Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 308 of 335
Found at i:91328150 original size:20 final size:20
Alignment explanation
Indices: 91328125--91328163 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
91328115 ATCCAATTCA
91328125 TCTCATTTAAACAAGGGATT
1 TCTCATTTAAACAAGGGATT
91328145 TCTCATTTAAACAAGGGAT
1 TCTCATTTAAACAAGGGAT
91328164 CTTACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TCTCATTTAAACAAGGGATT
Found at i:91335056 original size:34 final size:34
Alignment explanation
Indices: 91334940--91335063 Score: 142
Period size: 34 Copynumber: 3.6 Consensus size: 34
91334930 ACATATAAAA
* *
91334940 ATATCATATCA-ACATGTCATATTACCATAAACAT
1 ATATCAAATCAGA-ATGTCATATTTCCATAAACAT
* * *
91334974 ATATCAGATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAAATCAGAATGTCATATTTCCATAAACAT
* *
91335008 ATATCGAATCAGAATGTCATATTTCCATAAGCAT
1 ATATCAAATCAGAATGTCATATTTCCATAAACAT
* * *
91335042 ATGTCAAATTAGAATGTAATAT
1 ATATCAAATCAGAATGTCATAT
91335064 CATATTAGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 76 0.99
35 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (34 bp):
ATATCAAATCAGAATGTCATATTTCCATAAACAT
Found at i:91337171 original size:141 final size:142
Alignment explanation
Indices: 91336913--91337185 Score: 322
Period size: 141 Copynumber: 1.9 Consensus size: 142
91336903 TTGATGTCAT
* * * *
91336913 TTTAAAGGTTTAGCCCAGACGAGTAACCTTACATGTACATTTACAGCTTTAGCCAAGCTATTTGA
1 TTTAAAGGTTCAACCCAGACGAGTAACCTGACATGTACATTTACAGCTTGAGCCAAGCTATTTGA
* * * *
91336978 TGTGTTGAGAAAGGCTTAAACTAGAAAGCTAACCTGACATTAATATATGTTCATCTCGGACGAGC
66 TGTGTCGAGAAAGGCTTAAACCAGAAAGCTAACCTGACATGAATATAAGTTCATCTCGGACGAGC
91337043 AACCTAAGGTTG
131 AACCTAAGGTTG
* *
91337055 TTTAAAGGTTCAACCCAGAC-AGGTAACCTGACATGTATA-TTACAGCTATGA-TCAAGCTATTT
1 TTTAAAGGTTCAACCCAGACGA-GTAACCTGACATGTACATTTACAGCT-TGAGCCAAGCTATTT
* * ** * * *
91337117 GATGTGTCGATAATGGCTTAGCCCA-AACGAG-TAACCTGACATGATTATAAGTTCATTTTGGAC
64 GATGTGTCGAGAAAGGCTTAAACCAGAA--AGCTAACCTGACATGAATATAAGTTCATCTCGGAC
91337180 GAGCAA
127 GAGCAA
91337186 TTGATATATC
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
140 2 0.02
141 71 0.65
142 37 0.34
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (142 bp):
TTTAAAGGTTCAACCCAGACGAGTAACCTGACATGTACATTTACAGCTTGAGCCAAGCTATTTGA
TGTGTCGAGAAAGGCTTAAACCAGAAAGCTAACCTGACATGAATATAAGTTCATCTCGGACGAGC
AACCTAAGGTTG
Found at i:91338867 original size:23 final size:23
Alignment explanation
Indices: 91338841--91338885 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
91338831 TGGGTATGTG
*
91338841 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
91338864 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
91338886 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:91344734 original size:18 final size:18
Alignment explanation
Indices: 91344711--91344755 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
91344701 AAAAAAAGTG
* *
91344711 ATAAAAAAAGTACAAAAA
1 ATAAAAAAAGAAAAAAAA
* *
91344729 ATAAAATACGAAAAAAAA
1 ATAAAAAAAGAAAAAAAA
91344747 ATAAAAAAA
1 ATAAAAAAA
91344756 ATTCTGTGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (18 bp):
ATAAAAAAAGAAAAAAAA
Found at i:91351480 original size:21 final size:21
Alignment explanation
Indices: 91351455--91351502 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
91351445 TTTTACCTTT
91351455 AAATCTTGAATCAAGAACCTC
1 AAATCTTGAATCAAGAACCTC
** *
91351476 AAATCTTGAATTTAGAACCTT
1 AAATCTTGAATCAAGAACCTC
91351497 AAATCT
1 AAATCT
91351503 CGAACCTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (21 bp):
AAATCTTGAATCAAGAACCTC
Found at i:91351700 original size:21 final size:21
Alignment explanation
Indices: 91351654--91351700 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
91351644 TTCTGAGTTT
* *
91351654 AGGTTCATGGTTTAGGGTTTA
1 AGGTTCATGATTTAGGGTTCA
*
91351675 GGGTTCATGATTT-GGTGTTCA
1 AGGTTCATGATTTAGG-GTTCA
91351696 AGGTT
1 AGGTT
91351701 TGAGGTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.17, C:0.06, G:0.34, T:0.43
Consensus pattern (21 bp):
AGGTTCATGATTTAGGGTTCA
Found at i:91351820 original size:21 final size:21
Alignment explanation
Indices: 91351778--91351820 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
91351768 GTTTGATATA
*
91351778 CAAGGTTCGATATTTTGCGTT
1 CAAGGTTCGATATTTAGCGTT
*
91351799 CAAGGTTC-ATGATTTAGGGTT
1 CAAGGTTCGAT-ATTTAGCGTT
91351820 C
1 C
91351821 GAGATTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.40
Consensus pattern (21 bp):
CAAGGTTCGATATTTAGCGTT
Found at i:91352007 original size:15 final size:15
Alignment explanation
Indices: 91351987--91352015 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91351977 TATTAGCTTT
91351987 GATAAATATTTATTA
1 GATAAATATTTATTA
91352002 GATAAATATTTATT
1 GATAAATATTTATT
91352016 TTTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
GATAAATATTTATTA
Found at i:91352959 original size:15 final size:16
Alignment explanation
Indices: 91352941--91352981 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
91352931 TTAAGTACCA
91352941 AAAAATTAAGTG-TTG
1 AAAAATTAAGTGATTG
*
91352956 AAAAATTGAG-GATTG
1 AAAAATTAAGTGATTG
*
91352971 AAATATTAAGT
1 AAAAATTAAGT
91352982 ACATAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (16 bp):
AAAAATTAAGTGATTG
Found at i:91364366 original size:38 final size:39
Alignment explanation
Indices: 91364313--91364524 Score: 183
Period size: 46 Copynumber: 4.9 Consensus size: 39
91364303 CTGATATGAA
91364313 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
91364352 A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
91364390 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 -------ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
* * *
91364441 AAATGTGTAAGACCCTGGTTGAAAGATTCCATGGCAACGTG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
91364482 ATATGAAATGAACAAGACCATGGTTGAAAGATACTATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
91364525 ATGACAGAAA
Statistics
Matches: 147, Mismatches: 8, Indels: 29
0.80 0.04 0.16
Matches are distributed among these distances:
38 37 0.25
39 1 0.01
41 6 0.04
44 2 0.01
45 1 0.01
46 98 0.67
51 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:91364420 original size:46 final size:46
Alignment explanation
Indices: 91364353--91364568 Score: 288
Period size: 46 Copynumber: 4.7 Consensus size: 46
91364343 GGCAACCTGA
91364353 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
91364399 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
91364445 GTGTAAGACCCTGGTTGAAAGATTCCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * * *
91364491 GAACAAGACCATGGTTGAAAGATACTATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
91364537 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
91364569 TCATGTCAAA
Statistics
Matches: 152, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 152 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:91364547 original size:138 final size:130
Alignment explanation
Indices: 91364303--91364568 Score: 352
Period size: 138 Copynumber: 2.0 Consensus size: 130
91364293 AGTGTGCTCT
*
91364303 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
91364368 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* * *
91364433 CTGATATGAAATGTGTAAGACCCTGGTTGAAAGATTCCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
* *
91364498 ACCATGGTTGAAAGATACTATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
91364563 ATGGCA
123 ATGGCA
91364569 TCATGTCAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
130 46 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 66 0.57
