Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 3 of 320
Found at i:668392 original size:16 final size:16
Alignment explanation
Indices: 668371--668402 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
668361 GTTTTAGGAG
668371 TTGTAGAATACAAGAA
1 TTGTAGAATACAAGAA
668387 TTGTAGAATACAAGAA
1 TTGTAGAATACAAGAA
668403 ATTCATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
TTGTAGAATACAAGAA
Found at i:678565 original size:15 final size:16
Alignment explanation
Indices: 678539--678571 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
678529 CATATCAATT
678539 AAATATAATTTTTAAA
1 AAATATAATTTTTAAA
678555 AAATA-AATTTTTAAA
1 AAATATAATTTTTAAA
678570 AA
1 AA
678572 TTTTGAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAATTTTTAAA
Found at i:681265 original size:20 final size:20
Alignment explanation
Indices: 681240--681277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
681230 AATGACAAAA
* *
681240 CAGTCACTTATCTTTCAATT
1 CAGTCACTCAACTTTCAATT
681260 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
681278 AAAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:687130 original size:21 final size:20
Alignment explanation
Indices: 687106--687149 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
687096 ATACGTAATA
687106 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
687127 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
687147 ATA
1 ATA
687150 ATATAGCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:687198 original size:27 final size:25
Alignment explanation
Indices: 687069--687246 Score: 112
Period size: 25 Copynumber: 7.4 Consensus size: 25
687059 ACGATATATG
*
687069 AATATATGCAT-ATAT-GTATT-AA
1 AATATATACATAATATAGTATTAAA
* * *
687091 AATATATACGTAATAATAGGAATAAA
1 AATATATACATAAT-ATAGTATTAAA
687117 AAGTATATAC-----ATAGTATTAAA
1 AA-TATATACATAATATAGTATTAAA
* **
687138 AATATGTACATAATATAGCGTTAAA
1 AATATATACATAATATAGTATTAAA
*
687163 AATACATACATAATATAGTTATTAAAA
1 AATATATACATAATATAG-TATT-AAA
* *
687190 AATATATACATAAGATAATATGT-AA
1 AATATATACATAATATAGTAT-TAAA
* *
687215 AA-A-A-A-GTAATATAGTATTAGA
1 AATATATACATAATATAGTATTAAA
687236 AATATATACAT
1 AATATATACAT
687247 GACATATATG
Statistics
Matches: 117, Mismatches: 21, Indels: 33
0.68 0.12 0.19
Matches are distributed among these distances:
20 7 0.06
21 23 0.20
22 11 0.09
23 4 0.03
24 4 0.03
25 33 0.28
26 9 0.08
27 26 0.22
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
AATATATACATAATATAGTATTAAA
Found at i:687439 original size:23 final size:23
Alignment explanation
Indices: 687380--687427 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
687370 ATGATACTAC
*
687380 ATAAATATATACATATATATTAAAA
1 ATAAATACATA-ATA-ATATTAAAA
687405 ATAAATACATAATAATATTAAAA
1 ATAAATACATAATAATATTAAAA
687428 GTATGTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 3 0.14
25 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAATACATAATAATATTAAAA
Found at i:687600 original size:58 final size:58
Alignment explanation
Indices: 687507--687618 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
687497 GAAAAATATA
* *
687507 TATATATACATACATATACCAAAAATATATTCATAATAATAGTATT-AAGTATTAAAAG
1 TATATATACATACATATAACAAAAATATATGCATAA-AATAGTATTAAAGTATTAAAAG
* *
687565 TATATATATATA-ATATAGACAAAAATATATGCATAACATAGTATTGAAAGTATT
1 TATATATACATACATATA-ACAAAAATATATGCATAAAATAGTATT-AAAGTATT
687619 TACATGAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 13 0.28
58 27 0.57
59 7 0.15
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (58 bp):
TATATATACATACATATAACAAAAATATATGCATAAAATAGTATTAAAGTATTAAAAG
Found at i:687687 original size:25 final size:25
Alignment explanation
Indices: 687559--687687 Score: 61
Period size: 25 Copynumber: 5.2 Consensus size: 25
687549 TATTAAGTAT
* * *
687559 TAAAAGTATATATAT-ATAATATAGA
1 TAAAAATATATACATAAT-ATATATA
* * *
687584 CAAAAATATATGCATAACATAGTAT-
1 TAAAAATATATACATAATATA-TATA
* * * * *
687609 TGAAAGTATTTACATGAGATA-ATA
1 TAAAAATATATACATAATATATATA
* *
687633 TAAAAAGTGTATGA-ATAATGTGATAT-
1 TAAAAA-TATAT-ACATAATAT-ATATA
687659 TAAAAATATATACATAATATATATA
1 TAAAAATATATACATAATATATATA
687684 TAAA
1 TAAA
687688 TATAATGTTA
Statistics
Matches: 73, Mismatches: 22, Indels: 18
0.65 0.19 0.16
Matches are distributed among these distances:
23 2 0.03
24 9 0.12
25 49 0.67
26 11 0.15
27 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (25 bp):
TAAAAATATATACATAATATATATA
Found at i:687714 original size:28 final size:27
Alignment explanation
Indices: 687674--687796 Score: 79
Period size: 25 Copynumber: 4.9 Consensus size: 27
687664 ATATATACAT
*
687674 AATATATATATA-AATATA-ATGTTAAA
1 AATATATATACATAATATATATG-TAAA
687700 AATATATATACATAATATATATGT--A
1 AATATATATACATAATATATATGTAAA
*
687725 AA-ATGTATACATAATATAGTTAT-TAAA
1 AATATATATACATAATATA--TATGTAAA
* **
687752 AA-ATATATGC--AATATATA-GTATT
1 AATATATATACATAATATATATGTAAA
* *
687775 AAGA-ATATACACAATATATATG
1 AATATATATACATAATATATATG
687797 GTATTAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
23 11 0.14
24 16 0.20
25 18 0.23
26 15 0.19
27 16 0.20
28 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (27 bp):
AATATATATACATAATATATATGTAAA
Found at i:687726 original size:27 final size:25
Alignment explanation
