Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 37 of 276
Found at i:11681805 original size:12 final size:12
Alignment explanation
Indices: 11681788--11681841 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
11681778 CGGGGGTTTT
*
11681788 CCTGGAGGTATG
1 CCTGGAGGCATG
** *
11681800 CCTGGAGGTTTT
1 CCTGGAGGCATG
11681812 CCTGGAGGCATG
1 CCTGGAGGCATG
* *
11681824 CCAGGTGGCATG
1 CCTGGAGGCATG
11681836 CCTGGA
1 CCTGGA
11681842 AATGTTGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (12 bp):
CCTGGAGGCATG
Found at i:11684678 original size:28 final size:28
Alignment explanation
Indices: 11684646--11684702 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11684636 GGTTATTTAT
11684646 TTATTTATAATTATAACCTTTTATCTAA
1 TTATTTATAATTATAACCTTTTATCTAA
*
11684674 TTATTTATAATTTTAACCTTTTATCTAA
1 TTATTTATAATTATAACCTTTTATCTAA
11684702 T
1 T
11684703 GTATGTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATTTATAATTATAACCTTTTATCTAA
Found at i:11697331 original size:21 final size:21
Alignment explanation
Indices: 11697290--11697331 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11697280 CGTGGCGCGT
* *
11697290 GTACGGGGGCTGTGTGCTGGC
1 GTACGGAGGCTGTGGGCTGGC
11697311 GTACGGAGGC-GTGGGCGTGGC
1 GTACGGAGGCTGTGGGC-TGGC
11697332 TGTGGTGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.19, G:0.55, T:0.19
Consensus pattern (21 bp):
GTACGGAGGCTGTGGGCTGGC
Found at i:11699222 original size:30 final size:26
Alignment explanation
Indices: 11699187--11699255 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 26
11699177 TGTTAAATAT
11699187 ATATATATATAGATCTTTAAAAGAAATAA
1 ATATATATATAGA--TTTAAAAGAAA-AA
*
11699216 ATTATATATAAGTAGATTTAAAAGAAAAT
1 A-TATATAT-A-TAGATTTAAAAGAAAAA
11699245 ATATATATATA
1 ATATATATATA
11699256 CAAATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 7 0.19
29 3 0.08
30 18 0.50
31 1 0.03
32 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (26 bp):
ATATATATATAGATTTAAAAGAAAAA
Found at i:11714063 original size:22 final size:22
Alignment explanation
Indices: 11714021--11714064 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11714011 GGTCATGATT
*
11714021 TTAAAAATTAAGAAAATATAAA
1 TTAAAAATTAAGAAAACATAAA
*
11714043 TTAAAATTTAA-AAATACATAAA
1 TTAAAAATTAAGAAA-ACATAAA
11714065 AACATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
TTAAAAATTAAGAAAACATAAA
Found at i:11714093 original size:39 final size:38
Alignment explanation
Indices: 11714050--11714136 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
11714040 AAATTAAAAT
11714050 TTAAAAATACATAAAAACATAAAAAATA-AAAAAATTATA
1 TTAAAAATACATAAAAACATAAAAAATACAAAAAA-T-TA
** * *
11714089 TTAAAAATTGATAAAAATATATAAAATACTAAAAAATTA
1 TTAAAAATACATAAAAACATAAAAAATAC-AAAAAATTA
11714128 TTAAAAATA
1 TTAAAAATA
11714137 TATTTAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.83
40 1 0.02
41 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (38 bp):
TTAAAAATACATAAAAACATAAAAAATACAAAAAATTA
Found at i:11714122 original size:49 final size:47
Alignment explanation
Indices: 11714022--11714125 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 47
11714012 GTCATGATTT
* *
11714022 TAAAAATTAAGAAAATATAAATTAAAATTTAAAAATACATAAAAACA
1 TAAAAAATAAAAAAATATAAATTAAAATTTAAAAATACATAAAAACA
* *
11714069 TAAAAAATAAAAAAAT-TATATTAAAAATTGATAAAAATATATAAAATAC-
1 TAAAAAATAAAAAAATATAAATT-AAAATT--TAAAAATACATAAAA-ACA
11714118 TAAAAAAT
1 TAAAAAAT
11714126 TATTAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 5 0.10
47 20 0.41
49 22 0.45
50 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (47 bp):
TAAAAAATAAAAAAATATAAATTAAAATTTAAAAATACATAAAAACA
Found at i:11714124 original size:10 final size:9
Alignment explanation
Indices: 11714052--11714138 Score: 52
Period size: 10 Copynumber: 9.0 Consensus size: 9
11714042 ATTAAAATTT
*
11714052 AAAAATACA
1 AAAAATATA
*
11714061 TAAAAACATA
1 -AAAAATATA
11714071 AAAAATA-A
1 AAAAATATA
11714079 AAAAATTATA
1 AAAAA-TATA
11714089 TTAAAAAT-TGA
1 --AAAAATAT-A
11714100 TAAAAATATA
1 -AAAAATATA
*
11714110 TAAAATACTA
1 AAAAATA-TA
*
11714120 AAAAATTATT
1 AAAAA-TATA
11714130 AAAAATATA
1 AAAAATATA
11714139 TTTAAATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
8 6 0.10
9 17 0.27
10 29 0.47
11 5 0.08
12 5 0.08
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:11714143 original size:12 final size:10
Alignment explanation
Indices: 11714087--11714162 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
11714077 AAAAAAATTA
11714087 TATTAAAAAT
1 TATTAAAAAT
11714097 TGA-TAAAAA-
1 T-ATTAAAAAT
11714106 TA-TATAAAA-
1 TATTA-AAAAT
*
11714115 TACTAAAAAAT
1 TA-TTAAAAAT
11714126 TATTAAAAAT
1 TATTAAAAAT
*
11714136 ATATTTAAATAT
1 -TA-TTAAAAAT
*
11714148 TATTAAAATT
1 TATTAAAAAT
11714158 TATTA
1 TATTA
11714163 TATTTTCACA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 7 0.13
10 29 0.54
11 8 0.15
12 7 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:11714156 original size:11 final size:11
Alignment explanation
Indices: 11714087--11714162 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
11714077 AAAAAAATTA
11714087 TATTAAAA-AT
1 TATTAAAATAT
*
11714097 TGATAAAAATA-
1 T-ATTAAAATAT
*
11714108 TA-TAAAATAC
1 TATTAAAATAT
11714118 TA--AAAA-AT
1 TATTAAAATAT
11714126 TATTAAAA-AT
1 TATTAAAATAT
*
11714136 ATATTTAAATAT
1 -TATTAAAATAT
11714148 TATTAAAAT-T
1 TATTAAAATAT
11714158 TATTA
1 TATTA
11714163 TATTTTCACA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 10 0.19
10 16 0.30
11 22 0.41
12 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:11714664 original size:30 final size:31
Alignment explanation
Indices: 11714602--11714678 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
11714592 TCATTTTAAG
11714602 ATAGAA-TGACTAAAATTGACAACTTATCTA
1 ATAGAAGTGACTAAAATTGACAACTTATCTA
** * *
11714632 ATA-AAGTGACTAAAATTGGTAACTTTTTTA
1 ATAGAAGTGACTAAAATTGACAACTTATCTA
**
11714662 ATAGGGGTGACTAAAAT
1 ATAGAAGTGACTAAAAT
11714679 AACAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (31 bp):
ATAGAAGTGACTAAAATTGACAACTTATCTA
Found at i:11715378 original size:126 final size:125
Alignment explanation
Indices: 11715201--11715463 Score: 375
Period size: 126 Copynumber: 2.1 Consensus size: 125
11715191 TTGTACAGTT
* * *
11715201 AGCAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTGTACAGTAGTTTGTGAAAAAATAA
1 AGCAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAA
* * * * * *
11715266 TTTTGAGAAGATGGTTCTGAAAAAATATGTTCAAAAACAGTTCAAGCAGGATACACTGTC
66 TTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATACACTGTC
* * *
11715326 AGCAAAAGTACTGAAAAAAGCT-CTCAGCTGGACGTTCTTTTTCTACAATAGTTTCTGAAAAAAT
1 AGCAAAAGTACTGAAAAAA-CTCCT-AGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAAT
*
11715390 AATTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATGCACTGTC
64 AATTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATACACTGTC
*
11715452 AGCAAAAATACT
1 AGCAAAAGTACT
11715464 ACAGACCCAT
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 21 0.17
126 101 0.83
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (125 bp):
AGCAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAA
TTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATACACTGTC
Found at i:11715782 original size:25 final size:23
Alignment explanation
Indices: 11715728--11715784 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
11715718 TACTGAGTGT
* *
11715728 TATTAAAAATTATAAAATAAATAC
1 TATT-AAAATTATAAAATAAAAAA
11715752 TAATTAAAATTATATAAATGAAAAAA
1 T-ATTAAAATTATA-AAAT-AAAAAA
11715778 TATTAAA
1 TATTAAA
11715785 TAATATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 10 0.36
25 13 0.46
26 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TATTAAAATTATAAAATAAAAAA
Found at i:11716848 original size:25 final size:24
Alignment explanation
Indices: 11716802--11716849 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
11716792 AAGATAATGG
*
11716802 AAAATAAATAAAAAAAGGAAATTT
1 AAAATAAATAAAAAAAGAAAATTT
11716826 AAAATAACATAAAAGAAA-AAAATT
1 AAAATAA-ATAAAA-AAAGAAAATT
11716850 AAATTGCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAATAAAAAAAGAAAATTT
Found at i:11716851 original size:24 final size:23
Alignment explanation
Indices: 11716802--11716852 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
11716792 AAGATAATGG
*
11716802 AAAATAAATAAAAAAAGGAAATTT
1 AAAATAAATAAAAAAA-GAAAATT
11716826 AAAATAACATAAAAGAAA-AAAATT
1 AAAATAA-ATAAAA-AAAGAAAATT
11716850 AAA
1 AAA
11716853 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.62
25 6 0.25
26 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (23 bp):
AAAATAAATAAAAAAAGAAAATT
Found at i:11723815 original size:24 final size:25
Alignment explanation
Indices: 11723758--11723820 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
11723748 GTCTTTTAAG
* *
11723758 AACATGAAAATTAAAAACAAAAATA
1 AACATGAAAAATAAAAACAAAAACA
*
11723783 AACAT-AAAAATAAAAAGAAAAACA
1 AACATGAAAAATAAAAACAAAAACA
*
11723807 AA-GTGAAAAATAAA
1 AACATGAAAAATAAA
11723821 TGGAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.82
25 5 0.15
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (25 bp):
AACATGAAAAATAAAAACAAAAACA
Found at i:11725644 original size:13 final size:14
Alignment explanation
Indices: 11725620--11725649 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11725610 GGTAAACAAT
11725620 AAGGGAGAAGGGAC
1 AAGGGAGAAGGGAC
11725634 AAGGG-GAAGGGAC
1 AAGGGAGAAGGGAC
11725647 AAG
1 AAG
11725650 TGTGAGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.43, C:0.07, G:0.50, T:0.00