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:91376029 original size:39 final size:39
Alignment explanation
Indices: 91375968--91376089 Score: 181
Period size: 39 Copynumber: 3.1 Consensus size: 39
91375958 AAAGTTGATT
* *
91375968 CCACTCCCCCCATGCTACTTTGTTTTATTATTAATTAAAA
1 CCACT-CCCCCATACTATTTTGTTTTATTATTAATTAAAA
**
91376008 CTGCTCCCCCATACTATTTTGTTTTATTATTAATTAAAA
1 CCACTCCCCCATACTATTTTGTTTTATTATTAATTAAAA
*
91376047 CCATTCCCCCATACTATTTTGTTTTTATTATTAATTAAAA
1 CCACTCCCCCATACTATTTTG-TTTTATTATTAATTAAAA
91376087 CCA
1 CCA
91376090 TACTGTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 50 0.68
40 24 0.32
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (39 bp):
CCACTCCCCCATACTATTTTGTTTTATTATTAATTAAAA
Found at i:91376732 original size:22 final size:23
Alignment explanation
Indices: 91376691--91376747 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
91376681 AACCCCCTCT
**
91376691 AATACAATCTCTTCTCTCCTCAA
1 AATACAATCGATTCTCTCCTCAA
91376714 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCTCAA
*
91376736 AATACCATCGAT
1 AATACAATCGAT
91376748 CCCCCCCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.32
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCTCAA
Found at i:91383145 original size:18 final size:19
Alignment explanation
Indices: 91383124--91383172 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
91383114 GTTGACAATA
91383124 AAGAGGAAGTTGCA-AAT-G
1 AAGAGGAAGTTG-AGAATGG
*
91383142 AAGAGGAAGCTGAGAATGG
1 AAGAGGAAGTTGAGAATGG
91383161 AA-AGGAAGTTGA
1 AAGAGGAAGTTGA
91383173 AAACAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.37, T:0.14
Consensus pattern (19 bp):
AAGAGGAAGTTGAGAATGG
Found at i:91383741 original size:85 final size:85
Alignment explanation
Indices: 91383589--91383759 Score: 211
Period size: 85 Copynumber: 2.0 Consensus size: 85
91383579 GACGCTCCAC
* * *
91383589 ATACTTGTGTTGTTGCAGGTACGTCACAAACTTATCTGAAATTAGATGTTGATCTTATCTTTGAC
1 ATACTTGTGTTGTTGCAGGTACGTCACAAACTCATCCGAAATTAGATGTTGACCTTATCTTTGAC
91383654 ATTGTATTACCTATGGTGAA
66 ATTGTATTACCTATGGTGAA
* * * * *
91383674 ATACTTGTGTTGTTGTAGGTATGTCACAAGA-TCATCCGAAATT-GCATTTTGACCTTATTTTTT
1 ATACTTGTGTTGTTGCAGGTACGTCACAA-ACTCATCCGAAATTAG-ATGTTGACCTTATCTTTG
* * *
91383737 ACATTGTCTTATCTATTGTGAA
64 ACATTGTATTACCTATGGTGAA
91383759 A
1 A
91383760 GTGAATATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 71 0.97
86 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGTACGTCACAAACTCATCCGAAATTAGATGTTGACCTTATCTTTGAC
ATTGTATTACCTATGGTGAA
Found at i:91386877 original size:51 final size:51
Alignment explanation
Indices: 91386774--91386880 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 51
91386764 GTGGTTGCGA
* * * * *** *
91386774 ATTTATTGGAATATGGTTTTTTTAGGGGTATCTTAAAATTTATAGGTATTG
1 ATTTCTTGGAATATGATTTTTTTAGGAGCATCTTAAAACACATAGGCATTG
* *
91386825 ATTTCTTGGAATATGATTTTTTTAGGAGCATCTTAAAACACATGGGCGTTG
1 ATTTCTTGGAATATGATTTTTTTAGGAGCATCTTAAAACACATAGGCATTG
91386876 ATTTC
1 ATTTC
91386881 AAGGTGCATG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.45
Consensus pattern (51 bp):
ATTTCTTGGAATATGATTTTTTTAGGAGCATCTTAAAACACATAGGCATTG
Found at i:91388165 original size:35 final size:35
Alignment explanation
Indices: 91388126--91388195 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
91388116 CGTCTCCGAA
*
91388126 GCTTGGCAAATATGGAAA-GTAATCTTCAAAGATAT
1 GCTTGGCAAATAT-GAAAGGGAATCTTCAAAGATAT
*
91388161 GCTTGGCAAATATGAAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGAAAGGGAATCTTCAAAGATAT
91388196 ACGATCCTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (35 bp):
GCTTGGCAAATATGAAAGGGAATCTTCAAAGATAT
Found at i:91395182 original size:24 final size:23
Alignment explanation
Indices: 91395136--91395183 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
91395126 GAGTTTTCAG
*
91395136 TTTTTTTTCTAAATTTATTATAA
1 TTTTTTTTCTAAATTTATAATAA
91395159 TTTTTTTTCT-AATTGGTATAATAA
1 TTTTTTTTCTAAATT--TATAATAA
91395183 T
1 T
91395184 ACATTTAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTTTTCTAAATTTATAATAA
Found at i:91399680 original size:18 final size:19
Alignment explanation
Indices: 91399643--91399681 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
91399633 ATTACAAAAT
* *
91399643 AATTTAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
91399662 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
91399680 AA
1 AA
91399682 ATTCTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:91399698 original size:20 final size:19
Alignment explanation
Indices: 91399660--91399698 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
91399650 AATAATTTTT
*
91399660 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATATATA
*
91399679 AAAATTCTATAATATATATA
1 AAAATTC-AAAATATATATA
91399699 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATATATATA
Found at i:91410114 original size:50 final size:51
Alignment explanation
Indices: 91410037--91410159 Score: 169
Period size: 50 Copynumber: 2.4 Consensus size: 51
91410027 GACCATGGCA
*
91410037 ACAAGTGTTAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAA-TG
* * *
91410088 A-AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGTTCAATGATAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATG
* *
91410138 ACAAGTGAAAAGTGGTAGCTTC
1 ACAAGTGATAAGTGATAGCTTC
91410160 TACTACCTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
50 42 0.67
51 21 0.33
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATG
Found at i:91410289 original size:31 final size:31
Alignment explanation
Indices: 91410141--91410281 Score: 210
Period size: 31 Copynumber: 4.5 Consensus size: 31
91410131 ATAAATGACA
* **
91410141 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
91410172 AGTGAAAAATGGTAGCTCCGGCTACCTGAAC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
91410203 AGTGAAAAGTGGTAGCTCCGGCTAGCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
91410234 AGTGAAAAGTGGTAGCACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
91410265 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
91410282 TCAGCTACAA
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 98 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:91410473 original size:42 final size:42
Alignment explanation
Indices: 91410408--91410505 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
91410398 TATGTGATTC
* * *
91410408 GTGTTAGACTATAGGTGGGCTATGGCATCGA-TATATGAA-TAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGT-T
*
91410450 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGTT
1 GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGTT
91410492 GTGTAAGACCATAG
1 GTGTAAGACCATAG
91410506 TTGAACTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 48 0.96
43 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGTT
Found at i:91410515 original size:42 final size:42
Alignment explanation
Indices: 91410427--91410522 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
91410417 TATAGGTGGG
**
91410427 CTATGGCATCGATATATGAATATGTGTAAGACCATAGCTGGG
1 CTATGGCATCGATATATGAATATGTGTAAGACCATAGCTGAA
* *
91410469 CTATGGCATC-ATTATGTGAAGT-TGTGTAAGACCATAGTTGAA
1 CTATGGCATCGA-TATATGAA-TATGTGTAAGACCATAGCTGAA
*
91410511 CTATGACATCGA
1 CTATGGCATCGA
91410523 GAAAACGAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
CTATGGCATCGATATATGAATATGTGTAAGACCATAGCTGAA
Found at i:91411252 original size:4 final size:4
Alignment explanation
Indices: 91411243--91411274 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
91411233 AATATATTTG
