TGAGTGTTCTTTCTTTTTACAAAAGAAACACTTGGA
1 TGAGTGTCCTTTCTTTTTACAAAAGAAACACTTGGA
*
87667753 TGAGTGTCCTTACTTTTTACAAAAGAAACACTTGGA
1 TGAGTGTCCTTTCTTTTTACAAAAGAAACACTTGGA
*
87667789 CGAGTGTCCTTTCTTTTTACAAAAGAAACACT
1 TGAGTGTCCTTTCTTTTTACAAAAGAAACACT
87667821 CAGACTCTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (36 bp):
TGAGTGTCCTTTCTTTTTACAAAAGAAACACTTGGA
Found at i:87671257 original size:8 final size:8
Alignment explanation
Indices: 87671244--87671268 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
87671234 ATTTTAAATG
87671244 TGGATCAT
1 TGGATCAT
87671252 TGGATCAT
1 TGGATCAT
87671260 TGGATCAT
1 TGGATCAT
87671268 T
1 T
87671269 TTATTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (8 bp):
TGGATCAT
Found at i:87675257 original size:20 final size:20
Alignment explanation
Indices: 87675185--87675258 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
87675175 ATTAAGGTTA
87675185 AAATGGATAT-TTATC-TATT
1 AAAT-GATATATTATCATATT
**
87675204 AAATGATATATTATCATAAAA
1 AAATGATATATTATCAT-ATT
87675225 AAATGA-A-A-T-TCATATT
1 AAATGATATATTATCATATT
87675241 AAATGATATATTATCATA
1 AAATGATATATTATCATA
87675259 AAAAAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
16 7 0.16
17 5 0.11
18 7 0.16
19 11 0.25
20 7 0.16
21 7 0.16
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (20 bp):
AAATGATATATTATCATATT
Found at i:87678523 original size:12 final size:12
Alignment explanation
Indices: 87678506--87678530 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87678496 AGAATAGATA
87678506 TATATATATATG
1 TATATATATATG
87678518 TATATATATATG
1 TATATATATATG
87678530 T
1 T
87678531 GGCGAAGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:87694607 original size:21 final size:21
Alignment explanation
Indices: 87694573--87694617 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
87694563 TGTTATTTAT
*
87694573 TTTAATTTATTTTTACATCAGA
1 TTTAATTTATTTTTAAAT-AGA
*
87694595 TTTACTTT-TTTTTAAATAGA
1 TTTAATTTATTTTTAAATAGA
87694615 TTT
1 TTT
87694618 GTAACACCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTAATTTATTTTTAAATAGA
Found at i:87701472 original size:36 final size:36
Alignment explanation
Indices: 87701425--87701493 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
87701415 TGGTCGTAAG
87701425 GCAAATTGAGCCCTAGATTTATTGGACCTTACCGTA
1 GCAAATTGAGCCCTAGATTTATTGGACCTTACCGTA
87701461 GCAAATTGAGCCCTAGATTTATTGGACCTTACC
1 GCAAATTGAGCCCTAGATTTATTGGACCTTACC
87701494 ATATTTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (36 bp):
GCAAATTGAGCCCTAGATTTATTGGACCTTACCGTA
Found at i:87709346 original size:50 final size:50
Alignment explanation
Indices: 87709275--87709375 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
87709265 GCTTTGGAAG
87709275 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
1 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
87709325 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
1 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
87709375 G
1 G
87709376 TTTTACTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.46
Consensus pattern (50 bp):
GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
Found at i:87711052 original size:38 final size:38
Alignment explanation
Indices: 87710871--87711606 Score: 728
Period size: 37 Copynumber: 20.1 Consensus size: 38
87710861 TTTACCCCCT
* *
87710871 AACC-TTTTT-AAGGTTGCCTTAGACGA-GTTTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87710906 AA-CTTGTTTT-AA-GTTGCCTTGGAAAAAAGTCTATCCC
1 AACCTT-TTTTAAAGGTTGCCTTAG-ACAAGGTCTATCCC
* * *
87710943 AACC-TTTTTAAA-GTTGCTTTAAACGA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * * *
87710978 AA-CATTTTT-AAGGTTGTCTTAGAC-ATGTCAATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * * *
87711013 AACCTTTTTTAAAAGTTTCCTTGGACAAGGCCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
87711051 AACC-TTTTT-AAGGTTACCTTAGACAA-ATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
*
87711086 AACC-TTTTT-AAGGTTGCCTTAGACAA-ATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
*
87711121 AACC-TTTTT-AAGGTTGCCATAGACAA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
87711156 AACCTTTTTTTAAGGTTGCCTTAAACAAGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87711194 AACATTTTTAAAAGGTTGCCTTAGAC-TGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