Indices: 687677--687810 Score: 75
Period size: 27 Copynumber: 5.2 Consensus size: 25
687667 TATACATAAT
*
687677 ATATATATAAATATA-ATGTTAAAAA
1 ATATATACAAATATATATG-TAAAAA
687702 TATATATACATAATATATATGT--AAA
1 -ATATATACA-AATATATATGTAAAAA
*
687727 ATGTATACATAATATAGTTAT-TAAAAA
1 ATATATACA-AATATA--TATGTAAAAA
* * *
687754 ATATATGC-AATATATA-GTATTAAG
1 ATATATACAAATATATATGTA-AAAA
687778 A-ATATACACAATATATATGGTATTAAAA
1 ATATATACA-AATATATAT-GTA--AAAA
687806 ATATA
1 ATATA
687811 GTATTAAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
23 9 0.11
24 18 0.21
25 18 0.21
26 11 0.13
27 19 0.22
28 7 0.08
29 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (25 bp):
ATATATACAAATATATATGTAAAAA
Found at i:687751 original size:52 final size:54
Alignment explanation
Indices: 687695--687810 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 54
687685 AAATATAATG
* * *
687695 TTAAAAATATATATAC-ATAATATA-TATGTAA-AATGTATAC-ATA-ATATAGTTA
1 TTAAAAATATATATACAAT-ATATAGTAT-TAAGAATATACACAATATATAT-GGTA
*
687747 TTAAAAA-ATATATGCAATATATAGTATTAAGAATATACACAATATATATGGTA
1 TTAAAAATATATATACAATATATAGTATTAAGAATATACACAATATATATGGTA
687800 TTAAAAATATA
1 TTAAAAATATA
687811 GTATTAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
51 15 0.28
52 19 0.35
53 13 0.24
54 7 0.13
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (54 bp):
TTAAAAATATATATACAATATATAGTATTAAGAATATACACAATATATATGGTA
Found at i:688021 original size:12 final size:12
Alignment explanation
Indices: 688004--688040 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
687994 ATATTAAAAA
688004 TATTAATAATAC
1 TATTAATAATAC
688016 TATTAATAATAC
1 TATTAATAATAC
688028 TATATATATAATA
1 TAT-TA-ATAATA
688041 TTGAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 15 0.65
13 2 0.09
14 6 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (12 bp):
TATTAATAATAC
Found at i:688067 original size:35 final size:34
Alignment explanation
Indices: 687978--688080 Score: 90
Period size: 35 Copynumber: 3.0 Consensus size: 34
687968 AACGCTATAT
*
687978 ATACGTAAACATATATATAT-TAAAAATATTAATA
1 ATAC-TAAACATATATATATATAATAATATTAATA
*
688012 ATACTATTA-ATA-ATACTATATATATAATATTGAA-A
1 ATACTA-AACATATATA-TATATA-ATAATATT-AATA
*
688047 ATATTAAACATATATATATATACATAATA-TAATA
1 ATACTAAACATATATATATATA-ATAATATTAATA
688081 TTAAGAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
32 3 0.05
33 10 0.18
34 10 0.18
35 28 0.50
36 5 0.09
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (34 bp):
ATACTAAACATATATATATATAATAATATTAATA
Found at i:688190 original size:22 final size:22
Alignment explanation
Indices: 688171--688213 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
688161 ATACTAATGC
688171 TAATAAATAATAAATATAATAA
1 TAATAAATAATAAATATAATAA
*
688193 TAAT-AGTAATAAAATATAATA
1 TAATAAATAAT-AAATATAATA
688214 GTATACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TAATAAATAATAAATATAATAA
Found at i:688224 original size:22 final size:22
Alignment explanation
Indices: 688070--688246 Score: 71
Period size: 25 Copynumber: 7.8 Consensus size: 22
688060 ATATATATAC
* *
688070 ATAAT-ATAATATTAAGAAAA-
1 ATAATAATAATAATAATAAAAT
* *
688090 ATAATAATAACAA-AAAAAAACT
1 ATAATAATAATAATAATAAAA-T
* *
688112 ATTAATAATACTATATAATATATAT
1 A-TAATAATAATA-ATAATA-AAAT
* * *
688137 ACATATAAGTATTAAGTAAAAATAAT
1 ATA-ATAA-TAATAA-TAATAA-AAT
**
688163 ACTAATGCTAATAAATAAT-AAAT
1 A-TAATAATAAT-AATAATAAAAT
*
688186 ATAATAATAATAGTAATAAAAT
1 ATAATAATAATAATAATAAAAT
*
688208 ATAATAGTATACATAATATTAAAAT
1 ATAATA--ATA-ATAATAATAAAAT
688233 -TAA-AATAA-AATAAT
1 ATAATAATAATAATAAT
688247 GAGAAAAAGT
Statistics
Matches: 118, Mismatches: 22, Indels: 35
0.67 0.13 0.20
Matches are distributed among these distances:
19 5 0.04
20 12 0.10
21 13 0.11
22 19 0.16
23 14 0.12
24 9 0.08
25 28 0.24
26 17 0.14
27 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (22 bp):
ATAATAATAATAATAATAAAAT
Found at i:719109 original size:19 final size:17
Alignment explanation
Indices: 719085--719156 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 17
719075 CTTCATACTA
719085 ATATTTTTCCTGAATTTTT
1 ATATTTTT--TGAATTTTT
*
719104 ATATTTTTTGAATTTTGA
1 ATATTTTTTGAATTTT-T
719122 ATATTATTTTTGAATATTTTT
1 ATA-T-TTTTTG-A-ATTTTT
* *
719143 ATAATTTTTAAATT
1 ATATTTTTTGAATT
719157 ATCTATTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
17 11 0.25
18 4 0.09
19 14 0.32
20 6 0.14
21 4 0.09
22 5 0.11
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
ATATTTTTTGAATTTTT
Found at i:721095 original size:29 final size:29
Alignment explanation
Indices: 721062--721119 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
721052 CAAATAGAGT
721062 AACTACATTCATAAAA-TTAAAAGTATAAG
1 AACTACATT-ATAAAAGTTAAAAGTATAAG
* *
721091 AACTACATTTTAAAAGTTCAAAGTATAAG
1 AACTACATTATAAAAGTTAAAAGTATAAG
721120 GACCAGATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (29 bp):
AACTACATTATAAAAGTTAAAAGTATAAG
Found at i:728260 original size:21 final size:21
Alignment explanation
Indices: 728229--728276 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
728219 CTTAACATTT
728229 AATTAATTTTTAAAAATTTAAA
1 AATT-ATTTTTAAAAATTTAAA
**
728251 AATTATTTTTAAATTTTTAAA
1 AATTATTTTTAAAAATTTAAA
728272 AATTA
1 AATTA