Consensus pattern (14 bp):
AAGGGAGAAGGGAC
Found at i:11735645 original size:46 final size:46
Alignment explanation
Indices: 11735592--11735685 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
11735582 AAATTGTTGA
11735592 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
1 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
11735638 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
1 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
11735684 AT
1 AT
11735686 GTTATGGCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (46 bp):
ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
Found at i:11736544 original size:21 final size:21
Alignment explanation
Indices: 11736518--11736581 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
11736508 TTATAACAAA
*
11736518 TACAAATCATGCTTATCATAT
1 TACAAATCATACTTATCATAT
* * *
11736539 TACAAATCAAACATATCGTAT
1 TACAAATCATACTTATCATAT
*
11736560 TACAAATTATACTTATCATAT
1 TACAAATCATACTTATCATAT
11736581 T
1 T
11736582 TTAGATCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TACAAATCATACTTATCATAT
Found at i:11739768 original size:26 final size:25
Alignment explanation
Indices: 11739732--11739815 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
11739722 TAATACAAAT
11739732 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
11739758 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
11739784 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
11739810 TGATAA
1 TGATAA
11739816 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:11741301 original size:28 final size:26
Alignment explanation
Indices: 11741259--11741333 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
11741249 AAAAGTAGCT
* * *
11741259 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
11741287 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
11741313 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
11741334 GATTACTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:11741533 original size:54 final size:54
Alignment explanation
Indices: 11741435--11741565 Score: 217
Period size: 54 Copynumber: 2.4 Consensus size: 54
11741425 TGGAGGAAGC
* *
11741435 GTCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-AATTATCTGATATGATGGCTCTGCCACATATATCT
11741490 GTCCTGGTGGCTATGCCACAATTATCTGATATGATGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATATGATGGCTCTGCCACATATATCT
* *
11741544 GTTCTGGTGGCTCTGCCACAAT
1 GTCCTGGTGGCTATGCCACAAT
11741566 ATTTGTATCT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 53 0.74
55 19 0.26
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATATGATGGCTCTGCCACATATATCT
Found at i:11741576 original size:27 final size:27
Alignment explanation
Indices: 11741438--11741597 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
11741428 AGGAAGCGTC
*
11741438 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AA-TATCTGTAT
*
11741466 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
11741493 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
11741520 ATGATGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
11741547 CTGGTGGCTCTGCCACAATATTTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
11741574 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
11741598 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.08
27 85 0.77
28 17 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:11741591 original size:81 final size:81
Alignment explanation
Indices: 11741442--11741597 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
11741432 AGCGTCCTGG
*
11741442 TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGCC
1 TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
11741507 ACAATTATCTGATATGA
66 ACAA-TATCTGATATGA
* * * * *
11741524 TGGCTCTGCCACATA-TATCTGTTCTGGTGGCTCTGCCACA-ATATTTGTATCTGGTGACT-TCG
1 TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTAT-G
*
11741586 TCACAATATCTG
64 CCACAATATCTG
11741598 GCAGCCTCGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 14 0.22
81 38 0.58
82 13 0.20
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (81 bp):
TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
ACAATATCTGATATGA
Found at i:11743685 original size:24 final size:24
Alignment explanation
Indices: 11743639--11743685 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11743629 AGGATCGTAA
* *
11743639 AGGAGTTCCAAGATGTTTTTCCGG
1 AGGAGTTCCAAGATGTGTCTCCGG
11743663 AGGAGCTTCCAAGAT-TGTCTCCG
1 AGGAG-TTCCAAGATGTGTCTCCG
11743686 AATCGAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (24 bp):
AGGAGTTCCAAGATGTGTCTCCGG
Found at i:11745604 original size:26 final size:25
Alignment explanation
Indices: 11745568--11745651 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
11745558 TGATACAAAT
11745568 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
11745594 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
11745620 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
11745646 TGATAA
1 TGATAA
11745652 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:11747136 original size:28 final size:26
Alignment explanation
Indices: 11747094--11747168 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
11747084 AAAAGTAGCT
* * *
11747094 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
11747122 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
11747148 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
11747169 GGTTACTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:11747331 original size:27 final size:25
Alignment explanation
Indices: 11747273--11747404 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 25
11747263 AGGAAGCGTC
* *
11747273 CTGGTGGCTATACCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC-AA-TATCTG-T
11747301 CTGGTGGCTCTGCCACATATATCTGT
1 CTGGTGGCTCTGCCACA-ATATCTGT
*
11747327 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTG-T
*
11747355 ATGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTG-T
11747382 CTGGTGGCTCTGCCACAATATCT
1 CTGGTGGCTCTGCCACAATATCT
11747405 ATATCTGGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.09
27 67 0.73
28 17 0.18
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
CTGGTGGCTCTGCCACAATATCTGT
Found at i:11747364 original size:54 final size:54
Alignment explanation
Indices: 11747270--11747408 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
11747260 TGGAGGAAGC
* *
11747270 GTCCTGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-AATTATCTGATATGGTGGCTCTGCCACATATATCT
11747325 GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
* *
11747379 GTTCTGGTGGCTCTGCCACAA-TATCT-ATAT
1 GTCCTGGTGGCTATGCCACAATTATCTGATAT
11747409 CTGGTGACTT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 4 0.05
53 5 0.06
54 53 0.66
55 18 0.22
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
Found at i:11747411 original size:27 final size:27
Alignment explanation
Indices: 11747273--11747432 Score: 134
Period size: 27 Copynumber: 5.9 Consensus size: 27
11747263 AGGAAGCGTC
* * *
11747273 CTGGTGGCTATACCACAAATTATCT-GAT
1 CTGGTGGCTCTGCCAC-AA-TATCTATAT
* *
11747301 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTATAT
*
11747328 CTGGTGGCTATGCCACAATTATCTGATA-
1 CTGGTGGCTCTGCCACAA-TATCT-ATAT
*
11747356 -TGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTATAT
11747382 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTCTGCCACAATATCTATAT
* *
11747409 CTGGTGACT-TCGTCACAATATCTA
1 CTGGTGGCTCT-GCCACAATATCTA
11747433 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 11, Indels: 21
0.78 0.08 0.15
Matches are distributed among these distances:
26 10 0.09
27 84 0.76
28 17 0.15
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTATAT
Found at i:11747426 original size:81 final size:81
Alignment explanation
Indices: 11747274--11747431 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
11747264 GGAAGCGTCC
* *
11747274 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGTGACTAT
11747339 GCCACAATTATCTGATA
66 GCCACAA-TATCTGATA
* * * * *
11747356 TGGTGGCTCTGCCACATA-TATCTGTTCTGGTGGCTCTGCCACA-ATATCTATATCTGGTGACT-
1 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTAT-CCTGGTGACTA
*
11747418 TCGTCACAATATCT
65 T-GCCACAATATCT
11747432 AGCAGCCTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 13 0.20
81 38 0.58
82 15 0.23
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (81 bp):
TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGTGACTAT
GCCACAATATCTGATA
Found at i:11749216 original size:45 final size:44
Alignment explanation
Indices: 11749167--11749258 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
11749157 AAAATTCATC
11749167 ATCTTC-GATCTAC-TCCACTGCTACCTCAAGGAA-ATAAGATCTACA
1 ATCTTCAG-TCTACTTCC-CTGCTACCTC-AGGAAGATAAGA-CTACA
* *
11749212 ATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
1 ATCTTCAGTCTACTTCCCTGCTACCTCAGGAAGATAAGACTACA
11749256 ATC
1 ATC
11749259 GTCAACCTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 13 0.31
45 25 0.60
46 4 0.10
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (44 bp):
ATCTTCAGTCTACTTCCCTGCTACCTCAGGAAGATAAGACTACA
Found at i:11749258 original size:44 final size:45
Alignment explanation
Indices: 11749185--11749293 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 45
11749175 TCTACTCCAC
* **
11749185 TGCTACCTCAAGGAA-ATAAGATCTACAATCTTCAGTCTGCT-TCCT
1 TGCTACCTC-AGGAAGATAAGATCTACAATCGTCAACCTGCTCT-CT
11749230 TGCTACCTCAGGAAGATAAGA-CTACAATCGTCAACCTGCTCTCT