** *
87711231 AACAATTTTAAAAGGTTGCCTTAGACAA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
87711268 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
87711306 AA-TTTTTTTAAAAGGTTGCCTTAGAC-TGGTCTATCCC
1 AACCTTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87711343 AACCTTTTTTAGAGGTTTCCTTAGACAAGGTCTATACC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87711381 AACC-TTTTT-AAGGTTGCCTTAGACGA-TTCTATCCT
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87711416 AATCTTTTTTAAAGGTTTCCTTAGACAAGATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87711454 AACTTTTTTTAAAGGTTTCCTTAGACAAGTTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *** *
87711492 AACTTTTTTTAAAAGGTTATATTAGACTA-GTCTATCCC
1 AACCTTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCC
* *
87711530 TACC-TTTTT-AAGGTTGCCTTAGACGA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
87711565 AACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTTTCCC
1 AACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCC
87711603 AACC
1 AACC
87711607 CTTCAATAAG
Statistics
Matches: 596, Mismatches: 77, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
34 5 0.01
35 159 0.27
36 62 0.10
37 187 0.31
38 169 0.28
39 14 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (38 bp):
AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
Found at i:87711274 original size:112 final size:107
Alignment explanation
Indices: 87710826--87711606 Score: 709
Period size: 112 Copynumber: 7.1 Consensus size: 107
87710816 AGATAAAAGA
* * *** * * *
87710826 TCTATCCCAACCTTTCTAAGTTTGCCTTAGATGGGTTTACCCCCTAACCTTTTTAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTA-TCCC-AACATTTTTAAGGTTGCCTT
* * * *
87710891 AGAC-GAGTTTATCCCAA-CTTGTTT-TAA-GTTGCCTTGGAAAAAAG
64 AGACTG-GTCTATCCCAACCTT-TTTAAAAGGTTGCCTT--AGACAAG
* * * * *
87710935 TCTATCCCAACCTTTTTAAAGTTGCTTTAAACGAGTCTATCCCAACATTTTTAAGGTTGTCTTAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACATTTTTAAGGTTGCCTTAG
* * *
87711000 ACAT-GTCAATCCCAACCTTTTTTAAAA-GTTTCCTTGGACAAGG
66 AC-TGGTCTATCCCAACC-TTTTTAAAAGGTTGCCTTAGACAA-G
* * * *
87711043 CCTATCCCAACCTTTTTAAGGTTACCTTAGACAAATCTATCCCAACCTTTTTAAGGTTGCCTTAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACATTTTTAAGGTTGCCTTAG
*** *
87711108 ACAAATCTATCCCAACCTTTTT--AAGGTTGCCATAGACAAG
66 ACTGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAG
*
87711148 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAAACAAGGTCTATCCCAACATTTTTAAAAGGTTGC
1 TCTATCCCAACC--TTTTTAAGGTTGCCTTAGACAA-GTCTATCCCAACATTTTT--AAGGTTGC
**
87711213 CTTAGACTGGTCTATCCCAACAATTTTAAAAGGTTGCCTTAGACAAG
61 CTTAGACTGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAG
**
87711260 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAATTTTTTTAAAAGGTTGC
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAA-GTCTATCCCAACATTTTT--AAGGTTGC
* * *
87711325 CTTAGACTGGTCTATCCCAACCTTTTTTAGAGGTTTCCTTAGACAAGG
61 CTTAGACTGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAA-G
* * * * * *
87711373 TCTATACCAACCTTTTTAAGGTTGCCTTAGACGATTCTATCCTAATCTTTTTTAAAGGTTTCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAA-CATTTTT-AAGGTTGCCTT
* * * * *
87711438 AGACAAGATCTATCCCAACTTTTTTTAAAGGTTTCCTTAGACAAG
64 AGAC-TGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAG
* *** * * *
87711483 TTCTATCCCAACTTTTTTTAAAAGGTTATATTAGACTAGTCTATCCCTACCTTTTTAAGGTTGCC
1 -TCTATCCCAAC-CTTTTT--AAGGTTGCCTTAGACAAGTCTATCCCAACATTTTTAAGGTTGCC
* *
87711548 TTAGAC-GAGTCTATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
62 TTAGACTG-GTCTATCCCAACCTTTTTAAAAGGTT-GCCTTAGAC-AAG
*
87711595 TCTTTCCCAACC
1 TCTATCCCAACC
87711607 CTTCAATAAG
Statistics
Matches: 566, Mismatches: 80, Indels: 51
0.81 0.11 0.07
Matches are distributed among these distances:
105 14 0.02
106 11 0.02
107 59 0.10
108 93 0.16
109 42 0.07
110 56 0.10
111 109 0.19
112 143 0.25
113 18 0.03
114 21 0.04
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (107 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACATTTTTAAGGTTGCCTTAG
ACTGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAG
Found at i:87713639 original size:43 final size:43
Alignment explanation
Indices: 87713568--87713718 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