728277 ATTAAATACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTATTTTTAAAAATTTAAA
Found at i:728826 original size:22 final size:22
Alignment explanation
Indices: 728790--728842 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
728780 TCGTCATCTA
* *
728790 TTTAGTTTTTT-AAAAATTAAT
1 TTTAATTTTTTAAAAAAATAAT
728811 TTT-ATTTTTTAAAAAAATAAT
1 TTTAATTTTTTAAAAAAATAAT
728832 TTTAATTTTTT
1 TTTAATTTTTT
728843 TTAGTAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTAATTTTTTAAAAAAATAAT
Found at i:737497 original size:4 final size:4
Alignment explanation
Indices: 737488--737522 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
737478 GGTATTAAAC
737488 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
737523 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:738557 original size:19 final size:18
Alignment explanation
Indices: 738535--738588 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
738525 AAAAATATAA
738535 ATTTTAAAATTATTAATTT
1 ATTTTAAAATTA-TAATTT
* *
738554 ATTTAAAAAATTATATTTT
1 ATTT-TAAAATTATAATTT
*
738573 ATTTT-TAATTATAATT
1 ATTTTAAAATTATAATT
738589 AAAAATAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 9 0.31
19 13 0.45
20 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAAAATTATAATTT
Found at i:739965 original size:23 final size:23
Alignment explanation
Indices: 739883--739969 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
739873 CCTGATCAGT
*
739883 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
739905 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
739925 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
739948 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
739970 TAAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:741453 original size:16 final size:17
Alignment explanation
Indices: 741418--741453 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
741408 CCTAATTCTC
741418 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
741434 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
741449 CCTTC
1 CCTTC
741454 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:748027 original size:25 final size:25
Alignment explanation
Indices: 747999--748051 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
747989 ACCAATGAAG
* *
747999 ATTATAAATTTTACATATTAAAAAA
1 ATTATAAATTCTACATAATAAAAAA
*
748024 ATTATAAATTCTACATAATAATAAA
1 ATTATAAATTCTACATAATAAAAAA
748049 ATT
1 ATT
748052 TATTATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTATAAATTCTACATAATAAAAAA
Found at i:754433 original size:27 final size:26
Alignment explanation
Indices: 754385--754445 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
754375 GTTAAGATAC
*
754385 TATATAAAAAATTCAATAATTAAAAAA
1 TATATAAAAAATTAAATAATT-AAAAA
*
754412 TATATAAAATTATTAAAT-ATTAAAAA
1 TATATAAAA-AATTAAATAATTAAAAA
754438 TAATATAA
1 T-ATATAA
754446 TATAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 18 0.60
28 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
TATATAAAAAATTAAATAATTAAAAA
Found at i:754460 original size:32 final size:34
Alignment explanation
Indices: 754413--754478 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
754403 ATTAAAAAAT
*
754413 ATATAAAATTATT-AAATA-TTAAAAATAATATA
1 ATATAAAATTATTAAAAAATTTAAAAATAATATA
* *
754445 ATATAATATTTTTAAAAAAATTTAAAAATAATAT
1 ATATAAAATTATT-AAAAAATTTAAAAATAATAT
754479 GGGCGGGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 11 0.39
34 4 0.14
35 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
ATATAAAATTATTAAAAAATTTAAAAATAATATA
Found at i:765105 original size:39 final size:38
Alignment explanation
Indices: 765054--765129 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
765044 TTTATAAATT
765054 TTAAAGGATTAAAT-CAAATTTTTATCATTTTTAGAGAG
1 TTAAAGGATTAAATGCAAATTTTT-TCATTTTTAGAGAG
* * *
765092 TTAAAGTATTTAAATGGAAATTTTTTTATTTTTAGAGA
1 TTAAAGGA-TTAAATGCAAATTTTTTCATTTTTAGAGA
765130 CAGAGGCCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 7 0.21
39 18 0.55
40 8 0.24
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (38 bp):
TTAAAGGATTAAATGCAAATTTTTTCATTTTTAGAGAG
Found at i:769482 original size:34 final size:34
Alignment explanation
Indices: 769439--769506 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
769429 AGTGGACTTA
769439 GCTTTTTATGCCCTTAAATAGATTAATTCTATTT
1 GCTTTTTATGCCCTTAAATAGATTAATTCTATTT
769473 GCTTTTTATGCCCTTAAATAGATTAATTCTATTT
1 GCTTTTTATGCCCTTAAATAGATTAATTCTATTT
769507 ACTTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (34 bp):
GCTTTTTATGCCCTTAAATAGATTAATTCTATTT
Found at i:783843 original size:20 final size:19
Alignment explanation
Indices: 783792--783849 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
783782 GTTGCAAATC
783792 AAAGGTATCGATATTTATCA
1 AAAGGTAT-GATATTTATCA
** *
783812 ATTGGTACTGATAGTTTATGA
1 AAAGGTA-TGATA-TTTATCA
*
783833 AAAGGTATGATACTTAT
1 AAAGGTATGATATTTAT
783850 ATAAATATGG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 12 0.40
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (19 bp):
AAAGGTATGATATTTATCA
Found at i:786186 original size:5 final size:5
Alignment explanation
Indices: 786176--786206 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
786166 AATATCATCT