91411243 TATT TATT TATT TATT TATT TATT T-TT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
91411275 TCCTCTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:91428262 original size:17 final size:18
Alignment explanation
Indices: 91428234--91428267 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
91428224 TATTCTCCAT
91428234 TTTAATTTTCACAATTTA
1 TTTAATTTTCACAATTTA
91428252 TTTAA-TTTCACAATTT
1 TTTAATTTTCACAATTT
91428268 CAATTCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCACAATTTA
Found at i:91428326 original size:24 final size:24
Alignment explanation
Indices: 91428280--91428326 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
91428270 ATTCGATTTT
* *
91428280 AAATTCTATTTTTATTTTATTTAG
1 AAATTCTATTTCTATTCTATTTAG
91428304 AAATTCTTATTTCTATTCT-TTTA
1 AAATTC-TATTTCTATTCTATTTA
91428327 TTATTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATTCTATTTCTATTCTATTTAG
Found at i:91431285 original size:10 final size:10
Alignment explanation
Indices: 91431247--91431295 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
91431237 AACCCAATTT
91431247 TTTAATTTT-
1 TTTAATTTTA
*
91431256 TATTAATTTAA
1 T-TTAATTTTA
91431267 TTTAA-TTTA
1 TTTAATTTTA
91431276 TTTAATTTTA
1 TTTAATTTTA
91431286 CTTT-ATTTTA
1 -TTTAATTTTA
91431296 CTATTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 9 0.26
10 21 0.62
11 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTAATTTTA
Found at i:91431285 original size:15 final size:15
Alignment explanation
Indices: 91431242--91431293 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
91431232 GAGGGAACCC
91431242 AATTT-TTTAATTTT
1 AATTTATTTAATTTT
* *
91431256 TATTAATTTAA-TTT
1 AATTTATTTAATTTT
91431270 AATTTATTTAATTTT
1 AATTTATTTAATTTT
*
91431285 ACTTTATTT
1 AATTTATTT
91431294 TACTATTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 15 0.48
15 16 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTATTTAATTTT
Found at i:91432926 original size:10 final size:10
Alignment explanation
Indices: 91432911--91432960 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
91432901 TAATTTTAGG
91432911 ATTTAT-TTT
1 ATTTATCTTT
91432920 CATTTATCTTT
1 -ATTTATCTTT
91432931 ATTTATCTTT
1 ATTTATCTTT
91432941 ATTTAT-TTGT
1 ATTTATCTT-T
91432951 ATTTATCTTT
1 ATTTATCTTT
91432961 TAGAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:91437199 original size:15 final size:15
Alignment explanation
Indices: 91437176--91437205 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91437166 CATTTATCAG
*
91437176 ACCATACAAAACTAA
1 ACCACACAAAACTAA
91437191 ACCACACAAAACTAA
1 ACCACACAAAACTAA
91437206 CATCTTTCTG
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:0.60, C:0.30, G:0.00, T:0.10
Consensus pattern (15 bp):
ACCACACAAAACTAA
Found at i:91439914 original size:8 final size:9
Alignment explanation
Indices: 91439897--91439922 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
91439887 AAAGTGTTTC
91439897 TAATTTTTT
1 TAATTTTTT
91439906 TAATTTTTT
1 TAATTTTTT
91439915 TAATTTTT
1 TAATTTTT
91439923 ATTAGTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TAATTTTTT
Found at i:91441113 original size:12 final size:12
Alignment explanation
Indices: 91441098--91441136 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
91441088 ACAACTAATA
91441098 ATAAAATTAAAT
1 ATAAAATTAAAT
91441110 ATAATAATT-AAT
1 ATAA-AATTAAAT
91441122 AATAAAATTAAAT
1 -ATAAAATTAAAT
91441135 AT
1 AT
91441137 GTTTATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAAATTAAAT
Found at i:91441136 original size:25 final size:25
Alignment explanation
Indices: 91441074--91441136 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
91441064 AAATGATTTC
* *
91441074 TAAAATAAAATAAAACAACTAATAA
1 TAAAATTAAATATAACAACTAATAA
* *
91441099 TAAAATTAAATATAATAATTAATAA
1 TAAAATTAAATATAACAACTAATAA
91441124 TAAAATTAAATAT
1 TAAAATTAAATAT
91441137 GTTTATAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAAATTAAATATAACAACTAATAA
Found at i:91443700 original size:12 final size:12
Alignment explanation
Indices: 91443683--91443707 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91443673 ATAAAATCAG
91443683 TTGATTTAAATC
1 TTGATTTAAATC
91443695 TTGATTTAAATC
1 TTGATTTAAATC
91443707 T
1 T
91443708 GAATGAATCA
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTGATTTAAATC
Found at i:91448146 original size:21 final size:21
Alignment explanation
Indices: 91448118--91448174 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
91448108 ACACTGGCTG
*
91448118 CTCACACGGGCGTGTGT-CCC
1 CTCACACGGGCGTGTGTGACC
*
91448138 CTCCACACGAGCGTGTGTGACC
1 CT-CACACGGGCGTGTGTGACC
*
91448160 CTCACATGGGCGTGT
1 CTCACACGGGCGTGT
91448175 AGACCCCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 25 0.81
22 4 0.13
ACGTcount: A:0.14, C:0.35, G:0.30, T:0.21
Consensus pattern (21 bp):
CTCACACGGGCGTGTGTGACC
Found at i:91452868 original size:2 final size:2
Alignment explanation
Indices: 91452863--91452901 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
91452853 GGAAAAAAAC
91452863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
91452902 TACATAACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91455342 original size:26 final size:26
Alignment explanation
Indices: 91455313--91455368 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
91455303 GTGTGATCCA
91455313 AAGTCAAATACAATTGTCTAGGAACT
1 AAGTCAAATACAATTGTCTAGGAACT
91455339 AAGTCAAATACAATTGTCTAGGAACT
1 AAGTCAAATACAATTGTCTAGGAACT
91455365 AAGT
1 AAGT
91455369 AGTGCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (26 bp):
AAGTCAAATACAATTGTCTAGGAACT
Found at i:91455489 original size:6 final size:6
Alignment explanation
Indices: 91455478--91455507 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
91455468 TTCATTGATT
91455478 ATATAA ATATAA ATATAA ATATAA ACTATA
1 ATATAA ATATAA ATATAA ATATAA A-TATA
91455508 TTTTAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:91463753 original size:20 final size:21
Alignment explanation
Indices: 91463728--91463766 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91463718 AAAAATTTTC
91463728 AATAAATA-AAAAATAAATTT
1 AATAAATATAAAAATAAATTT
*
91463748 AATAAATATTAAAATAAAT
1 AATAAATATAAAAATAAAT
91463767 AAATGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAAATATAAAAATAAATTT
Found at i:91465419 original size:31 final size:31
Alignment explanation
Indices: 91465381--91465444 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
91465371 TATTACTACC
91465381 TAACAAGTACTAAATGCATCCCTCTTGTTTT
1 TAACAAGTACTAAATGCATCCCTCTTGTTTT
91465412 TAACAAGTACTAAATGCATCCCTCTTGTTTT
1 TAACAAGTACTAAATGCATCCCTCTTGTTTT
91465443 TA
1 TA
91465445 CTTTCACTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (31 bp):
TAACAAGTACTAAATGCATCCCTCTTGTTTT
Found at i:91466115 original size:8 final size:8
Alignment explanation
Indices: 91466102--91466126 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
91466092 AACGGTTAAC
91466102 TTAAAAGT
1 TTAAAAGT
91466110 TTAAAAGT
1 TTAAAAGT
91466118 TTAAAAGT
1 TTAAAAGT
91466126 T
1 T
91466127 ATGTGTTTCA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (8 bp):
TTAAAAGT
Found at i:91466897 original size:39 final size:39
Alignment explanation
Indices: 91466843--91466917 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
91466833 CTAAATGTAT
*
91466843 TAAACATACGAATTCAAACCCCAAAAACAAAACTCTTAC
1 TAAACATACAAATTCAAACCCCAAAAACAAAACTCTTAC
*
91466882 TAAACATACAAATTCAAACCCCAAAAATAAAACTCT
1 TAAACATACAAATTCAAACCCCAAAAACAAAACTCT
91466918 AACTCTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (39 bp):
TAAACATACAAATTCAAACCCCAAAAACAAAACTCTTAC