87713558 CATCTTAGAT
* ** * * * *
87713568 ATGGTCTTACATGTTATCACATATCGATGCCACTATCCTAGAC
1 ATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
* * *
87713611 AGGGTCTTACACGAAATCATATAACGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
* *
87713654 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATA-ACGATGCCAATGTCCCAGAC
* *
87713697 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGAAATCACAT
87713719 CTCGGTAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 89 0.99
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
Found at i:87717513 original size:15 final size:15
Alignment explanation
Indices: 87717472--87717515 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
87717462 GTTTCTCAGT
*
87717472 TTTCTTCTTCATCGC
1 TTTCTTCTTCTTCGC
*
87717487 TTTCTTCGTCTTCG-
1 TTTCTTCTTCTTCGC
87717501 TCTTCTTCTTCTTCG
1 T-TTCTTCTTCTTCG
87717516 GTGATTGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.02, C:0.32, G:0.09, T:0.57
Consensus pattern (15 bp):
TTTCTTCTTCTTCGC
Found at i:87723105 original size:15 final size:15
Alignment explanation
Indices: 87723082--87723126 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
87723072 ATAATTAATT
*
87723082 TGTATTATTATATTA
1 TGTAATATTATATTA
* *
87723097 TGTAATATTATAGTG
1 TGTAATATTATATTA
87723112 TGT-ATATTATATTA
1 TGTAATATTATATTA
87723126 T
1 T
87723127 AGGCGTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (15 bp):
TGTAATATTATATTA
Found at i:87725427 original size:23 final size:23
Alignment explanation
Indices: 87725401--87725450 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
87725391 TTGGAGGAAG
* *
87725401 CATTATGTCATTTTAGTGCAATT
1 CATTATGCCATTATAGTGCAATT
*
87725424 CATTTTGCCATTATAGTGCAATT
1 CATTATGCCATTATAGTGCAATT
87725447 CATT
1 CATT
87725451 CTGGCACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (23 bp):
CATTATGCCATTATAGTGCAATT
Found at i:87725681 original size:21 final size:23
Alignment explanation
Indices: 87725640--87725682 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
87725630 AAAGGATACG
87725640 TCATTCTAAATTGTGGATAAACA
1 TCATTCTAAATTGTGGATAAACA
*
87725663 TCATTCTCAA-TGT-GATAAAC
1 TCATTCTAAATTGTGGATAAAC
87725683 GAGCATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
TCATTCTAAATTGTGGATAAACA
Found at i:87733358 original size:19 final size:18
Alignment explanation
Indices: 87733336--87733394 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
87733326 ACCATCAAGG
87733336 CATCAAACTACCATAAATA
1 CATCAAAC-ACCATAAATA
87733355 CATC--A-ACCATAAA-A
1 CATCAAACACCATAAATA
*
87733369 GTATCAAACCACCATAAATA
1 -CATCAAA-CACCATAAATA
87733389 CATCAA
1 CATCAA
87733395 CTATAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 1 0.03
15 11 0.34
17 2 0.06
19 17 0.53
20 1 0.03
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.19
Consensus pattern (18 bp):
CATCAAACACCATAAATA
Found at i:87733360 original size:34 final size:34
Alignment explanation
Indices: 87733320--87733400 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
87733310 AGTCATACTA
* * *
87733320 ACATCAACCATCAAGGCATCAAACTACCATAAAT
1 ACATCAACCATAAAAGCATCAAACCACCATAAAT
*
87733354 ACATCAACCATAAAAGTATCAAACCACCATAAAT
1 ACATCAACCATAAAAGCATCAAACCACCATAAAT
*
87733388 ACATCAACTATAA
1 ACATCAACCATAA
87733401 TAACACTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.19
Consensus pattern (34 bp):
ACATCAACCATAAAAGCATCAAACCACCATAAAT
Found at i:87736873 original size:11 final size:11
Alignment explanation
Indices: 87736844--87736885 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
87736834 TATTTACAAA
*
87736844 GTTAATTAAGTG
1 GTTAATT-AGAG
87736856 GTTAATTAGAG
1 GTTAATTAGAG
*
87736867 TTTAATTA-AG
1 GTTAATTAGAG
87736877 GTTAATTAG
1 GTTAATTAG
87736886 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:87738520 original size:44 final size:44
Alignment explanation
Indices: 87738434--87738525 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
87738424 TGTTCAGGGA
* *
87738434 TACTTCGACCTTGAGTCAATGAGGCACTATAAGTATCATACTGT
1 TACTTCGACCTTGAGTCAATGAGGCACCATAAGTATCATACTGC
* ** * *
87738478 TACTTCGA-CTTCGAGTCGATGAGGCACCATGTGTGTCGTACTGC
1 TACTTCGACCTT-GAGTCAATGAGGCACCATAAGTATCATACTGC
87738522 TACT
1 TACT
87738526 GTTACATCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCAATGAGGCACCATAAGTATCATACTGC