786176 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
786207 ACTTTACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:786824 original size:15 final size:15
Alignment explanation
Indices: 786804--786911 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
786794 TTTATGGAAA
786804 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
786819 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
786833 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
786849 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
786863 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
786879 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
786893 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
786909 ATC
1 ATC
786912 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:786841 original size:30 final size:30
Alignment explanation
Indices: 786798--786921 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
786788 TCCATATTTA
* *
786798 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
786828 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
786858 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
786888 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
786919 TGG
1 TGG
786922 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:791607 original size:15 final size:15
Alignment explanation
Indices: 791587--791694 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
791577 TTTATGGAAA
791587 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
791602 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
791616 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
791632 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
791646 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
791662 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
791676 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
791692 ATC
1 ATC
791695 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:791624 original size:30 final size:30
Alignment explanation
Indices: 791581--791704 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
791571 TCCATATTTA
* *
791581 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
791611 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
791641 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
791671 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
791702 TGG
1 TGG
791705 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:795394 original size:12 final size:12
Alignment explanation
Indices: 795377--795403 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
795367 TGCCATACAC
795377 GGCCGTGTGCTA
1 GGCCGTGTGCTA
795389 GGCCGTGTGCTA
1 GGCCGTGTGCTA
795401 GGC
1 GGC
795404 TATGTAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.44, T:0.22
Consensus pattern (12 bp):
GGCCGTGTGCTA
Found at i:796662 original size:16 final size:16
Alignment explanation
Indices: 796641--796672 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
796631 TTCATCATAG
796641 CATAGATACATTTATA
1 CATAGATACATTTATA
*
796657 CATAGATTCATTTATA
1 CATAGATACATTTATA
796673 TTAAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
CATAGATACATTTATA
Found at i:800541 original size:22 final size:22
Alignment explanation
Indices: 800501--800542 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
800491 AGGGAACTAA
800501 GATAAAATTATAAAATTTTGAG
1 GATAAAATTATAAAATTTTGAG
*
800523 GATACAAATTA-AAATTTTTG
1 GATA-AAATTATAAAATTTTG
800543 TTTTGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
GATAAAATTATAAAATTTTGAG
Found at i:806894 original size:3 final size:3
Alignment explanation
Indices: 806888--806926 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
806878 TAATAATTCT
806888 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
806927 AAATTTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:816230 original size:9 final size:9
Alignment explanation
Indices: 816216--816292 Score: 82
Period size: 9 Copynumber: 8.6 Consensus size: 9
816206 ATAAATATAA
816216 AATTAACCG
1 AATTAACCG
*
816225 AATTAATCG
1 AATTAACCG
* *
816234 AATTACCCT
1 AATTAACCG
816243 AATTAACCG
1 AATTAACCG
*
816252 AATTAATCG
1 AATTAACCG
* *
816261 AATTACCCT
1 AATTAACCG
*
816270 AATTAATCG
1 AATTAACCG
*
816279 AATTAACTG
1 AATTAACCG
816288 AATTA
1 AATTA
816293 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:816246 original size:27 final size:27
Alignment explanation
Indices: 816216--816292 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
816206 ATAAATATAA
816216 AATTAACCGAATTAATCGAATTACCCT
1 AATTAACCGAATTAATCGAATTACCCT
816243 AATTAACCGAATTAATCGAATTACCCT
1 AATTAACCGAATTAATCGAATTACCCT
*
816270 AATTAATCGAATTAA-CTGAATTA
1 AATTAACCGAATTAATC-GAATTA
816293 TTTGTATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTAACCGAATTAATCGAATTACCCT
Found at i:816324 original size:6 final size:6
Alignment explanation
Indices: 816304--816347 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
816294 TTGTATAAAA
816304 TTATGTT TT-TTT TTATTT TTATTT TTAGATTT TTATTT TTATTT
1 TTAT-TT TTATTT TTATTT TTATTT TT--ATTT TTATTT TTATTT
816348 ATTAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.12
6 22 0.65
7 2 0.06
8 6 0.18