Found at i:91473675 original size:30 final size:30
Alignment explanation
Indices: 91473641--91473703 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
91473631 ACTTATTTTA
91473641 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
91473671 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
91473701 TTG
1 TTG
91473704 CTTGTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:91474215 original size:15 final size:15
Alignment explanation
Indices: 91474195--91474235 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
91474185 TTTGTTTTTC
91474195 CAAAATCTTTCATCT
1 CAAAATCTTTCATCT
91474210 CAAAATCTTTCATCT
1 CAAAATCTTTCATCT
*
91474225 CAAATTCTTTC
1 CAAAATCTTTC
91474236 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (15 bp):
CAAAATCTTTCATCT
Found at i:91478149 original size:12 final size:12
Alignment explanation
Indices: 91478132--91478156 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91478122 TAGATGAGCA
91478132 ACTCACAAGACC
1 ACTCACAAGACC
91478144 ACTCACAAGACC
1 ACTCACAAGACC
91478156 A
1 A
91478157 TAACCCAAAA
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:0.44, C:0.40, G:0.08, T:0.08
Consensus pattern (12 bp):
ACTCACAAGACC
Found at i:91479310 original size:101 final size:101
Alignment explanation
Indices: 91479135--91479337 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
91479125 GTAGGCATGG
* *
91479135 TCAGTTTTAGTATCATAGTGAATATTTTCATCTTTTGAGTCCATTTCATCATCTTGGCATATAAA
1 TCAGTTTTAGTATCATAGTGAATATTTTCATCTTTTGACTCCATTTCATCATCTTGACATATAAA
91479200 ATTTGTCTCCATATTCTTTCCCTTCTCTTTAAAGGA
66 ATTTGTCTCCATATTCTTTCCCTTCTCTTTAAAGGA
*
91479236 TCAGTTTTAGTATCATAGTGAATATTTTCATCTTTTGCCTCCATTTCATCATCTTGACATATAAA
1 TCAGTTTTAGTATCATAGTGAATATTTTCATCTTTTGACTCCATTTCATCATCTTGACATATAAA
91479301 ATTTGTCTCCATATTCTTTCCCTTCTCTTTAAAGGA
66 ATTTGTCTCCATATTCTTTCCCTTCTCTTTAAAGGA
91479337 T
1 T
91479338 GCTTTATCAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.46
Consensus pattern (101 bp):
TCAGTTTTAGTATCATAGTGAATATTTTCATCTTTTGACTCCATTTCATCATCTTGACATATAAA
ATTTGTCTCCATATTCTTTCCCTTCTCTTTAAAGGA
Found at i:91480266 original size:25 final size:25
Alignment explanation
Indices: 91480232--91480279 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
91480222 AATAAAAAAA
91480232 AGTACAATAATAAGCATTCTCAAAT
1 AGTACAATAATAAGCATTCTCAAAT
91480257 AGTACAATAATAAGCATTCTCAA
1 AGTACAATAATAAGCATTCTCAA
91480280 TCGTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (25 bp):
AGTACAATAATAAGCATTCTCAAAT
Found at i:91490581 original size:53 final size:53
Alignment explanation
Indices: 91490521--91490629 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
91490511 TTCTTTCCCA
91490521 TTTGACAGTTGTACCCGTGTTAGGTCTTAAGTAAATATTTTAGTCTTTTAAAT
1 TTTGACAGTTGTACCCGTGTTAGGTCTTAAGTAAATATTTTAGTCTTTTAAAT
91490574 TTTGACAGTTGTACCCGTGTTAGGTCTTAAGTAAATATTTTAGTCTTTTAAAT
1 TTTGACAGTTGTACCCGTGTTAGGTCTTAAGTAAATATTTTAGTCTTTTAAAT
91490627 TTT
1 TTT
91490630 AAGTAAAGCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (53 bp):
TTTGACAGTTGTACCCGTGTTAGGTCTTAAGTAAATATTTTAGTCTTTTAAAT
Found at i:91490819 original size:64 final size:64
Alignment explanation
Indices: 91490694--91490820 Score: 143
Period size: 64 Copynumber: 2.0 Consensus size: 64
91490684 CACTCAATGA
** ** *
91490694 ACATGAGAATTCAATTTTTTCTCATTATAGTAAAATATTATTATTTATAATGTCATATTTATTT
1 ACATGAGAACACAATTTTTTCTCATTATAGTAAAATATTATTATTTATAAAATAATATTTATTT
* *
91490758 ACATGAGAACACAA-TTTTTGTCATTATAGTAAAAATATT-TGTA-TTATTAAAATAATGTTTAT
1 ACATGAGAACACAATTTTTTCTCATTATAGT-AAAATATTAT-TATTTA-TAAAATAATATTTAT
91490820 T
63 T
91490821 ATAGATGATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
63 19 0.36
64 34 0.64
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (64 bp):
ACATGAGAACACAATTTTTTCTCATTATAGTAAAATATTATTATTTATAAAATAATATTTATTT
Found at i:91490924 original size:20 final size:21
Alignment explanation
Indices: 91490868--91490924 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
91490858 TCTATAATAA
91490868 AAAAAT-CAAAATAATTAAATT
1 AAAAATACAAAAT-ATTAAATT
** * *
91490889 AAATTTATAAATTATT-AATT
1 AAAAATACAAAATATTAAATT
91490909 AAAAATACAAAATATT
1 AAAAATACAAAATATT
91490925 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
20 16 0.59
21 7 0.26
22 4 0.15
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATACAAAATATTAAATT
Found at i:91494506 original size:21 final size:21
Alignment explanation
Indices: 91494482--91494548 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
91494472 TAGACTTCGG
*
91494482 GCTTCCGTTTAGCACTTATGC
1 GCTTCAGTTTAGCACTTATGC
* * *
91494503 GCTTCAG-TTATC-CTT-CGG
1 GCTTCAGTTTAGCACTTATGC
* *
91494521 GCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGC
91494542 GCTTCAG
1 GCTTCAG
91494549 CTAGACTTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 13 0.38
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTATGC
Found at i:91494510 original size:39 final size:39
Alignment explanation
Indices: 91494464--91494564 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
91494454 GCTCTGATGA
91494464 GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGC
1 GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGC
** * *
91494503 GCTTCAGTTATCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGC
*
91494542 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGACTTCGGGCTTC
91494565 AGATCACGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGC
Found at i:91495965 original size:35 final size:35
Alignment explanation
Indices: 91495892--91495972 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
91495882 CAGAATCAGT
* *
91495892 CAGATATAGATTCGGGCCTAAACCCATTACAGATA
1 CAGATATAGATTCGGGCCTAAACCCATCACAGACA
* *
91495927 CAGATGTAGATTCGGGCCTAAACCCATCCCAGACA
1 CAGATATAGATTCGGGCCTAAACCCATCACAGACA
*
91495962 CAGATACAGAT
1 CAGATATAGAT
91495973 GTGTAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (35 bp):
CAGATATAGATTCGGGCCTAAACCCATCACAGACA
Found at i:91498548 original size:18 final size:18
Alignment explanation
Indices: 91498490--91498554 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
91498480 TGCTATGTTT
91498490 CATTTAATTTTTTACTTG
1 CATTTAATTTTTTACTTG
*
91498508 -ATGCT-ATATTTTTA-TTG
1 CAT-TTAAT-TTTTTACTTG
91498525 CTCATTTAATTTTTTACTTG
1 --CATTTAATTTTTTACTTG
*
91498545 CATTTCATTT
1 CATTTAATTT
91498555 AAATTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
17 7 0.19
18 16 0.43
19 7 0.19
20 7 0.19
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (18 bp):
CATTTAATTTTTTACTTG
Found at i:91501369 original size:6 final size:6
Alignment explanation
Indices: 91501358--91501385 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
91501348 AAGTGACTTT
91501358 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
91501386 TATGTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:91501991 original size:18 final size:18
Alignment explanation
Indices: 91501968--91502002 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91501958 TTCATTGCTT
91501968 TTCAAAAGCACTCCTGGC
1 TTCAAAAGCACTCCTGGC
*
91501986 TTCAAAAGCACTTCTGG
1 TTCAAAAGCACTCCTGG
91502003 AAGAAAAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
TTCAAAAGCACTCCTGGC
Found at i:91502592 original size:26 final size:26
Alignment explanation
Indices: 91502553--91502616 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
91502543 TTTAAACCAA
91502553 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* *
91502579 ACTTTTCCACAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
91502605 ACTTTTCAAAAG
1 ACTTTTCAAAAG