Found at i:87738596 original size:47 final size:47
Alignment explanation
Indices: 87738514--87738614 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
87738504 CCATGTGTGT
** * *
87738514 CGTACTGCTACTGTTACATCGGTTTAGTCCGATGAGGTACTGAGTAC
1 CGTACTGCTACTGTTACATCGGTAAAGTCCAATGAGGCACTGAGTAC
* * **
87738561 CGTACTGTTACTGTTTACTTCGGTAAAG-CCAATGAGGCACTGAGTGT
1 CGTACTGCTACTG-TTACATCGGTAAAGTCCAATGAGGCACTGAGTAC
87738608 CGTACTG
1 CGTACTG
87738615 GTGTGTTGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 34 0.76
48 11 0.24
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (47 bp):
CGTACTGCTACTGTTACATCGGTAAAGTCCAATGAGGCACTGAGTAC
Found at i:87739879 original size:55 final size:55
Alignment explanation
Indices: 87739795--87739908 Score: 228
Period size: 55 Copynumber: 2.1 Consensus size: 55
87739785 CTGAACTACA
87739795 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
1 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
87739850 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
1 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
87739905 TAAT
1 TAAT
87739909 CCTGTTCTGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (55 bp):
TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
Found at i:87740094 original size:32 final size:32
Alignment explanation
Indices: 87740056--87740120 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
87740046 AATAAATGCA
87740056 TACTTAACAGTACAATCAGACATACATATCAG
1 TACTTAACAGTACAATCAGACATACATATCAG
87740088 TACTTAACAGTACAATCAGACATACATATCAG
1 TACTTAACAGTACAATCAGACATACATATCAG
87740120 T
1 T
87740121 TTCCTACTCA
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:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (32 bp):
TACTTAACAGTACAATCAGACATACATATCAG
Found at i:87748792 original size:21 final size:21
Alignment explanation
Indices: 87748768--87748842 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
87748758 ATGTTTTATT
* *
87748768 TTCTGTTTAGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTATGAGC
* *
87748789 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* *
87748810 TTTTGTCCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
87748831 TTCTATTCAGCT
1 TTCTGTTCAGCT
87748843 TTCAAGCTTC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:87749102 original size:10 final size:8
Alignment explanation
Indices: 87749087--87749125 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
87749077 TGATGGCACA
87749087 TGATATAT
1 TGATATAT
87749095 TGATATAT
1 TGATATAT
87749103 TGATATAT
1 TGATATAT
87749111 TGA-A-AT
1 TGATATAT
87749117 TGATGATAT
1 TGAT-ATAT
87749126 ATGTATACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.18
7 1 0.04
8 20 0.71
9 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (8 bp):
TGATATAT
Found at i:87755121 original size:63 final size:63
Alignment explanation
Indices: 87755042--87755169 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
87755032 CGTCCTGTGG
* * * *
87755042 TCATTTGAAATAGAGACCACAATACTCATGAAGCTATATTTAATAGCTTACTAAGTGAATAAA
1 TCATTCGAAATAGAGACCACAATACTCATGAAGCTATATTTAACAACTCACTAAGTGAATAAA
*
87755105 TCATTCGAAATAGAGACCACAATACTCATGAAGTTATATTTAACAACTCACTAAGTGAATAAA
1 TCATTCGAAATAGAGACCACAATACTCATGAAGCTATATTTAACAACTCACTAAGTGAATAAA
87755168 TC
1 TC
87755170 TACGGTATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (63 bp):
TCATTCGAAATAGAGACCACAATACTCATGAAGCTATATTTAACAACTCACTAAGTGAATAAA
Found at i:87755971 original size:99 final size:100
Alignment explanation
Indices: 87755789--87756020 Score: 283
Period size: 99 Copynumber: 2.3 Consensus size: 100
87755779 TCGTTTACTT
*
87755789 GATGCCATAGTCCAACTATGGTTTTACACGTAT-TCTACCATGGCCCTACCATGGTCTTACACTC
1 GATGCCATAGCCCAACTATGGTTTTACACGTATATCTACCATGGCCCTACCATGGTCTTACACTC
* *
87755853 ATAGTGCCATAACCTAGTTATTA-TCTTATCATCAG
66 ATAATGCCATAACCTAGTTA-CAGTCTTATCATCAG
* ** * *
87755888 GATGACATAGCCCAACTATGGTTTTACACGTATAT-TGTCATGGCCCTGCCATGGTCTTGCACTC
1 GATGCCATAGCCCAACTATGGTTTTACACGTATATCTACCATGGCCCTACCATGGTCTTACACTC
* ** *
87755952 GTAATGTGATAA-CTCAGTTACAGTCTTATCATTAG
66 ATAATGCCATAACCT-AGTTACAGTCTTATCATCAG
* **
87755987 GATGCCATAACCCTGCTATGGTTTTACACGTATA
1 GATGCCATAGCCCAACTATGGTTTTACACGTATA
87756021 CACATATATT