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:816335 original size:14 final size:14
Alignment explanation
Indices: 816318--816344 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
816308 GTTTTTTTTT
816318 ATTTTTATTTTTAG
1 ATTTTTATTTTTAG
816332 ATTTTTATTTTTA
1 ATTTTTATTTTTA
816345 TTTATTAAAT
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:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
ATTTTTATTTTTAG
Found at i:816336 original size:21 final size:22
Alignment explanation
Indices: 816312--816370 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 22
816302 AATTATGTTT
*
816312 TTTTTTATTTTTATTT-TTAGA
1 TTTTTTATTTTTATTTATTAAA
816333 -TTTTTATTTTTATTTATTAAA
1 TTTTTTATTTTTATTTATTAAA
816354 TTATTTGTAATTTTTAT
1 TT-TTT-T-ATTTTTAT
816371 GATTGGGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 15 0.47
21 4 0.12
22 1 0.03
23 3 0.09
24 1 0.03
25 8 0.25
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (22 bp):
TTTTTTATTTTTATTTATTAAA
Found at i:817085 original size:14 final size:14
Alignment explanation
Indices: 817068--817102 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
817058 TTCAAAATTT
817068 ATAAAAATAAAAAA
1 ATAAAAATAAAAAA
* *
817082 ATAAAATTAAAAAT
1 ATAAAAATAAAAAA
817096 ATAAAAA
1 ATAAAAA
817103 GTTCATACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:820940 original size:69 final size:69
Alignment explanation
Indices: 820860--820994 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
820850 CTCTGGTTAA
* *
820860 AACAGCAGAGTTGTTCGCACACTAACATTTGACTTTTCTATCGATAGACTGATGCATCAAAAACT
1 AACAGCAGAGTTGTTCGCACACTAACATTTGACTTGTCTATCGATAGACTGATACATCAAAAACT
820925 AAAC
66 AAAC
* ** * * *
820929 AACATCAGAGTTGTTTTCACACTAGCATTTGACTTGTCTATCTATAGATTGATACATCAAAAACT
1 AACAGCAGAGTTGTTCGCACACTAACATTTGACTTGTCTATCGATAGACTGATACATCAAAAACT
820994 A
66 A
820995 TTACTTTTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (69 bp):
AACAGCAGAGTTGTTCGCACACTAACATTTGACTTGTCTATCGATAGACTGATACATCAAAAACT
AAAC
Found at i:827167 original size:13 final size:14
Alignment explanation
Indices: 827151--827192 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
827141 TTTCAATTTT
827151 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
827164 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
827179 ATTTTAAATAATAT
1 ATTTT-AATAATAT
827193 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:827177 original size:16 final size:16
Alignment explanation
Indices: 827155--827191 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
827145 AATTTTATTT
827155 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
827172 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
827187 TAATA
1 TAATA
827192 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:829177 original size:17 final size:16
Alignment explanation
Indices: 829155--829225 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
829145 ATTCTCCATA
829155 AAAATAATTAAAAATAT
1 AAAATAA-TAAAAATAT
* *
829172 AAAAT-ATAAAAAAACA
1 AAAATAATAAAAATA-T
* *
829188 AAAATATTATAATATAT
1 AAAATAATA-AAAATAT
*
829205 AAAATTATAAAAATTAT
1 AAAATAATAAAAA-TAT
829222 AAAA
1 AAAA
829226 AAAACTTATA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
15 7 0.17
16 9 0.22
17 21 0.51
18 4 0.10
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAATAAAAATAT
Found at i:829193 original size:33 final size:34
Alignment explanation
Indices: 829154--829217 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
829144 TATTCTCCAT
829154 AAAAATAATTA-AAAATATAAAA-TATAAAAAAAC
1 AAAAAT-ATTATAAAATATAAAATTATAAAAAAAC
*
829187 AAAAATATTATAATATATAAAATTATAAAAA
1 AAAAATATTATAAAATATAAAATTATAAAAA
829218 TTATAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 16 0.57
34 8 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (34 bp):
AAAAATATTATAAAATATAAAATTATAAAAAAAC
Found at i:829237 original size:22 final size:21
Alignment explanation
Indices: 829205--829247 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
829195 TATAATATAT
*
829205 AAAATTATAAAAATTATAAAA
1 AAAATTATAAAAACTATAAAA
*
829226 AAAACTTATAAATACTATAAAA
1 AAAA-TTATAAAAACTATAAAA
829248 TATGAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATTATAAAAACTATAAAA
Found at i:831860 original size:51 final size:51
Alignment explanation
Indices: 831797--831922 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
831787 CAATCAAATC
* * * *
831797 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
831848 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
831899 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
831923 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:836941 original size:51 final size:51
Alignment explanation
Indices: 836823--836953 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 51
836813 ATCTACAATC
* * * * *
836823 AAATCTCTAAGAATATAAGATCATATCTTCTAAGATTACCTATCTTATCTA
1 AAATCTCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* * * ** *
836874 AGATATGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTA
1 AAATCTCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
*
836925 AAATCTCAAAGATTATAAAATCATATCTT
1 AAATCTCTAAGATTATAAAATCATATCTT
836954 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (51 bp):
AAATCTCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