91502617 TAACGAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:91502617 original size:13 final size:13
Alignment explanation
Indices: 91502553--91502618 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
91502543 TTTAAACCAA
*
91502553 ACTTTTCAAAAGC
1 ACTTTTCAAAAGT
*
91502566 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
* * *
91502579 ACTTTTCCACAGC
1 ACTTTTCAAAAGT
*
91502592 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
91502605 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
91502618 A
1 A
91502619 ACGAAGAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:91504710 original size:25 final size:23
Alignment explanation
Indices: 91504663--91504708 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
91504653 CAACCAAACT
91504663 TTATTATATATATAGTTTCCACA
1 TTATTATATATATAGTTTCCACA
91504686 TTATTATATATATAGTTTCCACA
1 TTATTATATATATAGTTTCCACA
91504709 CACGCATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (23 bp):
TTATTATATATATAGTTTCCACA
Found at i:91504717 original size:23 final size:23
Alignment explanation
Indices: 91504668--91504717 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
91504658 AAACTTTATT
* **
91504668 ATATATATAGTTTCCACATTATT
1 ATATATATAGTTTCCACATCAGC
91504691 ATATATATAGTTTCCACA-CACGC
1 ATATATATAGTTTCCACATCA-GC
91504714 ATAT
1 ATAT
91504718 GCGTGTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (23 bp):
ATATATATAGTTTCCACATCAGC
Found at i:91506456 original size:15 final size:16
Alignment explanation
Indices: 91506436--91506468 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
91506426 TATATATTTT
91506436 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
91506451 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
91506468 T
1 T
91506469 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:91506541 original size:21 final size:22
Alignment explanation
Indices: 91506515--91506573 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
91506505 GTTTTAAGAA
*
91506515 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
91506536 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
91506558 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
91506574 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:91506588 original size:26 final size:24
Alignment explanation
Indices: 91506544--91506593 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
91506534 ATTTGTTTTA
* *
91506544 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTAAAAT
91506568 ATATTTGATTTATTATATTTTAAAAT
1 ATATTTG-TTT-TTATATTTTAAAAT
91506594 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTAAAAT
Found at i:91506995 original size:20 final size:20
Alignment explanation
Indices: 91506972--91507017 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
91506962 AACTGAACAT
*
91506972 AACAGAACAAAAC-GAAGTAG
1 AACAGAACAAAACAG-AGCAG
*
91506992 AACATAACAAAACAGAGCAG
1 AACAGAACAAAACAGAGCAG
91507012 AACAGA
1 AACAGA
91507018 GCATGTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.61, C:0.17, G:0.17, T:0.04
Consensus pattern (20 bp):
AACAGAACAAAACAGAGCAG
Found at i:91507859 original size:42 final size:42
Alignment explanation
Indices: 91507729--91507859 Score: 120
Period size: 42 Copynumber: 3.1 Consensus size: 42
91507719 ACAGTGAGTC
* * * * *
91507729 ACACGGCCT-GGACACATGCCCATGTTCTTGCTTGTGTGGCTT
1 ACACGGCCTAGG-TACATGCCCATATCCTTGCCTGTATGGCTT
* * * * * ** *
91507771 ACAAGACCTAGGTACACGCTCATATCCTTGCCTGTTTATCTC
1 ACACGGCCTAGGTACATGCCCATATCCTTGCCTGTATGGCTT
*
91507813 ACACGGCCTAGGTACATGCCCATATCCTTGCCCGTATGGCTT
1 ACACGGCCTAGGTACATGCCCATATCCTTGCCTGTATGGCTT
91507855 ACACG
1 ACACG
91507860 ACCTGGGCAC
Statistics
Matches: 67, Mismatches: 21, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
42 65 0.97
43 2 0.03
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (42 bp):
ACACGGCCTAGGTACATGCCCATATCCTTGCCTGTATGGCTT
Found at i:91508427 original size:14 final size:14
Alignment explanation
Indices: 91508408--91508434 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91508398 TTGAAAGGAA
91508408 GAAACCAAAATGAG
1 GAAACCAAAATGAG
91508422 GAAACCAAAATGA
1 GAAACCAAAATGA
91508435 AGAACTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.19, T:0.07
Consensus pattern (14 bp):
GAAACCAAAATGAG
Found at i:91509073 original size:26 final size:26
Alignment explanation
Indices: 91509044--91509095 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
91509034 ACTAAAGAGT
*
91509044 TAGAGAAATATATTGGCTAATTTAGA
1 TAGAGAAATATAATGGCTAATTTAGA
* *
91509070 TAGAGAAATATAATGGTTGATTTAGA
1 TAGAGAAATATAATGGCTAATTTAGA
91509096 CATGGTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (26 bp):
TAGAGAAATATAATGGCTAATTTAGA
Found at i:91510068 original size:45 final size:43
Alignment explanation
Indices: 91510018--91510157 Score: 154
Period size: 45 Copynumber: 3.1 Consensus size: 43
91510008 ACCATAACTA
* * *
91510018 AAAGATGTTATGACATCATGATAAGGATGAGTAAGACAATAGTTG
1 AAAGATGCTATGACATCATGATAA-AATGACTAAGAC-ATAGTTG
*
91510063 AAAGATGCTATGACATCATGATATAAATGATTAAGACCATAGTTG
1 AAAGATGCTATGACATCATGATA-AAATGACTAAGA-CATAGTTG
** * *
91510108 AAAGATGCTATGGTATCATGGTAAATAGGACTAAGATCATAGTTG
1 AAAGATGCTATGACATCATGATAAA-ATGACTAAGA-CATAGTTG
91510153 AAAGA
1 AAAGA
91510158 CGTTATAGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
44 2 0.02
45 79 0.95
46 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (43 bp):
AAAGATGCTATGACATCATGATAAAATGACTAAGACATAGTTG
Found at i:91511551 original size:27 final size:27
Alignment explanation
Indices: 91511507--91511559 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
91511497 TTTATTAACT
*
91511507 AAAATGAAAAACAAAAA-TAAACTTAAA
1 AAAATGAAAAAAAAAAATTAAA-TTAAA
91511534 AAAAT-AAAAAAAATAAATTAAATTAA
1 AAAATGAAAAAAAA-AAATTAAATTAA
91511560 TTTTACAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (27 bp):
AAAATGAAAAAAAAAAATTAAATTAAA
Found at i:91514443 original size:34 final size:34
Alignment explanation
Indices: 91514399--91514467 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
91514389 TGTATCTCAA
*
91514399 AATCAGGACCCAAATTAAGGTTATTATACAAAGT
1 AATCAAGACCCAAATTAAGGTTATTATACAAAGT
91514433 AATCAAGACCCAAATTAAGGTTATTATACAAAGT
1 AATCAAGACCCAAATTAAGGTTATTATACAAAGT
91514467 A
1 A
91514468 GACGCATTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.26
Consensus pattern (34 bp):
AATCAAGACCCAAATTAAGGTTATTATACAAAGT
Found at i:91517811 original size:36 final size:36
Alignment explanation
Indices: 91517771--91517856 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
91517761 TACACGGTTG
* **
91517771 TGTGCCCCACATGGCTTGCATAATTTTGCATGACCA
1 TGTGCCCCACATGGCCTGCATAATTTCACATGACCA
* * ** *
91517807 TGTGCTCCACATAGCCTGCATGGTTTCACATGACCG
1 TGTGCCCCACATGGCCTGCATAATTTCACATGACCA
91517843 TGTGCCCCACATGG
1 TGTGCCCCACATGG
91517857 TCATCCACAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (36 bp):
TGTGCCCCACATGGCCTGCATAATTTCACATGACCA
Found at i:91519216 original size:16 final size:16
Alignment explanation
Indices: 91519190--91519232 Score: 77
Period size: 16 Copynumber: 2.6 Consensus size: 16
91519180 TAAAGTTGTA
91519190 TTGATTGATCTTTTGAC
1 TTGA-TGATCTTTTGAC
91519207 TTGATGATCTTTTGAC
1 TTGATGATCTTTTGAC
91519223 TTGATGATCT
1 TTGATGATCT
91519233 CTCTAGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.51
Consensus pattern (16 bp):
TTGATGATCTTTTGAC
Found at i:91520282 original size:3 final size:3
Alignment explanation
Indices: 91520274--91520299 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
91520264 TATCTTTTAT
91520274 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