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
98 3 0.03
99 110 0.96
100 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (100 bp):
GATGCCATAGCCCAACTATGGTTTTACACGTATATCTACCATGGCCCTACCATGGTCTTACACTC
ATAATGCCATAACCTAGTTACAGTCTTATCATCAG
Found at i:87758021 original size:11 final size:11
Alignment explanation
Indices: 87758001--87758034 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
87757991 CTCCTTATAT
87758001 ATTA-AATAAA
1 ATTATAATAAA
87758011 ATTATAATAAA
1 ATTATAATAAA
*
87758022 CTTATAATAAA
1 ATTATAATAAA
87758033 AT
1 AT
87758035 ATCTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:87778278 original size:3 final size:3
Alignment explanation
Indices: 87778259--87778314 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
87778249 TTAAGGTTTG
* * * * *
87778259 AGA AAA AGA AAA AGA AGA AGA AGA AGA GGA GGA AG- AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
87778306 AGG AGA AGA
1 AGA AGA AGA
87778315 GAAAAAATGG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87778299 original size:20 final size:20
Alignment explanation
Indices: 87778274--87778321 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
87778264 AAGAAAAAGA
*
87778274 AGAAGAAGAAG-AGGAGGAAG
1 AGAAGAAAAAGAAGGA-GAAG
87778294 AGAAGAAAAAGAAGGAGAAG
1 AGAAGAAAAAGAAGGAGAAG
87778314 AGAA-AAAA
1 AGAAGAAAA
87778322 TGGATATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AGAAGAAAAAGAAGGAGAAG
Found at i:87782128 original size:21 final size:21
Alignment explanation
Indices: 87782104--87782157 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
87782094 AGCTTCTTGA
*
87782104 TGAGTTGGGGCAGTAGGTATC
1 TGAGTTGGGGCAGTAGGTAAC
* *
87782125 TGAGTTGAGGCAGTGGGTAAC
1 TGAGTTGGGGCAGTAGGTAAC
*
87782146 TGAATTGGGGCA
1 TGAGTTGGGGCA
87782158 CCTTGTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.09, G:0.43, T:0.26
Consensus pattern (21 bp):
TGAGTTGGGGCAGTAGGTAAC
Found at i:87782978 original size:43 final size:43
Alignment explanation
Indices: 87782857--87783038 Score: 255
Period size: 43 Copynumber: 4.3 Consensus size: 43
87782847 TTATAAAAAA
* * *
87782857 AATCATTGCATGCGTATTAAAAAATAGGCAACA-C--ACCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
87782897 AATCATTGCATGCATATTAAAAAAAATAGTCAACAGCTTTCCAAC
1 AATCATTGCATGCATATT--AAAAAATAGTCAACAGCTTTCCAAC
*
87782942 AATCATTACATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
* *
87782985 AATCATTGCATACATATTAAAAAA-AGTCAATAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
*
87783027 AATCAGTGCATG
1 AATCATTGCATG
87783039 TGATCAGCAA
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
40 17 0.13
42 41 0.32
43 48 0.38
45 22 0.17
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (43 bp):
AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
Found at i:87783007 original size:85 final size:83
Alignment explanation
Indices: 87782857--87783031 Score: 244
Period size: 85 Copynumber: 2.1 Consensus size: 83
87782847 TTATAAAAAA
* * *
87782857 AATCATTGCATGCGTATTAAAAAATAGGCAACACACCAACAATCATTGCATGCATATTAAAAAAA
1 AATCATTACATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATT-AAAAAA
87782922 ATAGTCAACAGCTTTCCAAC
65 A-AGTCAACAGCTTTCCAAC
* *
87782942 AATCATTACATGCATATTAAAAAATAGTCAACAGCTTTCCAACAATCATTGCATACATATT-AAA
1 AATCATTACATGCATATTAAAAAATAGGCAACA-C--ACCAACAATCATTGCATACATATTAAAA
*
87783006 AAAAGTCAATAGCTTTCCAAC
63 AAAAGTCAACAGCTTTCCAAC
87783027 AATCA
1 AATCA
87783032 GTGCATGTGA
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
85 52 0.64
86 7 0.09
88 22 0.27
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (83 bp):
AATCATTACATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAAA
AGTCAACAGCTTTCCAAC
Found at i:87784701 original size:15 final size:15
Alignment explanation
Indices: 87784681--87784724 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
87784671 ATACATCACT
87784681 ATCACTACCAGACAC
1 ATCACTACCAGACAC
87784696 ATCACTACCAGACAC
1 ATCACTACCAGACAC
87784711 ATCACTACCAGACA
1 ATCACTACCAGACA
87784725 TGTTTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.41, C:0.39, G:0.07, T:0.14
Consensus pattern (15 bp):
ATCACTACCAGACAC
Found at i:87785100 original size:47 final size:48
Alignment explanation
Indices: 87785029--87785149 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
87785019 AATAAACATC