Found at i:846062 original size:47 final size:47
Alignment explanation
Indices: 846009--846099 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
845999 AGGTTTGAAT
846009 CTCCTTTCTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTATTAC
1 CTCCTTTCTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTATTAC
* *
846056 CTCCTTTTTTCAGTTGAATTGGATTGAAAGACGATTTTTTTTAT
1 CTCCTTTCTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTAT
846100 AAACATCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.47
Consensus pattern (47 bp):
CTCCTTTCTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTATTAC
Found at i:846110 original size:47 final size:47
Alignment explanation
Indices: 846010--846110 Score: 150
Period size: 47 Copynumber: 2.1 Consensus size: 47
846000 GGTTTGAATC
* * *
846010 TCCTTTCTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTATTACC
1 TCCTTTTTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTATAACA
*
846057 TCCTTTTTTCAGTTGAATTGGATTGAAAGACGATTTTTTTTATAAACA
1 TCCTTTTTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTAT-AACA
846105 T-CTTTT
1 TCCTTTT
846111 GCCTTCCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 46 0.94
48 3 0.06
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (47 bp):
TCCTTTTTTCAGTTGAATTGGATCGAAAGACGATTTTTTTTATAACA
Found at i:849719 original size:21 final size:21
Alignment explanation
Indices: 849695--849736 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
849685 CTATATATGC
849695 TTTTTAATAGATTATTAATTA
1 TTTTTAATAGATTATTAATTA
849716 TTTTTAATAGATTATTAATTA
1 TTTTTAATAGATTATTAATTA
849737 GCACCAAATT
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:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTTAATAGATTATTAATTA
Found at i:852535 original size:22 final size:22
Alignment explanation
Indices: 852501--852543 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
852491 GTTGGTCTTG
*
852501 AGACCTAGTCTCGAGACATAAA
1 AGACCTAGCCTCGAGACATAAA
* *
852523 AGACCTTGCCTCGATACATAA
1 AGACCTAGCCTCGAGACATAA
852544 CATGTAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (22 bp):
AGACCTAGCCTCGAGACATAAA
Found at i:853479 original size:20 final size:20
Alignment explanation
Indices: 853447--853484 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
853437 TGTTTCACAT
853447 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
853467 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
853485 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:853995 original size:18 final size:18
Alignment explanation
Indices: 853972--854012 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
853962 TACTTTTCTC
853972 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
853990 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
854008 TTTCT
1 TTTCT
854013 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:857393 original size:21 final size:19
Alignment explanation
Indices: 857361--857401 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
857351 AAAAATTCAT
857361 TAATCACATAATTCAAACA
1 TAATCACATAATTCAAACA
*
857380 TAATCTACAATAATTTAAACA
1 TAATC-AC-ATAATTCAAACA
857401 T
1 T
857402 GAATACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATCACATAATTCAAACA
Found at i:863537 original size:12 final size:13
Alignment explanation
Indices: 863520--863556 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
863510 GAACCGGACA
863520 CGAACCGAA-CTC
1 CGAACCGAAGCTC
863532 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
863544 CGAACCGTAGCTC
1 CGAACCGAAGCTC
863557 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:866095 original size:6 final size:6
Alignment explanation
Indices: 866080--866138 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
866070 TTTAGAATGT
* ***
866080 AAAA-A AAAATA AAAATA ATAAT- AAAATA AAAATA AAAATA GACTTTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA
866127 AAAATA AAAATA
1 AAAATA AAAATA
866139 GACTTTTGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
5 8 0.19
6 32 0.74
7 3 0.07
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:866105 original size:11 final size:11
Alignment explanation
Indices: 866079--866116 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
866069 ATTTAGAATG
866079 TAAAA-AAAAA
1 TAAAATAAAAA
*
866089 TAAAAATAATAA
1 T-AAAATAAAAA
866101 TAAAATAAAAA
1 TAAAATAAAAA
866112 TAAAA
1 TAAAA
866117 ATAGACTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 18 0.75
12 5 0.21
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:866107 original size:17 final size:17
Alignment explanation
Indices: 866079--866138 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
866069 ATTTAGAATG
866079 TAAAAA-AAAATAAAAA
1 TAAAAATAAAATAAAAA
*
866095 TAATAATAAAATAAAAA
1 TAAAAATAAAATAAAAA
**
866112 TAAAAATAGACTTTAAAAA
1 TAAAAATA-A-AATAAAAA
866131 TAAAAATA
1 TAAAAATA
866139 GACTTTTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 5 0.14
17 17 0.46
18 1 0.03
19 14 0.38
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (17 bp):
TAAAAATAAAATAAAAA
Found at i:866130 original size:19 final size:19
Alignment explanation
Indices: 866106--866144 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