91520300 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:91520304 original size:3 final size:3
Alignment explanation
Indices: 91520298--91520333 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
91520288 ATAATAATAA
91520298 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
91520334 GTCTCACTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:91520852 original size:36 final size:37
Alignment explanation
Indices: 91520802--91520872 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
91520792 TAAAAAGAGT
* *
91520802 CAAATT-ATTTTTTTTAATGGAATATGGGCTAAAACA
1 CAAATTAATGTTTTTTAATAGAATATGGGCTAAAACA
*
91520838 CAAATTAATGTTTTTTAATAGAATATTGGCTAAAA
1 CAAATTAATGTTTTTTAATAGAATATGGGCTAAAA
91520873 TATTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 6 0.19
37 25 0.81
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (37 bp):
CAAATTAATGTTTTTTAATAGAATATGGGCTAAAACA
Found at i:91521456 original size:60 final size:60
Alignment explanation
Indices: 91521356--91521482 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
91521346 ATACTAATAG
* * ** *
91521356 TCACTTAATTATTAGTAAATTTTATTTTTTTCATCCAACTATGAAAAGTTACAAAAT-GA
1 TCACTCAAGTATTAGTAAATTTTATTTTACTCATCCAACTATGAAAAATTACAAAATGGA
* *
91521415 TCACTCAAGTATTAGTAAAATTTTCTTTTACTCATCTAACTATGAAAAATTACAAAATGGA
1 TCACTCAAGTATTAGT-AAATTTTATTTTACTCATCCAACTATGAAAAATTACAAAATGGA
91521476 -CACTCAA
1 TCACTCAA
91521483 ACTATTCAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 14 0.24
60 43 0.73
61 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (60 bp):
TCACTCAAGTATTAGTAAATTTTATTTTACTCATCCAACTATGAAAAATTACAAAATGGA
Found at i:91526254 original size:13 final size:13
Alignment explanation
Indices: 91526236--91526280 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
91526226 AATATTTATA
91526236 TTAAAAAATATTG
1 TTAAAAAATATTG
* *
91526249 TTAAAAATTA-TA
1 TTAAAAAATATTG
91526261 TT-AAAAATATTG
1 TTAAAAAATATTG
91526273 TTAAAAAA
1 TTAAAAAA
91526281 CATTTATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 6 0.23
12 6 0.23
13 14 0.54
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (13 bp):
TTAAAAAATATTG
Found at i:91526256 original size:12 final size:12
Alignment explanation
Indices: 91526239--91526279 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
91526229 ATTTATATTA
91526239 AAAAATATTGTT
1 AAAAATATTGTT
*
91526251 AAAAAT-TATATT
1 AAAAATAT-TGTT
91526263 AAAAATATTGTT
1 AAAAATATTGTT
91526275 AAAAA
1 AAAAA
91526280 ACATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (12 bp):
AAAAATATTGTT
Found at i:91526271 original size:24 final size:25
Alignment explanation
Indices: 91526231--91526279 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
91526221 AATATAATAT
91526231 TTATATTAAAAAATATTGTTAAAAA
1 TTATATTAAAAAATATTGTTAAAAA
91526256 TTATATT-AAAAATATTGTTAAAAA
1 TTATATTAAAAAATATTGTTAAAAA
91526280 ACATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
TTATATTAAAAAATATTGTTAAAAA
Found at i:91526280 original size:25 final size:27
Alignment explanation
Indices: 91526229--91526296 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
91526219 TTAATATAAT
91526229 ATTTATATTAAAAAATATTGTT-AAAA-
1 ATTTATATT-AAAAATATTGTTAAAAAC
91526255 A-TTATATTAAAAATATTGTTAAAAAAC
1 ATTTATATTAAAAATATTGTT-AAAAAC
91526282 ATTTATATTAAAAAT
1 ATTTATATTAAAAAT
91526297 TACTGAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
24 12 0.32
25 7 0.18
26 5 0.13
27 1 0.03
28 13 0.34
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (27 bp):
ATTTATATTAAAAATATTGTTAAAAAC
Found at i:91531353 original size:41 final size:39
Alignment explanation
Indices: 91531278--91531486 Score: 186
Period size: 41 Copynumber: 5.1 Consensus size: 39
91531268 GCAAAAATTG
* * *
91531278 TAAAACACAGAGCAATAGTGGCGTTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTT-CAAAAAACGCCGC
* * **
91531319 TAAAAACAGAGCAATAGCTGCGTTTTAACAAAAAACGAGGC
1 TAAAAACAGAGCAATAGCGGCGCTTT--CAAAAAACGCCGC
* **
91531360 TAAAAACAGATCAATAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTC-AAAAAACGCCGC
*
91531400 TAAAAACCAGAG-AATTAGCGGCGCTTTCAGTAAAACGCCGC
1 TAAAAA-CAGAGCAA-TAGCGGCGCTTTCA-AAAAACGCCGC
* * **
91531441 TAAAAACCAGAACATTAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTC-AAAAAACGCCGC
91531482 TAAAA
1 TAAAA
91531487 GTCATATAAC
Statistics
Matches: 144, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 35 0.24
41 107 0.74
42 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (39 bp):
TAAAAACAGAGCAATAGCGGCGCTTTCAAAAAACGCCGC
Found at i:91531435 original size:81 final size:81
Alignment explanation
Indices: 91531309--91531486 Score: 236
Period size: 82 Copynumber: 2.2 Consensus size: 81
91531299 CGTTTTACCA
* * * *
91531309 AAAACGCCGCTAAAAACAGAGCAATAGCTGCGTTTTAACAAAAAACGAGGCTAAAAA-CAGATCA
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTT-ACAAAAAACGACGCTAAAAACCAGAACA
91531373 ATAGCGGCGCTTTCGGT
65 ATAGCGGCGCTTTCGGT
* *
91531390 AAAACGCCGCTAAAAACCAGAG-AATTAGCGGCGCTTT-CAGTAAAACGCCGCTAAAAACCAGAA
1 AAAACGCCGCTAAAAA-CAGAGCAA-TAGCGGCGCTTTACA-AAAAACGACGCTAAAAACCAGAA
*
91531453 CATTAGCGGCGCTTTCGGT
63 CAATAGCGGCGCTTTCGGT
91531472 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
91531487 GTCATATAAC
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
80 2 0.02
81 32 0.37
82 52 0.60
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTACAAAAAACGACGCTAAAAACCAGAACAA
TAGCGGCGCTTTCGGT
Found at i:91531555 original size:22 final size:23
Alignment explanation
Indices: 91531527--91531596 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
91531517 AAAAAATCAT
*
91531527 AAACACT-AATCTAT-AACCCTTA
1 AAACACTAAACCTATGAA-CCTTA
91531549 AAACACTAAACCTATGAACCTTAA
1 AAACACTAAACCTATGAACCTT-A
* *
91531573 AAACCCTAAACCT-TAAACCTTA
1 AAACACTAAACCTATGAACCTTA
91531595 AA
1 AA
91531597 CTATAACTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 10 0.24
23 17 0.40
24 15 0.36
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (23 bp):
AAACACTAAACCTATGAACCTTA
Found at i:91532579 original size:41 final size:40
Alignment explanation
Indices: 91532523--91532647 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 40
91532513 AAAAAAAATC
* *
91532523 AAAATTAAACAATAGTGGCGTTTTTGGGTAAAACGCCACAA
1 AAAATTGAACTATAGTGGCGTTTTT-GGTAAAACGCCACAA
* * * **
91532564 AAAATTGAACTATAGTGGCGTTTTTAAGAAAAATGCCGTAA
1 AAAATTGAACTATAGTGGCGTTTTT-GGTAAAACGCCACAA
*
91532605 AAAATTGAGCTATAGTGGCGTTTTTGGTAAAAACGCCACAA
1 AAAATTGAACTATAGTGGCGTTTTTGGT-AAAACGCCACAA
91532646 AA
1 AA
91532648 GACCAATATT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (40 bp):
AAAATTGAACTATAGTGGCGTTTTTGGTAAAACGCCACAA
Found at i:91536312 original size:43 final size:43
Alignment explanation
Indices: 91536207--91536390 Score: 278
Period size: 43 Copynumber: 4.3 Consensus size: 43
91536197 AATTTCATGA
*
91536207 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGCGAC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCACGAC
* * *
91536250 TTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTGAAGGTCGCGAC
1 -CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCACGAC
* * *
91536294 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGAC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCACGAC
* *
91536337 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGAC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCACGAC
91536380 CTTTAGCGGCG
1 CTTTAGCGGCG
91536391 CTTTTTAAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 90 0.69
44 41 0.31
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCACGAC
Found at i:91536512 original size:21 final size:20
Alignment explanation
Indices: 91536484--91536523 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91536474 TTTTAGTAGC
*
91536484 GCCTAAAAGCGCCGCTAAAG
1 GCCTAAAAACGCCGCTAAAG
*
91536504 GCCTAAAAAATGCCGCTAAA
1 GCCT-AAAAACGCCGCTAAA
91536524 AGTTAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.28, G:0.20, T:0.12
Consensus pattern (20 bp):
GCCTAAAAACGCCGCTAAAG
Found at i:91542052 original size:9 final size:9
Alignment explanation
Indices: 91542028--91542060 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
91542018 ATACTTTTAG
*
91542028 TTTAATTTA
1 TTTAATTTT
91542037 TTT-ATTTT
1 TTTAATTTT
91542045 TTTAATTTT
1 TTTAATTTT
91542054 TTTAATT
1 TTTAATT
91542061 GAACATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTAATTTT
Found at i:91542275 original size:15 final size:15
Alignment explanation
Indices: 91542255--91542285 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91542245 AATCATTTCC
91542255 ATCATTAACAATTAA
1 ATCATTAACAATTAA
91542270 ATCATTAACAATTAA
1 ATCATTAACAATTAA
91542285 A
1 A
91542286 GTAATCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
ATCATTAACAATTAA
Found at i:91549369 original size:23 final size:23
Alignment explanation
Indices: 91549312--91549401 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
91549302 AAGCCATGAT
* *
91549312 CGGTAAGCTCTTTTTCAAGCTAAAA
1 CGGTAAGCTC--TTTCGAGCTGAAA
** * *
91549337 TAGTAAGCTCTTTTGAGTTGAAA
1 CGGTAAGCTCTTTCGAGCTGAAA
91549360 CGGTAAGCTCTTTCGAGCTGAAA
1 CGGTAAGCTCTTTCGAGCTGAAA
* *
91549383 TGGTAAGCTCTTACGAGCT
1 CGGTAAGCTCTTTCGAGCT
91549402 AATATATTGG
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 45 0.85
25 8 0.15
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (23 bp):
CGGTAAGCTCTTTCGAGCTGAAA
Found at i:91549417 original size:26 final size:26
Alignment explanation
Indices: 91549361--91549454 Score: 131
Period size: 26 Copynumber: 3.7 Consensus size: 26
91549351 GAGTTGAAAC
*
91549361 GGTAAGCTCTTTCGAGCTGA-A-A-T
1 GGTAAGCTCTTACGAGCTGATATATT
*
91549384 GGTAAGCTCTTACGAGCTAATATATT
1 GGTAAGCTCTTACGAGCTGATATATT
*
91549410 GGTAAGCTCTTATGAGCTGATATATT
1 GGTAAGCTCTTACGAGCTGATATATT
*
91549436 GGTAAGCTCATACGAGCTG
1 GGTAAGCTCTTACGAGCTG
91549455 TGGTGAGTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
23 18 0.29
24 1 0.02
25 1 0.02
26 42 0.68
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (26 bp):
GGTAAGCTCTTACGAGCTGATATATT
Found at i:91550791 original size:21 final size:21
Alignment explanation
Indices: 91550773--91550843 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
91550763 CTGCATTGTG
91550773 GATAAACCACTAGTAATTGCA
1 GATAAACCACTAGTAATTGCA
*** **
91550794 GATAAA-TTGTCAGTAAGTTGTG
1 GATAAACCACT-AGTAA-TTGCA
91550816 GATAAACCACTAGTAATTGCA
1 GATAAACCACTAGTAATTGCA
91550837 GATAAAC
1 GATAAAC
91550844 TGCTACTAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 1 0.03
21 21 0.57
22 14 0.38
23 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (21 bp):
GATAAACCACTAGTAATTGCA
Found at i:91551677 original size:3 final size:3
Alignment explanation
Indices: 91551666--91551748 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
91551656 TTTTATTTTT
* *
91551666 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
91551709 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
91551749 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:91551723 original size:21 final size:18
Alignment explanation
Indices: 91551670--91551752 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
91551660 ATTTTTTTAT
* *
91551670 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
91551689 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
91551707 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
91551728 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
91551745 TTATATAT
1 TT-TATAT
91551753 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:91551975 original size:12 final size:11
Alignment explanation
Indices: 91551954--91552012 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
91551944 TTACTATTAT
91551954 TATTAT-TATA
1 TATTATGTATA
91551964 TATTAGTGTATA
1 TATTA-TGTATA
*
91551976 TTTTTATGTATA
1 -TATTATGTATA
*
91551988 TA-TATATATA
1 TATTATGTATA
*
91551998 TATATATTTATA
1 TAT-TATGTATA
91552010 TAT
1 TAT
91552013 AGTATTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 14 0.35
11 2 0.05
12 20 0.50
13 4 0.10
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
TATTATGTATA
Found at i:91551991 original size:2 final size:2
Alignment explanation
Indices: 91551984--91552013 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
91551974 TATTTTTATG
*
91551984 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91552014 GTATTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:91552114 original size:2 final size:2
Alignment explanation
Indices: 91552109--91552146 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
91552099 GTATTTCTAT
* *
91552109 TA TA TA CA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91552147 GTATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91555104 original size:23 final size:24
Alignment explanation
Indices: 91555063--91555107 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
91555053 ATTAAAATTG
*
91555063 ATTACTAATTTTTTATAATTTTTT
1 ATTACCAATTTTTTATAATTTTTT
91555087 ATTACCAATTTTTT-TAATTTT
1 ATTACCAATTTTTTATAATTTT
91555108 AAAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTACCAATTTTTTATAATTTTTT
Found at i:91556394 original size:5 final size:5
Alignment explanation
Indices: 91556384--91556412 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
91556374 AATTGTGTTT
91556384 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
91556413 TGACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:91560235 original size:11 final size:11
Alignment explanation
Indices: 91560219--91560253 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
91560209 TATCAAAAGA
91560219 TTTAAATTTTT
1 TTTAAATTTTT
*
91560230 TTTAAATATTAT
1 TTTAAAT-TTTT
91560242 TTTAAATTTTT
1 TTTAAATTTTT
91560253 T
1 T
91560254 ACATGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTAAATTTTT
Found at i:91561226 original size:19 final size:19
Alignment explanation
Indices: 91561202--91561240 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
91561192 ATCATATCAT
91561202 AGTAACA-ATAAATAAATAA
1 AGTAACATA-AAATAAATAA
*
91561221 AGTAACTTAAAATAAATAA
1 AGTAACATAAAATAAATAA
91561240 A
1 A
91561241 AAAATGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
AGTAACATAAAATAAATAA
Found at i:91561447 original size:3 final size:3
Alignment explanation
Indices: 91561439--91561486 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
91561429 AAATATATAG
* * *
91561439 ATA ATA ATA A-A ATA ATC ATA ATA ATA A-A ATA ATG ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91561485 AT
1 AT
91561487 GGCACAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:91561485 original size:20 final size:17
Alignment explanation
Indices: 91561439--91561482 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
91561429 AAATATATAG
91561439 ATAATAATAAAATAATC
1 ATAATAATAAAATAATC
*
91561456 ATAATAATAAAATAATG
1 ATAATAATAAAATAATC
*
91561473 ATAAAAATAA
1 ATAATAATAA
91561483 TAATGGCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAATAATAAAATAATC
Found at i:91561603 original size:4 final size:4
Alignment explanation
Indices: 91561578--91561611 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
91561568 GTAAAGAACT
* *
91561578 AATA AATA AGTA AATA AGTA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