*
87785029 ATGGCAGATATACACAATAAACATCAGCTTGATAAT-GCATTCATACA
1 ATGGCAGATATACACAATAAACATCAACTTGATAATGGCATTCATACA
* * *
87785076 ATGGCAGATATACGCAATACACATCAATTTGATAATGGCATTCATACA
1 ATGGCAGATATACACAATAAACATCAACTTGATAATGGCATTCATACA
* * * *
87785124 ATGGAAGAAACAAACAATAAACATCA
1 ATGGCAGATATACACAATAAACATCA
87785150 TGCATATAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 32 0.51
48 31 0.49
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (48 bp):
ATGGCAGATATACACAATAAACATCAACTTGATAATGGCATTCATACA
Found at i:87785142 original size:48 final size:47
Alignment explanation
Indices: 87785042--87785149 Score: 135
Period size: 48 Copynumber: 2.3 Consensus size: 47
87785032 GCAGATATAC
* * * * *
87785042 ACAATAAACATCAGCTTGATAATGCATTCATACAATGGCAGATATAC
1 ACAATAAACATCAACTTGATAATGCATTCATACAATGGAAGAAACAA
* * *
87785089 GCAATACACATCAATTTGATAATGGCATTCATACAATGGAAGAAACAA
1 ACAATAAACATCAACTTGATAAT-GCATTCATACAATGGAAGAAACAA
87785137 ACAATAAACATCA
1 ACAATAAACATCA
87785150 TGCATATAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 19 0.38
48 31 0.62
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (47 bp):
ACAATAAACATCAACTTGATAATGCATTCATACAATGGAAGAAACAA
Found at i:87785213 original size:6 final size:6
Alignment explanation
Indices: 87785204--87785269 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
87785194 ATCCAGATCG
* * * * * * ** *
87785204 AAATCA AAATCA AATTCT AAGTCT AAATCG AGATCA AAATTG GAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
87785252 AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA
87785270 GTGAGTGTTT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:87785266 original size:24 final size:25
Alignment explanation
Indices: 87785204--87785267 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
87785194 ATCCAGATCG
* *
87785204 AAATCAAAATC-AAATTCTAAGTCT
1 AAATCAAAATCAAAATTCGAAGTCA
* * *
87785228 AAATCGAGATCAAAATTGGAA-TCA
1 AAATCAAAATCAAAATTCGAAGTCA
87785252 AAATCAAAATCAAAAT
1 AAATCAAAATCAAAAT
87785268 CAGTGAGTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (25 bp):
AAATCAAAATCAAAATTCGAAGTCA
Found at i:87785345 original size:12 final size:12
Alignment explanation
Indices: 87785287--87785339 Score: 79
Period size: 12 Copynumber: 4.4 Consensus size: 12
87785277 TTTTAGAATT
87785287 GAAATCAAAATC
1 GAAATCAAAATC
87785299 GAAATCAAAATC
1 GAAATCAAAATC
*
87785311 GAAATCAGAATC
1 GAAATCAAAATC
* *
87785323 GAAATTAAAATT
1 GAAATCAAAATC
87785335 GAAAT
1 GAAAT
87785340 AGAAATAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (12 bp):
GAAATCAAAATC
Found at i:87785911 original size:30 final size:31
Alignment explanation
Indices: 87785844--87785911 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
87785834 TTGTTAACCG
* *
87785844 GTGACTATTTTGTCACTTTTTAATAACGTTG
1 GTGACTGTTTTGTCACTTTTTAATAACGTTA
* *
87785875 GTGACTGTTTTGTTACTTTTTGA-AA-GTTAA
1 GTGACTGTTTTGTCACTTTTTAATAACGTT-A
87785905 GTGACTG
1 GTGACTG
87785912 AAATGAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 9 0.28
31 20 0.62
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (31 bp):
GTGACTGTTTTGTCACTTTTTAATAACGTTA
Found at i:87786475 original size:4 final size:4
Alignment explanation
Indices: 87786459--87786498 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
87786449 TTATAACATT
87786459 TTTA TTTA CTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
87786499 TGTGTATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:87796580 original size:19 final size:19
Alignment explanation
Indices: 87796543--87796582 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87796533 TAAAATTCCA
* *
87796543 GTGTATTTAGGTCATTTTG
1 GTGTATTTAGGCCAGTTTG
*
87796562 GTGTATTTCGGCCAGTTTG
1 GTGTATTTAGGCCAGTTTG
87796581 GT
1 GT
87796583 CAATACCGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.30, T:0.47
Consensus pattern (19 bp):
GTGTATTTAGGCCAGTTTG
Found at i:87798725 original size:16 final size:14
Alignment explanation
Indices: 87798694--87798734 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
87798684 TTTATCCTAA
*
87798694 TCTCTCAATTTTC-
1 TCTCTAAATTTTCT
87798707 TCTC-AAATTCTTCT
1 TCTCTAAATT-TTCT
87798721 TCTCTAAATTTTCT
1 TCTCTAAATTTTCT
87798735 ATCTAACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 7 0.29
14 8 0.33