1 TGCTACCTCAGGAAGATAAGATCTACAATCGTCAACCTGCTCTCT
11749274 TGCTACCTCA-GAGAGATAAG
1 TGCTACCTCAGGA-AGATAAG
11749294 GCTAGGGGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
43 2 0.03
44 40 0.69
45 16 0.28
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCTACCTCAGGAAGATAAGATCTACAATCGTCAACCTGCTCTCT
Found at i:11749504 original size:177 final size:177
Alignment explanation
Indices: 11749194--11749514 Score: 518
Period size: 177 Copynumber: 1.8 Consensus size: 177
11749184 CTGCTACCTC
11749194 AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
1 AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
** * * *
11749259 GTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCTATTATCGA
66 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCCATTACCGA
11749324 TACATGGAGATAAGATTCGCCATCTTCATTCTGCTCCACAACTGCTT
131 TACATGGAGATAAGATTCGCCATCTTCATTCTGCTCCACAACTGCTT
* * * *
11749371 AAGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATC
1 AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
* * *
11749436 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCT-GGTGGCTTAAATCTGTTCCATTGCCG
66 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGG-GGCTAAAATCTGCTCCATTACCG
11749500 ATACATGGAGATAAG
130 ATACATGGAGATAAG
11749515 TGTAGCGTCC
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
176 2 0.02
177 129 0.98
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (177 bp):
AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCCATTACCGA
TACATGGAGATAAGATTCGCCATCTTCATTCTGCTCCACAACTGCTT
Found at i:11749646 original size:13 final size:13
Alignment explanation
Indices: 11749630--11749654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11749620 GAATGATTTC
11749630 GTGAAAATTTCGT
1 GTGAAAATTTCGT
11749643 GTGAAAATTTCG
1 GTGAAAATTTCG
11749655 ACGTTTGGGC
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
GTGAAAATTTCGT
Found at i:11752876 original size:20 final size:18
Alignment explanation
Indices: 11752851--11752889 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11752841 AGGACATGGG
11752851 CGTGTCCCAATCCACACGGA
1 CGTGT-CCAA-CCACACGGA
*
11752871 CGTGTCCGACCACACGGA
1 CGTGTCCAACCACACGGA
11752889 C
1 C
11752890 CAACCCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (18 bp):
CGTGTCCAACCACACGGA
Found at i:11753777 original size:177 final size:176
Alignment explanation
Indices: 11753153--11753778 Score: 934
Period size: 176 Copynumber: 3.5 Consensus size: 176
11753143 GGGTGTTACA
*
11753153 ATAAGATTTGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
*
11753218 CTGCTCCTTGCTACCTCAGGAAGATAAGCCTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
66 CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
*
11753283 AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAA
131 AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
* * *
11753329 ATAAGATTCGTCGCCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCAATCTTTAGT
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
*
11753394 CTGCTCCTTGCTACCTCAGGAAGATAAGCCTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
66 CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
*
11753459 AGATAAGGCTGGTGGCTTAAATTTTCTCCATTGCTGATATATGGAG
131 AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
* * *
11753505 ATAAGATTCGTCGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTAAGT
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
* * * *
11753570 CTGCTTCCTTACTACCTTAGGAAGATAAGACTATAATCGCCAACCTGCTCTCTTGCTACCTCAGA
66 CTGC-TCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGA
* * * ** * *
11753635 GAGATAAGGCTGGTGACTAAAATCTGCTCCATTGCCAATACATAGAG
130 GAGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
* * *
11753682 ATAAGATTCGCCATCTTAGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTAT-AAT-TTTCA
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-TCAATCTTT-A
* * *
11753745 GACTGCTCCACTGCAACCTCAGGGAA-ATAAGACT
64 GTCTGCTCC-TTGCTACCTCA-GGAAGATAAGACT
11753779 TGTATATTGA
Statistics
Matches: 413, Mismatches: 32, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
176 242 0.59
177 166 0.40
178 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
Found at i:11753819 original size:44 final size:44
Alignment explanation
Indices: 11753747--11753863 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
11753737 AATTTTCAGA
* * * *
11753747 CTGCTCCACTGCAACCTCAGGGAA-ATAAGACTTGTAT-A-TTGAGC
1 CTGCTCCACTGCAACTTTA-GGAAGATAAG-CTT-TATCACTTCAAC
* * *
11753791 CTGCTCCATTGCAACTTTAGGAAGATAAGGTTTTTCACTTCAAC
1 CTGCTCCACTGCAACTTTAGGAAGATAAGCTTTATCACTTCAAC
*
11753835 CTGCTCCACTGCAACTTTAGGGAGATAAG
1 CTGCTCCACTGCAACTTTAGGAAGATAAG
11753864 GTTTGTAATC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.03
43 7 0.11
44 52 0.85
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGGAAGATAAGCTTTATCACTTCAAC
Found at i:11753864 original size:44 final size:45
Alignment explanation
Indices: 11753750--11753953 Score: 198
Period size: 45 Copynumber: 4.6 Consensus size: 45
11753740 TTTCAGACTG
* * * ** * *
11753750 CTCCACTGCAACCTCAGGGAAATAAGACTTGT-AT-ATTGAGCCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGA-CCTA
* * * * ** *
11753794 CTCCATTGCAACTTTAGGAAGATAAGGTTTTTCA-CTTCAACCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
*
11753838 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
* * *
11753883 TTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTTGATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
* *
11753928 TTCCACTGCAACTTTAGGGATATAAG
1 CTCCACTGCAACTTTAGGGAGATAAG
11753954 ATCTGACTTC
Statistics
Matches: 134, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
44 58 0.43
45 76 0.57
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
Found at i:11753902 original size:45 final size:45
Alignment explanation
Indices: 11753795--11753953 Score: 212
Period size: 45 Copynumber: 3.6 Consensus size: 45
11753785 TTGAGCCTGC
* * * * ** * **
11753795 TCCATTGCAACTTTAGGAAGATAAGGTTTTTCA-CTTCAACCTGC
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
11753839 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
*
11753884 TCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTTGATCTAT
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
*
11753929 TCCACTGCAACTTTAGGGATATAAG
1 TCCACTGCAACTTTAGGGAGATAAG
11753954 ATCTGACTTC
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 29 0.28
45 73 0.72
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (45 bp):
TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
Found at i:11754129 original size:64 final size:64
Alignment explanation
Indices: 11754022--11754149 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
11754012 TTATGTATCC
11754022 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
* * * * *
11754086 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATTCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
11754150 TTATGAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
Found at i:11755267 original size:13 final size:13
Alignment explanation
Indices: 11755251--11755275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11755241 TTTCTTCTTT
11755251 TTTTTTATTTTTA
1 TTTTTTATTTTTA
11755264 TTTTTTATTTTT
1 TTTTTTATTTTT
11755276 TTAAATTTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:11760280 original size:8 final size:8
Alignment explanation
Indices: 11760267--11760297 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
11760257 TATATAATAT
11760267 ATGAATTG
1 ATGAATTG
11760275 ATGAATTG
1 ATGAATTG
11760283 ATGAATTG
1 ATGAATTG
11760291 ATGAATT
1 ATGAATT
11760298 TGAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (8 bp):
ATGAATTG
Found at i:11762916 original size:13 final size:13
Alignment explanation
Indices: 11762898--11762924 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11762888 GCTTGGCAGG
11762898 GACACGCCTGTGT
1 GACACGCCTGTGT
11762911 GACACGCCTGTGT
1 GACACGCCTGTGT
11762924 G
1 G
11762925 CGATTGCTTA
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:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:11774064 original size:46 final size:46
Alignment explanation
Indices: 11773997--11774095 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
11773987 TACGGTCGAG
* *
11773997 GTAAACCATTCCAAATTTGGCAC-ATTCAGGGTAAATGGTACTCATC
1 GTAAACCACTCCAAATTTGGCACGATTCA-GGTAAATAGTACTCATC
* * *
11774043 GTAAATCACTCCAAATTTGGCACGTTTCAGGTAAATAGTACTCGTC
1 GTAAACCACTCCAAATTTGGCACGATTCAGGTAAATAGTACTCATC
*
11774089 TTAAACC
1 GTAAACC
11774096 TTATGTTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 41 0.91
47 4 0.09
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (46 bp):
GTAAACCACTCCAAATTTGGCACGATTCAGGTAAATAGTACTCATC
Found at i:11780052 original size:15 final size:14
Alignment explanation
Indices: 11780032--11780078 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
11780022 AATGAATGTG
11780032 AAATGAATCTAAAAA
1 AAATGAAT-TAAAAA
*
11780047 AAATG-ATGAAAAA
1 AAATGAATTAAAAA
*
11780060 AAATTAATTAAAATA
1 AAATGAATTAAAA-A
11780075 AAAT
1 AAAT
11780079 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 9 0.33
14 8 0.30
15 10 0.37
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (14 bp):
AAATGAATTAAAAA
Found at i:11780610 original size:55 final size:55
Alignment explanation
Indices: 11780526--11780636 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
11780516 TGCTTGCTAC
*
11780526 ACCACCAAATATGGTGGCCGACGCACAAAAGATAGCCTGGATCTGACCGACCATG