866096 AATAATAAAA
866106 TAAAAATAAAAATAGACTT
1 TAAAAATAAAAATAGACTT
866125 TAAAAATAAAAATAGACTT
1 TAAAAATAAAAATAGACTT
866144 T
1 T
866145 TGGCCTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAAATAAAAATAGACTT
Found at i:866771 original size:22 final size:23
Alignment explanation
Indices: 866743--866785 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
866733 TACTATAATG
866743 TGAACAT-TAAAAAATATTAAGA
1 TGAACATATAAAAAATATTAAGA
* *
866765 TGAACATATATAAAATTTTAA
1 TGAACATATAAAAAATATTAA
866786 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (23 bp):
TGAACATATAAAAAATATTAAGA
Found at i:866940 original size:14 final size:14
Alignment explanation
Indices: 866923--866950 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
866913 AAACTTAGGA
866923 TTAAAAATATATAT
1 TTAAAAATATATAT
866937 TTAAAAATATATAT
1 TTAAAAATATATAT
866951 AGAGAGAGGA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATATATAT
Found at i:876946 original size:24 final size:24
Alignment explanation
Indices: 876919--876970 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
876909 TTAGTAAGTC
*
876919 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
876943 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
876967 AAAT
1 AAAT
876971 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:878916 original size:24 final size:24
Alignment explanation
Indices: 878889--878940 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
878879 TTAGTAAGTC
*
878889 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
878913 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
878937 AAAT
1 AAAT
878941 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:888247 original size:15 final size:15
Alignment explanation
Indices: 888193--888241 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
888183 TTTGTATAAA
*
888193 AAATT-ATTTAATAT
1 AAATTAATTAAATAT
*
888207 -AATTAAAATAAATAT
1 AAATT-AATTAAATAT
888222 AAATTAATTAAATAT
1 AAATTAATTAAATAT
888237 AAATT
1 AAATT
888242 TTTTAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTAATTAAATAT
Found at i:896304 original size:21 final size:22
Alignment explanation
Indices: 896275--896321 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
896265 CAGAAGGAGT
*
896275 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
896297 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
896318 GAGT
1 GAGT
896322 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:898819 original size:20 final size:20
Alignment explanation
Indices: 898794--898839 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
898784 CTCCAAGTTG
898794 ATTTTTTTCACTCTTTTACC
1 ATTTTTTTCACTCTTTTACC
898814 ATTTTTTTCACTCTTTTACC
1 ATTTTTTTCACTCTTTTACC
898834 -TTTTTT
1 ATTTTTT
898840 CTTCTCGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTTTTCACTCTTTTACC
Found at i:898917 original size:112 final size:112
Alignment explanation
Indices: 898720--898934 Score: 412
Period size: 112 Copynumber: 1.9 Consensus size: 112
898710 CTCTCCAAAT
*
898720 CCTTTTTTCTTCTCGTCTTTGCAAGCTTAAAGTTCCCCTTGGTGCGAGAGACTTGTTTCTTAGCC
1 CCTTTTTTCTTCTCGTCTTTGCAAGCTCAAAGTTCCCCTTGGTGCGAGAGACTTGTTTCTTAGCC
898785 TCCAAGTTGATTTTTTTCACTCTTTTACCATTTTTTTCACTCTTTTA
66 TCCAAGTTGATTTTTTTCACTCTTTTACCATTTTTTTCACTCTTTTA
*
898832 CCTTTTTTCTTCTCGTCTTTGCAAGCTCAAAGTTTCCCTTGGTGCGAGAGACTTGTTTCTTAGCC
1 CCTTTTTTCTTCTCGTCTTTGCAAGCTCAAAGTTCCCCTTGGTGCGAGAGACTTGTTTCTTAGCC
898897 TCCAAGTTGATTTTTTTCACTCTTTTACCATTTTTTTC
66 TCCAAGTTGATTTTTTTCACTCTTTTACCATTTTTTTC
898935 CTTAAATCAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.48
Consensus pattern (112 bp):
CCTTTTTTCTTCTCGTCTTTGCAAGCTCAAAGTTCCCCTTGGTGCGAGAGACTTGTTTCTTAGCC
TCCAAGTTGATTTTTTTCACTCTTTTACCATTTTTTTCACTCTTTTA
Found at i:907685 original size:122 final size:123
Alignment explanation
Indices: 907514--907758 Score: 440
Period size: 122 Copynumber: 2.0 Consensus size: 123
907504 AGAGTAAAGC
*
907514 ATAATTGACTAGTCTTTCAGCCAATGATTGGCTCTCCACGAGTTCATCAACCTGATTA-GTGTTT
1 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACGAGTTCATCAACCTGATTAGGT-TTT
*
907578 TTCTTAATTTGTTTCAGCT-GCTAGGACGTGGAAAGATGTTAGTTCAAAGTTCCTAATG
65 TTCTTAATTTGTTTCAGCTGGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
*
907636 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACTAGTTCATCAACCTGATTAGGTTTTT
1 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACGAGTTCATCAACCTGATTAGGTTTTT
907701 TCTTAATTTGTTTCAGCTGGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
66 TCTTAATTTGTTTCAGCTGGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
907759 TTCTTACATA
Statistics
Matches: 118, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
122 78 0.66
123 40 0.34
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (123 bp):
ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACGAGTTCATCAACCTGATTAGGTTTTT
TCTTAATTTGTTTCAGCTGGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
Found at i:910263 original size:45 final size:45
Alignment explanation
Indices: 910212--910341 Score: 188
Period size: 45 Copynumber: 2.9 Consensus size: 45
910202 TAAACCACTG
* *
910212 AGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAATAATA
1 AGTGGTTTATCCACACCGTATTAGCAACTTTTATTTGCAACAATA