15 5 0.21
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCTAAATTTTCT
Found at i:87798739 original size:13 final size:13
Alignment explanation
Indices: 87798694--87798740 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
87798684 TTTATCCTAA
*
87798694 TCTCTCAATTTTC
1 TCTCTAAATTTTC
87798707 TCTC-AAATTCTTC
1 TCTCTAAATT-TTC
87798720 TTCTCTAAATTTTC
1 -TCTCTAAATTTTC
*
87798734 TATCTAA
1 TCTCTAA
87798741 CAGTTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 7 0.24
15 5 0.17
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (13 bp):
TCTCTAAATTTTC
Found at i:87798828 original size:15 final size:15
Alignment explanation
Indices: 87798808--87798837 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87798798 ATAAGTATTT
*
87798808 TTTTTAATTTGTTTA
1 TTTTTAATATGTTTA
87798823 TTTTTAATATGTTTA
1 TTTTTAATATGTTTA
87798838 ATGATATTTT
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:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTAATATGTTTA
Found at i:87800051 original size:23 final size:23
Alignment explanation
Indices: 87800025--87800072 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
87800015 ACTGCAGTTT
87800025 GAAAAGATGTCATACTTTGATCC
1 GAAAAGATGTCATACTTTGATCC
87800048 GAAAAGATGTCATACTTTGATCC
1 GAAAAGATGTCATACTTTGATCC
87800071 GA
1 GA
87800073 GAATTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (23 bp):
GAAAAGATGTCATACTTTGATCC
Found at i:87800803 original size:16 final size:15
Alignment explanation
Indices: 87800784--87800813 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
87800774 TTTAGATTAG
87800784 TTTTTATTTAAAAATA
1 TTTTT-TTTAAAAATA
87800800 TTTTTTTTAAAAAT
1 TTTTTTTTAAAAAT
87800814 GCAATGCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTTTAAAAATA
Found at i:87807371 original size:25 final size:25
Alignment explanation
Indices: 87807299--87807372 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
87807289 AAATAATGAC
*
87807299 TTTAATTTGTTTACTCATCTTCACA
1 TTTAATTTGTTTACTCATCTTCGCA
*
87807324 TTTAATTTGTTTACGCATCTTCGCA
1 TTTAATTTGTTTACTCATCTTCGCA
*
87807349 TTTAATTTGTTTACTCATATTCGC
1 TTTAATTTGTTTACTCATCTTCGC
87807373 CAAAAAAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (25 bp):
TTTAATTTGTTTACTCATCTTCGCA
Found at i:87814216 original size:30 final size:30
Alignment explanation
Indices: 87814176--87814272 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 30
87814166 AATGACGATG
* *
87814176 CGGGCTCATCAACAGCACCCACACAATTAC
1 CGGGCCCATCAACAGCGCCCACACAATTAC
* * * *
87814206 CGGGCCCATCAA-AGGGTCCATACAATCAC
1 CGGGCCCATCAACAGCGCCCACACAATTAC
* * *
87814235 CAGACCCATCAACAGCGCCCACACAGTTAC
1 CGGGCCCATCAACAGCGCCCACACAATTAC
87814265 CGGGCCCA
1 CGGGCCCA
87814273 ACACTTCAAC
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 22 0.43
30 29 0.57
ACGTcount: A:0.31, C:0.40, G:0.18, T:0.11
Consensus pattern (30 bp):
CGGGCCCATCAACAGCGCCCACACAATTAC
Found at i:87818167 original size:126 final size:126
Alignment explanation
Indices: 87817946--87818411 Score: 614
Period size: 126 Copynumber: 3.7 Consensus size: 126
87817936 GGAATTGCTG
*
87817946 TAGAAAAAGAGCGTCCACATGAGAGCTTTTTT-AGTACTTTTGCTAACAGTGCAT-CTGGCTTGA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCT-GCTTGA
* * * * * *
87818009 AGTGTATTTGACACTAGTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGAAACAACTG
65 AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTA
* * *
87818071 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGTTGACAGTGCATCCTGCTTGAA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
*
87818136 GCGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA-TTTTTCAGAAACTACTA
66 GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTA
* * ** * * * * **
87818196 TTGAAAAAAAAAGTCCGCGTGGGAGCTTTTTTCAGTACTTTTGTTGACAGCACATCCTGCTTGAA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
* ** *
87818261 GCGTTTTTGACACTATTTATTCAGAAATGTCTTCTCAAAATTATTTTTTCAAAAACTACTA
66 GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTA
* * * * * *
87818322 TAGAAAAAGTGCATCCATATGGGAGCTTTTTTCAGTGCTTTTGCTAACAGTGTATCCTACTTGAA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
*
87818387 GCGTTTTTTACACTATTTGTTCAGA
66 GCGTTTTTGACACTATTTGTTCAGA
87818412 GGCCAAACCA
Statistics
Matches: 297, Mismatches: 41, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