1 ACCACCAAATATGGTGGCCAACGCACAAAAGATAGCCTGGATCTGACCGACCATG
* * * * *
11780581 ACCACCACATATGGTGGCCAACGCGCAAAAGATGGCTTGGATCTGATCGACCATG
1 ACCACCAAATATGGTGGCCAACGCACAAAAGATAGCCTGGATCTGACCGACCATG
11780636 A
1 A
11780637 TCTCGAAAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (55 bp):
ACCACCAAATATGGTGGCCAACGCACAAAAGATAGCCTGGATCTGACCGACCATG
Found at i:11782617 original size:138 final size:138
Alignment explanation
Indices: 11782364--11782920 Score: 810
Period size: 138 Copynumber: 4.0 Consensus size: 138
11782354 ACATAGATAA
* *
11782364 AATTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * *
11782429 TAAACAGTTATATTAATTGATTT-TGGTCAAAATATAAAAGACATGGAAATTAAGATTTTTTTGG
66 TAAACAGTTATATTAATTAATTTCT-GTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
11782493 AAAGAATAT
130 AAAGAATAT
*
11782502 AATTAATATATGAATTTAATTCATACAAAATATTAATTATATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
11782567 TAAACAGTTATATTAATTAATTCCTGTCAAAATATAAAAGACATAAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
*
11782632 AGGAATAT
131 AAGAATAT
* * * * *
11782640 AATTAATATATGAATTTGATTTATACAAAAAATTAATTGTATACATTTTACCGAATTTGTTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * * * *
11782705 TAAATAGTTATATTAATTAATTTCAGTCAAAACATAAATGACATGGAAATTAATATTATTTTGGA
66 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
11782770 AAGAATAT
131 AAGAATAT
** * ***
11782778 AATTAGCATATGAATTTAATTCATACAAAACATTAATTGTATATATTTTGTTGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * *
11782843 TAAACAATTATATTAATTTAATTTCGGTCAAAATATAAAAAATATGAAAATTAATATTCTTTTGG
66 TAAACAGTTATATTAA-TTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
11782908 AAAGAATAT
130 AAAGAATAT
11782917 AATT
1 AATT
11782921 CATTTGTCTA
Statistics
Matches: 374, Mismatches: 43, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
138 319 0.85
139 55 0.15
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:11783118 original size:79 final size:79
Alignment explanation
Indices: 11782896--11783273 Score: 647
Period size: 79 Copynumber: 4.8 Consensus size: 79
11782886 ATGAAAATTA
* * *
11782896 ATATTCTTTTGGAAAGAATATAATTCA--TTTGTCTAAC-TTCCTATTTTTCTTCTCTATTAATA
1 ATATTCTTTTGAAAAGAATATAATT-ATTTTTTTCTAACTTTCC-ATTTGTCTTCTCTATTAATA
* * *
11782958 ATAAGAGAATAATCAT
64 ATAAGGGAAAAATCCT
*
11782974 ATATTCTTTTGAAAAGAATATAATT-CTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
1 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
11783038 AAGGGAAAAATCCT
66 AAGGGAAAAATCCT
11783052 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
1 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
11783117 AAGGGAAAAATCCT
66 AAGGGAAAAATCCT
11783131 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
1 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
11783196 AAGGGAAAAATCCT
66 AAGGGAAAAATCCT
11783210 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAA
1 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAA
11783274 GAGAATAATC
Statistics
Matches: 289, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
78 90 0.31
79 199 0.69
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (79 bp):
ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAT
AAGGGAAAAATCCT
Found at i:11786214 original size:48 final size:48
Alignment explanation
Indices: 11786145--11786508 Score: 360
Period size: 48 Copynumber: 7.6 Consensus size: 48
11786135 TGTGTGCTAG
* *
11786145 TGTAAGACCATAG-CTGGGACATGACATCGACCACATTATGAGAGCCAG
1 TGTAAGACCAT-GTCTGGGACATGGCATCGACCACATTATGAGAGCCAA
* * *
11786193 TGTAAGGCCATGTCTGGGACATTGCATCGGCCACATTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAA
* * ** **
11786241 TGTAAGACCATGTTTGGAACATGGCATCGAAAATGTTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAA
* *
11786289 AGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAA
* * ** **
11786337 TGTAAGACCATGTTTGGAACATGGCATCGAAAATGTTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAA
* * * * *
11786385 AGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACATT---ATGAGAGCCAA
* * * * * * *
11786433 TGTAAGATCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGACAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATTATGAGAGCCAA
*
11786481 TGTAAGACCATGTTTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
11786509 AGCAATTTAC
Statistics
Matches: 259, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
45 2 0.01
47 1 0.00
48 254 0.98
51 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAA
Found at i:11786309 original size:96 final size:96
Alignment explanation
Indices: 11786180--11786415 Score: 436
Period size: 96 Copynumber: 2.5 Consensus size: 96
11786170 ATCGACCACA
** * *
11786180 TTATGAGAGCCAGTGTAAGGCCATGTCTGGGACATTGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
11786245 AGACCATGTTTGGAACATGGCATCGAAAATG
66 AGACCATGTTTGGAACATGGCATCGAAAATG
11786276 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
11786341 AGACCATGTTTGGAACATGGCATCGAAAATG
66 AGACCATGTTTGGAACATGGCATCGAAAATG
11786372 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGC
1 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGC
11786416 ATTGAGACGA
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 136 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (96 bp):
TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
AGACCATGTTTGGAACATGGCATCGAAAATG
Found at i:11786407 original size:144 final size:144
Alignment explanation
Indices: 11786146--11786508 Score: 433
Period size: 144 Copynumber: 2.5 Consensus size: 144
11786136 GTGTGCTAGT
* * * *
11786146 GTAAGACCATAG-CTGGGACATGACATCGACCACATTATGAGAGCCAGTGTAAGGCCATGTCTGG
1 GTAAGACCAT-GTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGG
* *** * *
11786210 GACATTGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGAAAAT
65 GACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCGAAAAT
** *
11786275 GTTATGAGAGCCAAA
130 GAGACGAGAGCCAAA
* *
11786290 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTTTGGA
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGG
** * ** *
11786355 ACATGGCATCGAAAATGTTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCATTG
66 ACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCGAAAATG
* **
11786420 AGACGAGAGCTAGT
131 AGACGAGAGCCAAA
* * * * *
11786434 GTAAGATCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGACAGTGTAAGACCATGTTTGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTTTGG
11786498 GACATGGCATC
65 GACATGGCATC
11786509 AGCAATTTAC
Statistics
Matches: 186, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 184 0.99
145 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (144 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGG
ACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCGAAAATG
AGACGAGAGCCAAA
Found at i:11786428 original size:96 final size:94
Alignment explanation
Indices: 11786180--11786461 Score: 404
Period size: 96 Copynumber: 2.9 Consensus size: 94
11786170 ATCGACCACA
** * *
11786180 TTATGAGAGCCAGTGTAAGGCCATGTCTGGGACATTGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGG-C-CATTATGAGAGCCAATGTA
11786245 AGACCATGTTTGGAACATGGCATCGAAAATG
64 AGACCATGTTTGGAACATGGCATCGAAAATG
11786276 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGG-C-CATTATGAGAGCCAATGTA
11786341 AGACCATGTTTGGAACATGGCATCGAAAATG
64 AGACCATGTTTGGAACATGGCATCGAAAATG
* * *
11786372 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCTAGTGT
1 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCATT---ATGAGAGCCAATGT
* * *
11786436 AAGATCATGTCTGGGACATGGCATCG
63 AAGACCATGTTTGGAACATGGCATCG
11786462 GCCTCGACAT
Statistics
Matches: 173, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
93 4 0.02
96 169 0.98
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (94 bp):
TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCCATTATGAGAGCCAATGTAAG
ACCATGTTTGGAACATGGCATCGAAAATG
Found at i:11786828 original size:26 final size:26
Alignment explanation
Indices: 11786798--11786847 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11786788 TTCACTCAAG
11786798 AATGTTGTGTTGATTTATAATATTCT
1 AATGTTGTGTTGATTTATAATATTCT
11786824 AATGTTGTGTTGATTTATAATATT
1 AATGTTGTGTTGATTTATAATATT
11786848 TTATGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (26 bp):
AATGTTGTGTTGATTTATAATATTCT
Found at i:11788901 original size:50 final size:51
Alignment explanation
Indices: 11788825--11788924 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 51
11788815 TAGGGTTCAT
11788825 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
1 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
11788876 GTTAAAAAATTTA-CCATGCATGAGATGTTTGTGTTTTGATGATTTATGG
1 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGG
11788925 TGGAATATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 36 0.73
51 13 0.27
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (51 bp):
GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
Found at i:11793563 original size:30 final size:30
Alignment explanation
Indices: 11793529--11793590 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
11793519 ATTTGTTTTA
*
11793529 TTGTTAATTTTGTTATTATTTTAGATGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
11793559 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
11793589 TT
1 TT
11793591 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:11796785 original size:20 final size:19
Alignment explanation
Indices: 11796759--11796818 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
11796749 AATTTTATAA