91561612 GGACTTAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:91562361 original size:11 final size:12
Alignment explanation
Indices: 91562333--91562360 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
91562323 TGACGGCAAT
91562333 AAAAAGATAGAA
1 AAAAAGATAGAA
91562345 AAAAAGATAGAA
1 AAAAAGATAGAA
91562357 AAAA
1 AAAA
91562361 GGCAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAAAGATAGAA
Found at i:91562385 original size:3 final size:3
Alignment explanation
Indices: 91562377--91562426 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
91562367 AAAGCTTCCT
91562377 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91562425 TT
1 TT
91562427 GTGACAGCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91564192 original size:42 final size:42
Alignment explanation
Indices: 91564145--91564251 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
91564135 TATTGGTCTC
91564145 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
91564187 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
91564229 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
91564252 ATTTGTACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:91564317 original size:27 final size:28
Alignment explanation
Indices: 91564260--91564329 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
91564250 AAATTTGTAC
**
91564260 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
91564288 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
91564315 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
91564330 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:91572320 original size:42 final size:42
Alignment explanation
Indices: 91572273--91572379 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
91572263 TATTGGTCTC
91572273 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
91572315 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
91572357 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
91572380 ATTTGTACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:91572445 original size:27 final size:28
Alignment explanation
Indices: 91572388--91572457 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
91572378 AAATTTGTAC
**
91572388 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
91572416 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
91572443 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
91572458 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:91573891 original size:3 final size:3
Alignment explanation
Indices: 91573883--91573927 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
91573873 GGGTGTTACA
91573883 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
91573928 TATTTTTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:91573970 original size:20 final size:21
Alignment explanation
Indices: 91573936--91573987 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
91573926 TTTATTTTTG
91573936 AAACAAAAG-ATAGAA-AAAA
1 AAACAAAAGAATAGAAGAAAA
*
91573955 AACCAAAAGAATAGAAGAAAA
1 AAACAAAAGAATAGAAGAAAA
91573976 AAACAAAAGAAT
1 AAACAAAAGAAT
91573988 CACCTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.28
20 6 0.21
21 15 0.52
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.06
Consensus pattern (21 bp):
AAACAAAAGAATAGAAGAAAA
Found at i:91577431 original size:5 final size:5
Alignment explanation
Indices: 91577412--91577448 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
91577402 ATTTTTTGAC
91577412 AAAA- AAAAGT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AA
91577449 TGGTGTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:91578590 original size:110 final size:107
Alignment explanation
Indices: 91578362--91578578 Score: 286
Period size: 104 Copynumber: 2.0 Consensus size: 107
91578352 TTTTAAACTA
91578362 AAAATGTTTACTTATTATCATTTTAAAATAATAATAAAAATATTCGTATTTATTATGTATCGTTT
1 AAAAT-TTTACTTATTATCATTTTAAAATAATAAT--AAATATTCGTATTTATTATGTATC-TTT
* * *
91578427 ATGTTATGTTTTTGTTATTGGTATGTTATTTTTAGTATTTTAATAT
62 ATGTTATATTTTTGTTATTGGCATATTATTTTTAGTATTTTAATAT
91578473 AAAATTTTACTTATTATCATTTTAAAATAATAAT-AATATTCGTATCATTTATT-T-TAT-TTT-
1 AAAATTTTACTTATTATCATTTTAAAATAATAATAAATATTCG--T-ATTTATTATGTATCTTTA
91578533 T-TTATATATTTT-TTATTGGCATATTATTTTTAGTATTTTAATAT
63 TGTTATAT-TTTTGTTATTGGCATATTATTTTTAGTATTTTAATAT
91578577 AA
1 AA
91578579 TTTTTTTATT
Statistics
Matches: 99, Mismatches: 3, Indels: 15
0.85 0.03 0.13
Matches are distributed among these distances:
104 37 0.37
105 5 0.05
106 3 0.03
107 8 0.08
108 3 0.03
109 2 0.02
110 36 0.36
111 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (107 bp):
AAAATTTTACTTATTATCATTTTAAAATAATAATAAATATTCGTATTTATTATGTATCTTTATGT
TATATTTTTGTTATTGGCATATTATTTTTAGTATTTTAATAT
Found at i:91579788 original size:14 final size:14
Alignment explanation
Indices: 91579769--91579796 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
91579759 TCTTTTTAAT
91579769 GATACTATTCTAAC
1 GATACTATTCTAAC
91579783 GATACTATTCTAAC
1 GATACTATTCTAAC
91579797 ATGTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:91580786 original size:99 final size:99
Alignment explanation
Indices: 91580600--91580824 Score: 247
Period size: 99 Copynumber: 2.3 Consensus size: 99
91580590 CTTTGGGTCG
** * * * * * *
91580600 TATCCACCGCAGTACAGCATTCCTCTCGACTAGTATCCACCGCAGTATAGCACTCCTCTTGGCCC
1 TATCCACCGCAGTATGGCACTCCTCCCAACTAGTATCCACCACAGCATAGCACTCCTCCTGGCCC
* *
91580665 GTATCCACCGCATTATGGCACTCCTCCTAGCTCA
66 GTATCCACCGCAGTATGCCACTCCTCCTAGCTCA
* * *
91580699 TATCCACCGCAGTATGGCACTCCTCCCAACTCGTATCCACCACAGCATGGCACTCCTCCTGGCCG
1 TATCCACCGCAGTATGGCACTCCTCCCAACTAGTATCCACCACAGCATAGCACTCCTCCTGGCCC
* * * * *
91580764 GTATCCACCGTAGTACT-CCACTCCTCTTGGGTCG
66 GTATCCACCGCAGTA-TGCCACTCCTCCTAGCTCA
*
91580798 TATCCACTC-CAGTATGGCACTCATCCC
1 TATCCAC-CGCAGTATGGCACTCCTCCC
91580825 GGCTCAAGTT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 103 0.98
100 2 0.02
ACGTcount: A:0.20, C:0.40, G:0.16, T:0.24
Consensus pattern (99 bp):
TATCCACCGCAGTATGGCACTCCTCCCAACTAGTATCCACCACAGCATAGCACTCCTCCTGGCCC
GTATCCACCGCAGTATGCCACTCCTCCTAGCTCA
Found at i:91580819 original size:33 final size:33
Alignment explanation
Indices: 91580592--91580819 Score: 201
Period size: 33 Copynumber: 6.9 Consensus size: 33
91580582 TTTGATATCT
* ** *
91580592 TTGGGTCGTATCCACCGCAGTACAGCATTCCTC
1 TTGGCTCGTATCCACCGCAGTATGGCACTCCTC
* * * *
91580625 TCGACTAGTATCCACCGCAGTATAGCACTCCTC
1 TTGGCTCGTATCCACCGCAGTATGGCACTCCTC
* *
91580658 TTGGCCCGTATCCACCGCATTATGGCACTCCTC
1 TTGGCTCGTATCCACCGCAGTATGGCACTCCTC
* * *
91580691 CTAGCTCATATCCACCGCAGTATGGCACTCCTC
1 TTGGCTCGTATCCACCGCAGTATGGCACTCCTC
**** * *
91580724 CCAACTCGTATCCACCACAGCATGGCACTCCTC
1 TTGGCTCGTATCCACCGCAGTATGGCACTCCTC
* * *
91580757 CTGGC-CGGTATCCACCGTAGTACT-CCACTCCTC
1 TTGGCTC-GTATCCACCGCAGTA-TGGCACTCCTC
*
91580790 TTGGGTCGTATCCACTC-CAGTATGGCACTC
1 TTGGCTCGTATCCAC-CGCAGTATGGCACTC
91580820 ATCCCGGCTC
Statistics
Matches: 157, Mismatches: 33, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
32 2 0.01
33 152 0.97
34 3 0.02
ACGTcount: A:0.19, C:0.38, G:0.18, T:0.25
Consensus pattern (33 bp):
TTGGCTCGTATCCACCGCAGTATGGCACTCCTC
Found at i:91581206 original size:14 final size:14
Alignment explanation
Indices: 91581187--91581216 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91581177 ATAAACTTAG
91581187 TTTTGTAATATAAA
1 TTTTGTAATATAAA
*
91581201 TTTTGTTATATAAA
1 TTTTGTAATATAAA
91581215 TT
1 TT
91581217 AAATACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTTGTAATATAAA
Done.