125 142 0.48
126 153 0.52
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTA
Found at i:87818891 original size:15 final size:15
Alignment explanation
Indices: 87818873--87818903 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87818863 ATCTCTCATC
*
87818873 TATCTATCTATTTTT
1 TATCTATATATTTTT
87818888 TATCTATATATTTTT
1 TATCTATATATTTTT
87818903 T
1 T
87818904 CTTTAGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATATATTTTT
Found at i:87821803 original size:4 final size:4
Alignment explanation
Indices: 87821796--87821821 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
87821786 AATAAATAAT
87821796 AAAC AAAC AAAC AAAC AAAC AAAC AA
1 AAAC AAAC AAAC AAAC AAAC AAAC AA
87821822 TAAATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:87825708 original size:33 final size:31
Alignment explanation
Indices: 87825648--87825708 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
87825638 TTTAAGTTGT
*
87825648 TTAATTTTTCAATTCAATTCAAATAAATGAG
1 TTAATTTTTCAATTCAAATCAAATAAATGAG
* *
87825679 TTAATTTTTTTAATTCAAATCGAATTAAAT
1 TTAA-TTTTTCAATTCAAATC-AAATAAAT
87825709 TTTTACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 14 0.56
33 7 0.28
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (31 bp):
TTAATTTTTCAATTCAAATCAAATAAATGAG
Found at i:87827777 original size:20 final size:20
Alignment explanation
Indices: 87827733--87827778 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
87827723 CTTTTACATA
*
87827733 TTATA-TATTTTAAACTTGT
1 TTATATTATTTTAAACTTGC
87827752 TATATATTATTTTAAA-TTGAC
1 T-TATATTATTTTAAACTTG-C
87827773 TTATAT
1 TTATAT
87827779 ATTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTATATTATTTTAAACTTGC
Found at i:87827779 original size:22 final size:21
Alignment explanation
Indices: 87827734--87827785 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
87827724 TTTTACATAT
87827734 TATA-TATTTTAAACTTGTTA
1 TATATTATTTTAAACTTGTTA
87827754 TATATTATTTTAAA-TTGACTTA
1 TATATTATTTTAAACTTG--TTA
87827776 TATATTATTT
1 TATATTATTT
87827786 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 13 0.45
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATTATTTTAAACTTGTTA
Found at i:87827798 original size:22 final size:22
Alignment explanation
Indices: 87827730--87827798 Score: 52
Period size: 26 Copynumber: 3.0 Consensus size: 22
87827720 ATTCTTTTAC
* * *
87827730 ATATTATATATTTTAAACTTGT
1 ATATTATTTATTTTAAAATTAT
87827752 -TA-TATATTATTTTAAATTGACTTAT
1 ATATTAT-TTATTTTAAA---A-TTAT
87827777 ATATTATTTATTTTAAAATTAT
1 ATATTATTTATTTTAAAATTAT
87827799 TTTATATACC
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
20 3 0.08
21 11 0.30
22 4 0.11
23 1 0.03
25 3 0.08
26 12 0.32
27 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (22 bp):
ATATTATTTATTTTAAAATTAT
Found at i:87827804 original size:25 final size:24
Alignment explanation
Indices: 87827686--87827818 Score: 76
Period size: 25 Copynumber: 5.4 Consensus size: 24
87827676 TGAACTGTTA
* * *
87827686 TTATTATAAAATATATTTATATTGT
1 TTATTTTAAATTAT-TTTATATTAT
* * *
87827711 CTATTTTTAATTCTTTTACATATTAT
1 TTATTTTAAATTATTTT--ATATTAT
* * *
87827737 ATATTTTAAACT-TGTTATA-TA-
1 TTATTTTAAATTATTTTATATTAT
*
87827758 TTATTTTAAATTGACTTATATATTAT
1 TTATTTTAAATT-A-TTTTATATTAT
*
87827784 TTATTTTAAAATTATTTTATA-TACC
1 TTATTTT-AAATTATTTTATATTA-T
87827809 TTATTTTAAA
1 TTATTTTAAA
87827819 CCCTTTTTAC
Statistics
Matches: 83, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
21 10 0.12
22 2 0.02
23 3 0.04
24 13 0.16
25 27 0.33
26 23 0.28
27 5 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTAAATTATTTTATATTAT
Found at i:87831248 original size:40 final size:41
Alignment explanation
Indices: 87831169--87831251 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
87831159 GAAAATTACT
87831169 TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
1 TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
*
87831210 TTGATGATAATCATATTATTATA-TTTTTTAATATGAAAGC
1 TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
87831250 TT
1 TT
87831252 ATTAGATTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 19 0.46
41 22 0.54
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (41 bp):
TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
Done.