*
11796759 TTTTATAGTTTTTAAATTT
1 TTTTATAATTTTTAAATTT
11796778 TGTTTATAATTTTTATAATTT
1 T-TTTATAATTTTTA-AATTT
*
11796799 TTTAATAATTTTTAAATTT
1 TTTTATAATTTTTAAATTT
11796818 T
1 T
11796819 AAAAGGGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.19
20 24 0.65
21 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTAAATTT
Found at i:11796801 original size:11 final size:11
Alignment explanation
Indices: 11796767--11796811 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
11796757 AATTTTATAG
11796767 TTTTTA-AATT
1 TTTTTATAATT
11796777 TTGTTTATAA--
1 TT-TTTATAATT
11796787 TTTTTATAATT
1 TTTTTATAATT
*
11796798 TTTTAATAATT
1 TTTTTATAATT
11796809 TTT
1 TTT
11796812 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 7 0.23
10 4 0.13
11 17 0.57
12 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:11796816 original size:8 final size:9
Alignment explanation
Indices: 11796740--11796818 Score: 76
Period size: 8 Copynumber: 8.7 Consensus size: 9
11796730 TTTTTAATAA
11796740 AATTTTTAT
1 AATTTTTAT
11796749 AA-TTTTAT
1 AATTTTTAT
11796757 AA-TTTTAT
1 AATTTTTAT
*
11796765 AGTTTTTA-
1 AATTTTTAT
11796773 AATTTTGTTTAT
1 AA--TT-TTTAT
11796785 AATTTTTAT
1 AATTTTTAT
11796794 AATTTTTTAAT
1 AA-TTTTT-AT
11796805 AATTTTTA-
1 AATTTTTAT
11796813 AATTTT
1 AATTTT
11796819 AAAAGGGCTT
Statistics
Matches: 61, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
8 22 0.36
9 15 0.25
10 14 0.23
11 8 0.13
12 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
AATTTTTAT
Found at i:11797391 original size:22 final size:22
Alignment explanation
Indices: 11797341--11797391 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11797331 TTGATGTTTG
* *
11797341 TTGTTATTTTGCTACCATTTTG
1 TTGTTATATTGCTACCATTTTA
* * *
11797363 CTATTATATTGCTACTATTTTA
1 TTGTTATATTGCTACCATTTTA
11797385 TTGTTAT
1 TTGTTAT
11797392 TATTTAAATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (22 bp):
TTGTTATATTGCTACCATTTTA
Found at i:11797693 original size:24 final size:25
Alignment explanation
Indices: 11797639--11797697 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
11797629 GTTTTGCCCC
11797639 GTTTTTTAAGGTTAGGGTTTTAAAT
1 GTTTTTTAAGGTTAGGGTTTTAAAT
* * *
11797664 -TATTTTAGGGTTAGGGTTTT-AGT
1 GTTTTTTAAGGTTAGGGTTTTAAAT
11797687 GTTTTTTAAGG
1 GTTTTTTAAGG
11797698 AAAAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (25 bp):
GTTTTTTAAGGTTAGGGTTTTAAAT
Found at i:11797721 original size:26 final size:26
Alignment explanation
Indices: 11797692--11797741 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11797682 TTAGTGTTTT
*
11797692 TTAAGGAAAAATTAATTTAATTAAAG
1 TTAAGGAAAAATTAATTAAATTAAAG
***
11797718 TTAAGGGTTAATTAATTAAATTAA
1 TTAAGGAAAAATTAATTAAATTAA
11797742 CTATGAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (26 bp):
TTAAGGAAAAATTAATTAAATTAAAG
Found at i:11797800 original size:16 final size:17
Alignment explanation
Indices: 11797768--11797801 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11797758 ATTAATTAAA
*
11797768 TTAGGGTTTATGGTTTT
1 TTAGGGTTTAAGGTTTT
11797785 TTAGGG-TTAAGGTTTT
1 TTAGGGTTTAAGGTTTT
11797801 T
1 T
11797802 GATTGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (17 bp):
TTAGGGTTTAAGGTTTT
Found at i:11797832 original size:23 final size:23
Alignment explanation
Indices: 11797767--11797832 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 23
11797757 AATTAATTAA
11797767 ATTAGGG-TTTA-TGGTTTTTTAGG
1 ATTAGGGTTTTAGTGG--TTTTAGG
* * * *
11797790 GTTAAGGTTTTTGATTGTTTTAGG
1 ATTAGGGTTTTAG-TGGTTTTAGG
11797814 ATTAGGGTTTTAGTGGTTT
1 ATTAGGGTTTTAGTGGTTT
11797833 AGGGTTTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
23 10 0.31
24 20 0.62
26 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (23 bp):
ATTAGGGTTTTAGTGGTTTTAGG
Found at i:11797988 original size:156 final size:158
Alignment explanation
Indices: 11797666--11798059 Score: 604
Period size: 156 Copynumber: 2.5 Consensus size: 158
11797656 TTTTAAATTA
* *
11797666 TTTTAG-GG-TTAGGGTTTTAGTGTTTTTTAA-GGAAAAATTAATTTAATTAAAGTT-AAGGGTT
1 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAA-GGTT
* ** *
11797727 AATTAATTAAATTAACTATGAAATTAAAAAAATTAATTAAATTAGGGTTTATGGTTTTTTAGGGT
65 AATTAATTAAATTAACTATGAAATTAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGGT
11797792 TAAGGTTTTTGATTGTTTTAGGATTAGGG
130 TAAGGTTTTTGATTGTTTTAGGATTAGGG
** * *
11797821 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAATTTTAACTTAATTAGAGTTGAAGATTA
1 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAAGGTTA
*
11797886 ATTAATTAAATTAACTATGAAATT-TAAAAATCAATTAAATTAGGGTTTAAAG-TTTTTAAGGTT
66 ATTAATTAAATTAACTATGAAATTAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGGTT
* *
11797949 AGGGTTTTTTATTGTTTTAGGATTAGGG
131 AAGGTTTTTGATTGTTTTAGGATTAGGG
*
11797977 TTTTAGTGGTTTAGGGTTTTAGTG-TTTTTAAGGGAAAAATTAAATTAATTAGAGTTGATGGTTA
1 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAAGGTTA
11798041 ATTAATTAAATTAACTATG
66 ATTAATTAAATTAACTATG
11798060 TCTGCCCCCA
Statistics
Matches: 218, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
155 60 0.28
156 62 0.28
157 46 0.21
158 48 0.22
159 2 0.01
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (158 bp):
TTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAAGGTTA
ATTAATTAAATTAACTATGAAATTAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGGTT
AAGGTTTTTGATTGTTTTAGGATTAGGG
Found at i:11799225 original size:9 final size:9
Alignment explanation
Indices: 11799202--11799231 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11799192 ATTTATATTT
11799202 TATTAAAAA
1 TATTAAAAA
11799211 TA-TAAAAA
1 TATTAAAAA
11799219 TATTAAAAA
1 TATTAAAAA
11799228 TATT
1 TATT
11799232 GCCGTAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:11799806 original size:18 final size:18
Alignment explanation
Indices: 11799780--11799822 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11799770 GACTAGGAAA
* *
11799780 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
11799798 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
11799816 AGGATAC
1 AGGATAC
11799823 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11800492 original size:7 final size:7
Alignment explanation
Indices: 11800477--11800508 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11800467 TTATATAGGT
11800477 AATACTA
1 AATACTA
*
11800484 AATAATA
1 AATACTA
11800491 AATACTA
1 AATACTA
11800498 AATACTA
1 AATACTA
11800505 AATA
1 AATA
11800509 AGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11801697 original size:21 final size:22
Alignment explanation
Indices: 11801655--11801701 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
11801645 ACACAGCTTT
*
11801655 TTTG-CAAAAATTAGAGACAAA
1 TTTGACAAAAATTAGAAACAAA
*
11801676 TTTGACAAAAATT-GAAATAAA
1 TTTGACAAAAATTAGAAACAAA
11801697 TTTGA
1 TTTGA
11801702 GAGAATTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (22 bp):
TTTGACAAAAATTAGAAACAAA
Found at i:11801915 original size:24 final size:24
Alignment explanation
Indices: 11801883--11801938 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
11801873 CGCCTTCAAG
11801883 GAAGCGCTTTGTGCTGAGGTGGAC
1 GAAGCGCTTTGTGCTGAGGTGGAC
11801907 GAAGCGCTTTGTGCTGAGGTGGAC
1 GAAGCGCTTTGTGCTGAGGTGGAC
*
11801931 AAAGCGCT
1 GAAGCGCT
11801939 CCCCCAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.23
Consensus pattern (24 bp):
GAAGCGCTTTGTGCTGAGGTGGAC
Found at i:11806784 original size:40 final size:40
Alignment explanation
Indices: 11806728--11806810 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
11806718 ACAAATCTAA
* * *
11806728 CAAGTAAGTTCGTAAATGTTTTTATTTAATATTTACGAGT
1 CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
11806768 CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
1 CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
11806808 CAA
1 CAA
11806811 ATATAGTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (40 bp):
CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
Found at i:11806962 original size:12 final size:11
Alignment explanation
Indices: 11806946--11806979 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
11806936 AACCGAGCCA
11806946 TAAATATTTTT
1 TAAATATTTTT
11806957 TAAAATATTTTT
1 T-AAATATTTTT
11806969 TAAATATTTTT
1 TAAATATTTTT
11806980 AGAGTGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAAATATTTTT
Found at i:11808689 original size:79 final size:79
Alignment explanation
Indices: 11808556--11808716 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 79
11808546 GTAAATTTGA
**
11808556 ATGGTTTATAATCTTATGAAAAGGTTGATGAATATGTGACGTGTCTTATGAAATCCACTTATGTT
1 ATGGTTTATAATCTTATGAAAAGGTTGATGAATATGTGACGTGTCTTAAAAAATCCACTTATGTT
11808621 ATAAATGAACTTAT
66 ATAAATGAACTTAT
* * *
11808635 ATGGTTTATAATTTTATGAAAAGGTTTATGAATATGTGATGTGTCTTAAAAAATCCACTTATGTT
1 ATGGTTTATAATCTTATGAAAAGGTTGATGAATATGTGACGTGTCTTAAAAAATCCACTTATGTT
11808700 ATAAATGAACTTAT
66 ATAAATGAACTTAT
11808714 ATG
1 ATG
11808717 AGATGTTGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (79 bp):
ATGGTTTATAATCTTATGAAAAGGTTGATGAATATGTGACGTGTCTTAAAAAATCCACTTATGTT
ATAAATGAACTTAT
Found at i:11810237 original size:7 final size:7
Alignment explanation
Indices: 11810207--11810242 Score: 51
Period size: 6 Copynumber: 5.6 Consensus size: 7
11810197 TAGAGTTTTT
11810207 GGTTT-A
1 GGTTTGA
11810213 GGTTTG-
1 GGTTTGA
11810219 GGTTTG-
1 GGTTTGA
11810225 GGTTTGA
1 GGTTTGA
11810232 GGTTTGA
1 GGTTTGA
11810239 GGTT
1 GGTT
11810243 CAAGGTCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.61
7 11 0.39
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.47
Consensus pattern (7 bp):
GGTTTGA
Found at i:11811512 original size:16 final size:16
Alignment explanation
Indices: 11811491--11811558 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
11811481 TTTGGTTCGC
*
11811491 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
**
11811507 TGTATTGGATTAGACA
1 TGTATTGGATTAGAGG
*
11811523 TGTAGTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11811539 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
11811555 TGTA
1 TGTA
11811559 ATAGCAAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.29, C:0.01, G:0.34, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11811815 original size:18 final size:17
Alignment explanation
Indices: 11811794--11811828 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11811784 TTATTATTAA
*
11811794 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11811812 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11811829 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11811882 original size:157 final size:157
Alignment explanation
Indices: 11811681--11811994 Score: 583
Period size: 157 Copynumber: 2.0 Consensus size: 157
11811671 TAGAATACCC
*
11811681 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
11811746 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
11811811 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
11811838 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
11811903 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
11811968 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
11811995 CTAATATTCT
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:11811968 original size:16 final size:16
Alignment explanation
Indices: 11811931--11811972 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11811921 TTAATCATAT
*
11811931 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
11811947 TT-AAATATATTATAA
1 TTAAAATATATTATAA
11811962 TTAAAATATAT
1 TTAAAATATAT
11811973 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:11811979 original size:14 final size:15
Alignment explanation
Indices: 11811940--11811981 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11811930 TTTAAACATA
*
11811940 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11811955 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11811969 A-TATAATTTAATA
1 ATTATAATTAAATA
11811982 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11812427 original size:13 final size:13
Alignment explanation
Indices: 11812409--11812433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11812399 GCCTTAACAA
11812409 GAGCAGCACTCAT
1 GAGCAGCACTCAT
11812422 GAGCAGCACTCA
1 GAGCAGCACTCA
11812434 AAACAGATTT
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:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
GAGCAGCACTCAT
Found at i:11816033 original size:21 final size:21
Alignment explanation
Indices: 11816009--11816050 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11815999 ACCCATGGTC
11816009 TAAATCTTGCTATGTGATGGA
1 TAAATCTTGCTATGTGATGGA
11816030 TAAATCTTGCTATGTGATGGA
1 TAAATCTTGCTATGTGATGGA
11816051 AATGGCACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (21 bp):
TAAATCTTGCTATGTGATGGA
Found at i:11816411 original size:47 final size:47
Alignment explanation
Indices: 11816342--11816444 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
11816332 TGAGCAATGC
11816342 ATGTGT-TAAATTGATGAAAAGGGGGAGGATGCCTTACTAGTGTGTAT
1 ATGTGTGT-AATTGATGAAAAGGGGGAGGATGCCTTACTAGTGTGTAT
*
11816389 ATGTGTGTAATTGATGAAAAGGGGGAGGATGCTTTACTAGTGTGTAT
1 ATGTGTGTAATTGATGAAAAGGGGGAGGATGCCTTACTAGTGTGTAT
11816436 ATGTGTGTA
1 ATGTGTGTA
11816445 TTAAGTGTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 53 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.34
Consensus pattern (47 bp):
ATGTGTGTAATTGATGAAAAGGGGGAGGATGCCTTACTAGTGTGTAT
Found at i:11816853 original size:75 final size:75
Alignment explanation
Indices: 11816730--11816879 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
11816720 AGGTAAGTTC
11816730 TTGAGTAAGAGAGCTTAAATTTCGATGTGATTAAATCATGCTCTATGTGTGGCTATTAAGCCGAA
1 TTGAGTAAGAGAGCTTAAATTTCGATGTGATTAAATCATGCTCTATGTGTGGCTATTAAGCCGAA
11816795 TGTGCAAGGA
66 TGTGCAAGGA
*
11816805 TTGAGTAAGAGAGCTTAAATTTCGATGTGATTAAATCATGCTCTATGTGTGGCTATTGAGCCGAA
1 TTGAGTAAGAGAGCTTAAATTTCGATGTGATTAAATCATGCTCTATGTGTGGCTATTAAGCCGAA
11816870 TGTGCAAGGA
66 TGTGCAAGGA
11816880 CAATATGTGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (75 bp):
TTGAGTAAGAGAGCTTAAATTTCGATGTGATTAAATCATGCTCTATGTGTGGCTATTAAGCCGAA
TGTGCAAGGA
Found at i:11817093 original size:40 final size:40
Alignment explanation
Indices: 11816973--11817157 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
11816963 TTGAATGCTG
* * * * *
11816973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
11817013 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
11817053 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
11817093 TCCGGGTTATGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
11817132 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
11817158 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 34 0.28
40 78 0.65
41 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11817137 original size:39 final size:39
Alignment explanation
Indices: 11817038--11817154 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 39
11817028 GAAGGCCTTT
* *
11817038 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTATGTCCCGAAGGCA-TC
** *
11817078 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATG
1 GTGCGAGTTACTAAATCCGGGTTATGTCCCGAAGGCATC
* * *
11817117 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT
1 GTGCGAGTTACTAAATCCGGGTTATGTCCCGAAGGCAT
11817155 TTGAACGAGG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 34 0.51
40 33 0.49
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
GTGCGAGTTACTAAATCCGGGTTATGTCCCGAAGGCATC
Found at i:11817175 original size:79 final size:78
Alignment explanation
Indices: 11817046--11817190 Score: 173
Period size: 79 Copynumber: 1.8 Consensus size: 78
11817036 TTGTGCGAGA
* * ** ** * **
11817046 TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAA
1 TACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCC-GGTTAAATCCCGAA
11817111 GGCATGGTGTGAGT
65 GGCATGGTGTGAGT
* * *
11817125 TACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAG
1 TACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGTTAAATCCCGAAG
11817190 G
66 G
11817191 TACGTGATTT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 14 0.26
79 40 0.74
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGTTAAATCCCGAAG
GCATGGTGTGAGT
Found at i:11818114 original size:48 final size:48
Alignment explanation
Indices: 11818049--11818141 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
11818039 ATTATAGGAA
*
11818049 CAGTACAGAAAGAGATATTCGGGTTCTTGTGGAACAGGGCCAGAACAG
1 CAGTACAGAAAGAGATATCCGGGTTCTTGTGGAACAGGGCCAGAACAG
*
11818097 CAGTACAGTAAGAGATATCCGGGTTCTTGTGGAACAGGGCCAGAA
1 CAGTACAGAAAGAGATATCCGGGTTCTTGTGGAACAGGGCCAGAA
11818142 TAGTTTCTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.19
Consensus pattern (48 bp):
CAGTACAGAAAGAGATATCCGGGTTCTTGTGGAACAGGGCCAGAACAG
Found at i:11825012 original size:40 final size:39
Alignment explanation
Indices: 11824981--11825190 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
11824971 GGACTAAGAT
* *
11824981 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
11825021 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
11825061 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
11825101 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
11825141 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
11825180 CCGAAGGCATT
1 CCGAAGGCATT
11825191 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:11825144 original size:120 final size:120
Alignment explanation
Indices: 11824928--11825190 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
11824918 TTGAATGCTG
* *
11824928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
11824992 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
11825048 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
11825111 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
11825167 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
11825191 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:11825210 original size:79 final size:80
Alignment explanation
Indices: 11824981--11825225 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
11824971 GGACTAAGAT
* * * * * * * ** *
11824981 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
11825044 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
11825061 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
11825126 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
11825141 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
11825205 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
11825219 CCGAAGG
1 CCGAAGG
11825226 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:11827477 original size:21 final size:22
Alignment explanation
Indices: 11827453--11827498 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11827443 CTAGCACGGC
**
11827453 CGTG-CCCTAGGGTCACATCGG
1 CGTGACCCTAGGACCACATCGG
*
11827474 CGTGACCCTTGGACCACATCGG
1 CGTGACCCTAGGACCACATCGG
11827496 CGT
1 CGT
11827499 ATGAGCCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.15, C:0.35, G:0.30, T:0.20
Consensus pattern (22 bp):
CGTGACCCTAGGACCACATCGG
Found at i:11830391 original size:29 final size:29
Alignment explanation
Indices: 11830358--11830438 Score: 162
Period size: 29 Copynumber: 2.8 Consensus size: 29
11830348 CACCTTGACA
11830358 CGAACTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAATGAACAAGTTCTTCATCG
11830387 CGAACTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAATGAACAAGTTCTTCATCG
11830416 CGAACTCTCAATGAACAAGTTCT
1 CGAACTCTCAATGAACAAGTTCT
11830439 CCACCTCTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (29 bp):
CGAACTCTCAATGAACAAGTTCTTCATCG
Found at i:11834661 original size:41 final size:41
Alignment explanation
Indices: 11834603--11834690 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
11834593 AAGGTTCGCG
11834603 AAAAGGGAAGGATTTGTTTCATAAATAGACCCTTTTAGGAGC
1 AAAA-GGAAGGATTTGTTTCATAAATAGACCCTTTTAGGAGC
*
11834645 AAAAGGAAGGATTTGTTTCATAAATAGACCCTTTTAGGCGC
1 AAAAGGAAGGATTTGTTTCATAAATAGACCCTTTTAGGAGC
11834686 AAAAG
1 AAAAG
11834691 CCCCCCCACC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 41 0.91
42 4 0.09
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (41 bp):
AAAAGGAAGGATTTGTTTCATAAATAGACCCTTTTAGGAGC
Found at i:11836407 original size:180 final size:179
Alignment explanation
Indices: 11835979--11836784 Score: 930
Period size: 180 Copynumber: 4.5 Consensus size: 179
11835969 TTGATAGGTT
** * * * * * * *
11835979 AAATCTGCTCCATTGCAAATACATGGAGATAAGATTCATCATTTTC--A-ATTTGCTCCACTGGA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTCGCTGCA
* * * * *
11836041 A-CTTCAGGGAGATAAGATCCTCAATCCTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACT
66 ATC-TCAGGGAGATAAAATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* *
11836105 CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAAATGAGGCTAGTGGTA
130 CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
* * * **
11836155 AAATTTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCATTGTC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTCGCTG-C
* * * * * * * *
11836220 -GTCTCAGGGATATAAAATCTTTAATTCTTAGTCTGCTTCTTTGCTACCTCAAGAAAATAAAATT
65 AATCTCAGGGAGATAAAATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* *
11836284 CATTCTTCAACCTGCTCGCTTGCTACCTCAAAGAGATAAGG-TCAGTGGCTA
130 CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-AGTGG-TA
* * *
11836335 AAATTTACTCCATCGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTCGCTGCA
* *
11836400 ATCTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTC
66 ATCTCAGGGAGATAAAATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
11836465 ATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TAGTGGTA
* * *
11836515 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCGTCTGCGAAGATCTAC-TCTGCTGC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTC-GCTGC
* * * * *
11836579 AA-CTTCAGTGAGATAAGATTTTTAATTCCCAGTCTGCTTCCTTGCTACCTCTGGAAGATAAGAC
65 AATC-TCAGGGAGATAAAATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
* * *
11836643 TCATTCTTCAACCTGCTCTCATGCTACCTCAGAGAGATGAGGCTGGTGGTA
129 TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
* * * * * * * *
11836694 AAATCTGCTCCATTTCCAATACATAGAGATAAGATTCATCATCTACGAATATCT-ATTCCGCTAC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTT-CGCTGC
* *
11836758 AA-CTTCAGGGAGATAAGATCTTCAATT
65 AATC-TCAGGGAGATAAAATCTTTAATT
11836785 TTTACCTAAT
Statistics
Matches: 540, Mismatches: 76, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
176 39 0.07
178 2 0.00
179 189 0.35
180 305 0.56
181 4 0.01
182 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (179 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTCGCTGCA
ATCTCAGGGAGATAAAATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
Found at i:11849560 original size:17 final size:17
Alignment explanation
Indices: 11849538--11849571 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11849528 TATCATTTAG
11849538 TTAAAATATGAATTATA
1 TTAAAATATGAATTATA
11849555 TTAAAATATGAATTATA
1 TTAAAATATGAATTATA
11849572 AGATTAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TTAAAATATGAATTATA
Found at i:11862474 original size:6 final size:6
Alignment explanation
Indices: 11862465--11862493 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11862455 ATAAACAAAA
11862465 AATTTC AATTTC AATTTC AATTTC AATTT
1 AATTTC AATTTC AATTTC AATTTC AATTT
11862494 ATACTACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
AATTTC
Found at i:11862728 original size:23 final size:23
Alignment explanation
Indices: 11862701--11862758 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
11862691 ACAGAAAATC
11862701 GAACAAATCCTATTGAACAGCAG
1 GAACAAATCCTATTGAACAGCAG
* *
11862724 GAACAAAACCTGTTGAACAGCAG
1 GAACAAATCCTATTGAACAGCAG
*
11862747 GAATAAGATCCT
1 GAACAA-ATCCT
11862759 GAAACAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (23 bp):
GAACAAATCCTATTGAACAGCAG
Found at i:11863936 original size:38 final size:38
Alignment explanation
Indices: 11863885--11863963 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
11863875 CTCCACAGAG
11863885 TAAAAGAAAAACTCTAGTTTGGGACAATACCAACCCAT
1 TAAAAGAAAAACTCTAGTTTGGGACAATACCAACCCAT
11863923 TAAAAGAAAAACTCTAGTTTGGGACAATACCAACCCAT
1 TAAAAGAAAAACTCTAGTTTGGGACAATACCAACCCAT
11863961 TAA
1 TAA
11863964 GGAGTCCATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (38 bp):
TAAAAGAAAAACTCTAGTTTGGGACAATACCAACCCAT
Found at i:11869976 original size:15 final size:14
Alignment explanation
Indices: 11869950--11870036 Score: 68
Period size: 15 Copynumber: 6.0 Consensus size: 14
11869940 TATTCTAATA
*
11869950 CTATTATTATTTAT
1 CTATTTTTATTTAT
11869964 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
11869979 CTATTTGTATTTCT
1 CTATTTTTATTTAT
*
11869993 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
*
11870008 CTATTTATTATTTTT
1 CTATTT-TTATTTAT
* *
11870023 TTATTTCTATTTAT
1 CTATTTTTATTTAT
11870037 ATACTAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
14 25 0.42
15 32 0.54
16 2 0.03
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.67
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:11869989 original size:14 final size:15
Alignment explanation
Indices: 11869957--11869990 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11869947 ATACTATTAT
*
11869957 TATTTATCTAATTTT
1 TATTTATCTAATTTG
11869972 TATTTATCT-ATTTG
1 TATTTATCTAATTTG
11869986 TATTT
1 TATTT
11869991 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTG
Found at i:11869996 original size:44 final size:44
Alignment explanation
Indices: 11869899--11870034 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
11869889 TTTAATATAT
* * * * *
11869899 TATTGCTATTATTTTTATGTTTCTATTTA-TATTTAT-T-TTAC
1 TATTTCTACTATTATTATATTTCTATTTATTATTTATCTATTTC
* *
11869940 TATTCTAATACTATTATTAT-TTATCTAATTT-TTATTTATCTATTTG
1 TATT-T-CTACTATTATTATATT-TCT-ATTTATTATTTATCTATTTC
* *
11869986 TATTTCTACTATTATTATATTTCTATTTATTATTTTTTTATTTC
1 TATTTCTACTATTATTATATTTCTATTTATTATTTATCTATTTC
11870030 TATTT
1 TATTT
11870035 ATATACTAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
41 4 0.05
42 2 0.03
43 17 0.22
44 43 0.57
45 4 0.05
46 6 0.08
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.65
Consensus pattern (44 bp):
TATTTCTACTATTATTATATTTCTATTTATTATTTATCTATTTC
Found at i:11870014 original size:52 final size:50
Alignment explanation
Indices: 11869924--11870057 Score: 118
Period size: 50 Copynumber: 2.7 Consensus size: 50
11869914 TATGTTTCTA
* * * *
11869924 TTTATATTTATTTTACTATTCTAATACTATTATTA-TT-TATCTA--ATTTT
1 TTTATATCTA-TTTA-TATACTAATATTATTATTATTTCTATTTATTATTTT
* * *
11869972 TATT-TATCTATTTGTATTTCTACTATTATTA-TATTTCTATTTATTATTTT
1 T-TTATATCTATTTATA-TACTAATATTATTATTATTTCTATTTATTATTTT
*
11870022 TTTATTTCTATTTATATACTAATATTATTATTATTT
1 TTTATATCTATTTATATACTAATATTATTATTATTT
11870058 TTCTTATATA
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
46 4 0.06
47 17 0.25
48 11 0.16
49 16 0.23
50 21 0.30
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (50 bp):
TTTATATCTATTTATATACTAATATTATTATTATTTCTATTTATTATTTT
Found at i:11870027 original size:29 final size:30
Alignment explanation
Indices: 11869907--11870027 Score: 81
Period size: 29 Copynumber: 4.2 Consensus size: 30
11869897 ATTATTGCTA
* *
11869907 TTATTTTTATGTTTCTATTTA-TATTTATT
1 TTATTATTATATTTCTATTTATTATTTATT
* * * * *
11869936 TTACTATTCTAATACTA-TTATTATTTATC
1 TTATTATTATATTTCTATTTATTATTTATT
* * * * *
11869965 TAATTTTTAT-TTATCTATTT-GTATTTCTA
1 TTATTATTATATT-TCTATTTATTATTTATT
*
11869994 CTATTATTATATTTCTATTTATTATTT-TT
1 TTATTATTATATTTCTATTTATTATTTATT
11870023 TTATT
1 TTATT
11870028 TCTATTTATA
Statistics
Matches: 65, Mismatches: 22, Indels: 10
0.67 0.23 0.10
Matches are distributed among these distances:
28 4 0.06
29 52 0.80
30 9 0.14
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (30 bp):
TTATTATTATATTTCTATTTATTATTTATT
Found at i:11870220 original size:25 final size:24
Alignment explanation
Indices: 11870159--11870238 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
11870149 TATAACGCTC
* *
11870159 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
11870183 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
**
11870208 ATTTCAAACTTTTTTTACACTTTATAT
1 ATTTCAAA-TTTTCATACA--TTATAT
11870235 ATTT
1 ATTT
11870239 TGAATTGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 7 0.16
25 27 0.61
27 10 0.23
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:11877103 original size:35 final size:35
Alignment explanation
Indices: 11877064--11877135 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
11877054 TTCACCCTAC
11877064 AAAATTTATTGTCATATGCCACTTAATGTTATATA
1 AAAATTTATTGTCATATGCCACTTAATGTTATATA
11877099 AAAATTTATTGTCATATGCCACTTAATGTTATATA
1 AAAATTTATTGTCATATGCCACTTAATGTTATATA
11877134 AA
1 AA
11877136 CTAAGCATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (35 bp):
AAAATTTATTGTCATATGCCACTTAATGTTATATA
Found at i:11880864 original size:48 final size:48
Alignment explanation
Indices: 11880792--11880885 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
11880782 TATGTAAATG
*
11880792 AGTTATGTCCAAACTTGATCATAACTTTTTATAAATAAATACATTATA
1 AGTTATGCCCAAACTTGATCATAACTTTTTATAAATAAATACATTATA
* *
11880840 AGTTATGCCCATACTT-AGTCATAACTTTTTATAAATAAATATATTA
1 AGTTATGCCCAAACTTGA-TCATAACTTTTTATAAATAAATACATTA
11880886 CAACACTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (48 bp):
AGTTATGCCCAAACTTGATCATAACTTTTTATAAATAAATACATTATA
Found at i:11883198 original size:25 final size:25
Alignment explanation
Indices: 11883160--11883238 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
11883150 GTCATTAGGG
11883160 TTACTGAT-TCTCAGCTTGAGAGAGC
1 TTACTGATAT-TCAGCTTGAGAGAGC
* *
11883185 TTACTGATATTCAGC-TCACATGAGC
1 TTACTGATATTCAGCTTGAGA-GAGC
* *
11883210 TTACCGTTATTCAGCTTG-GAAGAGC
1 TTACTGATATTCAGCTTGAG-AGAGC
11883235 TTAC
1 TTAC
11883239 CATTTACAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.07
25 38 0.86
26 3 0.07
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (25 bp):
TTACTGATATTCAGCTTGAGAGAGC
Found at i:11886138 original size:26 final size:28
Alignment explanation
Indices: 11886085--11886140 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
11886075 TTTTTTTTTT
* * *
11886085 ATATTTATTATTTCTCTCATTTTAGTTC
1 ATATTGATTACTTCTCTCATTGTAGTTC
11886113 ATATTGATTACTTCTCT-ATTGT-GTTC
1 ATATTGATTACTTCTCTCATTGTAGTTC
11886139 AT
1 AT
11886141 TTTGTGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 4 0.16
28 15 0.60
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (28 bp):
ATATTGATTACTTCTCTCATTGTAGTTC
Found at i:11888592 original size:15 final size:15
Alignment explanation
Indices: 11888574--11888608 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11888564 TAAATTTGTC
*
11888574 TAAGTTAAGTTAATT
1 TAAGTTAACTTAATT
11888589 TAAGTTAACTTAATT
1 TAAGTTAACTTAATT
11888604 TAAGT
1 TAAGT
11888609 CTCGAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (15 bp):
TAAGTTAACTTAATT
Found at i:11891868 original size:25 final size:24
Alignment explanation
Indices: 11891840--11891930 Score: 112
Period size: 25 Copynumber: 3.7 Consensus size: 24
11891830 AATTGCCTTC
11891840 CAGTCGAACAGTCAATCGGACATGT
1 CAGTCGAACAGTCAATCGGACAT-T
* *
11891865 CAGTCGAACAGTCATTCAGACAATT
1 CAGTCGAACAGTCAATCGGAC-ATT
*
11891890 CAGTCGAACAGTCAATTAGG-CATTT
1 CAGTCGAACAGTCAA-TCGGACA-TT
11891915 CAGTCGAACAGTCAAT
1 CAGTCGAACAGTCAAT
11891931 ATGATGCATA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.03
25 52 0.90
26 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (24 bp):
CAGTCGAACAGTCAATCGGACATT
Found at i:11892580 original size:4 final size:4
Alignment explanation
Indices: 11892571--11892598 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
11892561 AGTTTATGCA
11892571 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
11892599 CAATCAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:11895643 original size:58 final size:58
Alignment explanation
Indices: 11895579--11895702 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 58
11895569 ATAGAAATGG
*
11895579 TAAAAATGGAGAAATGAGAAAT-ATTTAGAAATGATTAT-GATTTTCTCCAAAATGAAAA
1 TAAAAATGGAGAAATG-G-AATCATTTAGAAATGAATATGGATTTTCTCCAAAATGAAAA
* * * * *
11895637 TAAAAATGGAGAAATGGAATCATTTGGAAATGAATGTGGTTTTTTTCTAAAATGAAAA
1 TAAAAATGGAGAAATGGAATCATTTAGAAATGAATATGGATTTTCTCCAAAATGAAAA
*
11895695 TGAAAATG
1 TAAAAATG
11895703 ACTTGAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 3 0.05
57 14 0.25
58 40 0.70
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.31
Consensus pattern (58 bp):
TAAAAATGGAGAAATGGAATCATTTAGAAATGAATATGGATTTTCTCCAAAATGAAAA
Found at i:11899923 original size:25 final size:26
Alignment explanation
Indices: 11899877--11899930 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
11899867 ATCAATTAAA
* *
11899877 ATTTATTATTAAATATTTAATCCAAAT
1 ATTTATTAATAAATA-TAAATCCAAAT
*
11899904 ATTTATTAATAAATA-AAATCTAAAT
1 ATTTATTAATAAATATAAATCCAAAT
11899929 AT
1 AT
11899931 ATGAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.42
27 14 0.58
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTTATTAATAAATATAAATCCAAAT
Found at i:11900712 original size:36 final size:35
Alignment explanation
Indices: 11900672--11900766 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 35
11900662 TGGTTGAATT
*
11900672 TTAAACATTTTAAAAATTAAAATATAGAAAAAAATA
1 TTAAA-ATTTTAAAAATTAAAAAATAGAAAAAAATA
* * *
11900708 TTAAAAGTATAAGACATTAAAAAATAGAAAAAAATA
1 TTAAAATTTTAA-AAATTAAAAAATAGAAAAAAATA
11900744 -TAAAATTTCTAAAAA-TAAAAAAT
1 TTAAAATTT-TAAAAATTAAAAAAT
11900767 CACTAAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 8 0.16
35 13 0.26
36 29 0.58
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.27
Consensus pattern (35 bp):
TTAAAATTTTAAAAATTAAAAAATAGAAAAAAATA
Found at i:11900772 original size:17 final size:17
Alignment explanation
Indices: 11900737--11900778 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11900727 AAAAATAGAA
* **
11900737 AAAAATATAAAATTTCT
1 AAAAATAAAAAATCACT
11900754 AAAAATAAAAAATCACT
1 AAAAATAAAAAATCACT
11900771 -AAAATAAA
1 AAAAATAAA
11900779 GAAAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATAAAAAATCACT
Found at i:11908537 original size:58 final size:58
Alignment explanation
Indices: 11908473--11908589 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
11908463 CCAAAAATGC
11908473 ATTAAGTATAAGACTAAAACATGTTACTTTTAGCACTTATCAATGCATTTGAAAACAT
1 ATTAAGTATAAGACTAAAACATGTTACTTTTAGCACTTATCAATGCATTTGAAAACAT
* * *
11908531 ATTAAGTATAAGGCTAAAACATGTTATTTTTAGCGCTTATCAATGCATTTGAAAACAT
1 ATTAAGTATAAGACTAAAACATGTTACTTTTAGCACTTATCAATGCATTTGAAAACAT
11908589 A
1 A
11908590 CACCCAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (58 bp):
ATTAAGTATAAGACTAAAACATGTTACTTTTAGCACTTATCAATGCATTTGAAAACAT
Found at i:11908800 original size:93 final size:93
Alignment explanation
Indices: 11908695--11909162 Score: 936
Period size: 93 Copynumber: 5.0 Consensus size: 93
11908685 TTCAATAGTG
11908695 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
1 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
11908760 ATGCCTATGGGATTATATTAAGGTCGTA
66 ATGCCTATGGGATTATATTAAGGTCGTA
11908788 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
1 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
11908853 ATGCCTATGGGATTATATTAAGGTCGTA
66 ATGCCTATGGGATTATATTAAGGTCGTA
11908881 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
1 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
11908946 ATGCCTATGGGATTATATTAAGGTCGTA
66 ATGCCTATGGGATTATATTAAGGTCGTA
11908974 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
1 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
11909039 ATGCCTATGGGATTATATTAAGGTCGTA
66 ATGCCTATGGGATTATATTAAGGTCGTA
11909067 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
1 TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
11909132 ATGCCTATGGGATTATATTAAGGTCGTA
66 ATGCCTATGGGATTATATTAAGGTCGTA
11909160 TTA
1 TTA
11909163 AATTTTTGTT
Statistics
Matches: 375, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 375 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (93 bp):
TTAGAAAAATACTGGTTTCAAGACCATAATTTTGACAAGTGTGTTATTATTTTAGTGTTTATTTA
ATGCCTATGGGATTATATTAAGGTCGTA
Found at i:11911406 original size:54 final size:54
Alignment explanation
Indices: 11911319--11911439 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 54
11911309 GTATTTCAAG
* ** * *
11911319 TCAGTGAGTTATATGGCCTAACACATGGCCTAGCACACGGG-GTTGTGTGGTAAC
1 TCAGTGAGTTACATGGCCTAACACAAAGCCTAGCACACGGGTG-CGTGTGGCAAC
* *
11911373 TCAGGGAGTTACATGGCCTAGCACAAAGCCTAGCACACGGGTGCGTGTGGCAAC
1 TCAGTGAGTTACATGGCCTAACACAAAGCCTAGCACACGGGTGCGTGTGGCAAC
*
11911427 TCAATGAGTTACA
1 TCAGTGAGTTACA
11911440 CAGGTGAGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (54 bp):
TCAGTGAGTTACATGGCCTAACACAAAGCCTAGCACACGGGTGCGTGTGGCAAC
Found at i:11914369 original size:31 final size:29
Alignment explanation
Indices: 11914334--11914412 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 29
11914324 AGGATGAGCC
11914334 CACGGGCGTGTGAGTCCAC-ATGGTCCACCTA
1 CACGGGCGTGT--GTCC-CTATGGTCCACCTA
*
11914365 CACGGGCGTGTTTCCCTTTATGGTCCACCTA
1 CACGGGCGTGTGTCCC--TATGGTCCACCTA
*
11914396 CACGGGCGTGTTTCCCT
1 CACGGGCGTGTGTCCCT
11914413 TTATGTTAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 1 0.02
29 4 0.09
31 39 0.89
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.27
Consensus pattern (29 bp):
CACGGGCGTGTGTCCCTATGGTCCACCTA
Found at i:11914413 original size:31 final size:31
Alignment explanation
Indices: 11914353--11914417 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
11914343 GTGAGTCCAC
11914353 ATGGTCCACCTACACGGGCGTGTTTCCCTTT
1 ATGGTCCACCTACACGGGCGTGTTTCCCTTT
11914384 ATGGTCCACCTACACGGGCGTGTTTCCCTTT
1 ATGGTCCACCTACACGGGCGTGTTTCCCTTT
11914415 ATG
1 ATG
11914418 TTAAGGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.14, C:0.31, G:0.23, T:0.32
Consensus pattern (31 bp):
ATGGTCCACCTACACGGGCGTGTTTCCCTTT
Done.