*
910257 AGTGGTTTATCCACACCGTATTAGCAACTTTTATTTGCAACAATG
1 AGTGGTTTATCCACACCGTATTAGCAACTTTTATTTGCAACAATA
* * * * *
910302 AGTGGTCTATCCACACCATACTAGCAACTTTAATCTGCAA
1 AGTGGTTTATCCACACCGTATTAGCAACTTTTATTTGCAA
910342 ATATGTTGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
AGTGGTTTATCCACACCGTATTAGCAACTTTTATTTGCAACAATA
Found at i:915524 original size:24 final size:24
Alignment explanation
Indices: 915485--915555 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
915475 ATGTTATCTG
915485 AAAAAGG-TATCTAATGAAAAGGTC
1 AAAAAGGATATC-AATGAAAAGGTC
*
915509 GAAAAGGATATCAATGAAAAGGTC
1 AAAAAGGATATCAATGAAAAGGTC
* *
915533 AAAAAGAATAGCAATGAAAAGGT
1 AAAAAGGATATCAATGAAAAGGT
915556 TGGTTTCTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 38 0.90
25 4 0.10
ACGTcount: A:0.54, C:0.07, G:0.23, T:0.17
Consensus pattern (24 bp):
AAAAAGGATATCAATGAAAAGGTC
Found at i:916933 original size:55 final size:55
Alignment explanation
Indices: 916824--916935 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
916814 ATCGAATGCA
* * * * *
916824 CACACGGTTTGACACATGACCTATGACGCGGCAGTGTGGCCCTATTTCGAATACT
1 CACACGGGTGGACACACGACCTATGACACGGCAGTGTGGCCCTATTTCAAATACT
* *
916879 CACACGGGTGGACACACGACCTATGACACGGCCGTGTGGCCTTATTTCAAATACT
1 CACACGGGTGGACACACGACCTATGACACGGCAGTGTGGCCCTATTTCAAATACT
916934 CA
1 CA
916936 TGCGAATGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (55 bp):
CACACGGGTGGACACACGACCTATGACACGGCAGTGTGGCCCTATTTCAAATACT
Found at i:917647 original size:48 final size:48
Alignment explanation
Indices: 917576--917779 Score: 205
Period size: 48 Copynumber: 4.2 Consensus size: 48
917566 AAGCTGCTAG
* * * *
917576 TACGTTGTGGATGAACCACTGGTCGTGTAGATAAAATTCCAACTAAGA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTTCCGACTAAGA
* * * *
917624 TATGTTTTGGACGAACCATTGGTCGTGCAGATTAACTAT-CGACTAAGA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACT-TCCGACTAAGA
* * * *
917672 TACGTTTTGGATGAACAACTAGTCGTGCAGATAAACTCCCGACTAAAA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTTCCGACTAAGA
* * ** * *
917720 TACATTTTGGATGAACCATTGGTCCAGCAAATAAACTGT-CGACTAAAA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACT-TCCGACTAAGA
*
917768 TACGTTGTGGAT
1 TACGTTTTGGAT
917780 AAATAATGTG
Statistics
Matches: 127, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
48 126 0.99
49 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (48 bp):
TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTTCCGACTAAGA
Found at i:917740 original size:96 final size:96
Alignment explanation
Indices: 917576--917779 Score: 255
Period size: 96 Copynumber: 2.1 Consensus size: 96
917566 AAGCTGCTAG
* * * * * **
917576 TACGTTGTGGATGAACCACTGGTCGTGTAGATAAAATTCCAACTAAGATATGTTTTGGACGAACC
1 TACGTTGTGGATGAACAACTAGTCGTGCAGATAAAATCCCAACTAAAATACATTTTGGACGAACC
** * * *
917641 ATTGGTCGTGCAGATTAACTATCGACTAAGA
66 ATTGGTCCAGCAAATAAACTATCGACTAAAA
* * * *
917672 TACGTTTTGGATGAACAACTAGTCGTGCAGATAAACTCCCGACTAAAATACATTTTGGATGAACC
1 TACGTTGTGGATGAACAACTAGTCGTGCAGATAAAATCCCAACTAAAATACATTTTGGACGAACC
*
917737 ATTGGTCCAGCAAATAAACTGTCGACTAAAA
66 ATTGGTCCAGCAAATAAACTATCGACTAAAA
917768 TACGTTGTGGAT
1 TACGTTGTGGAT
917780 AAATAATGTG
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (96 bp):
TACGTTGTGGATGAACAACTAGTCGTGCAGATAAAATCCCAACTAAAATACATTTTGGACGAACC
ATTGGTCCAGCAAATAAACTATCGACTAAAA
Found at i:919193 original size:53 final size:53
Alignment explanation
Indices: 919112--919262 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
919102 CTTACACGGT
* *
919112 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
919167 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
919220 TCACATTCCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
919263 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:926346 original size:53 final size:53
Alignment explanation
Indices: 926265--926415 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
926255 CTTACACGGT
* *
926265 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
926320 TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
926373 TCACATTCCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
926416 GCACACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:931048 original size:17 final size:18
Alignment explanation
Indices: 931014--931057 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
931004 TTTTAGATAA
931014 AAATATTAAATATGAAAAAT
1 AAAT-TTAAATA-GAAAAAT
*
931034 AAATTTAAATA-AAAATT
1 AAATTTAAATAGAAAAAT
931051 AAATTTA
1 AAATTTA
931058 TTTAAAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
19 7 0.30
20 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTTAAATAGAAAAAT
Found at i:931641 original size:43 final size:43
Alignment explanation
Indices: 931580--931666 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
931570 TTAAATTAAA
*
931580 GATCAAATTAGTTTTTCTGTTAAAAATTTCATCCATTTTTACT
1 GATCAAATTAGTTTTTCTGTTAAAAATTCCATCCATTTTTACT
*
931623 GATCAAATTAGTTTTTCTGTTAAAAATTCCATTCATTTTTACT
1 GATCAAATTAGTTTTTCTGTTAAAAATTCCATCCATTTTTACT
931666 G
1 G
931667 TTAAGTGCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (43 bp):
GATCAAATTAGTTTTTCTGTTAAAAATTCCATCCATTTTTACT
Found at i:932044 original size:28 final size:28
Alignment explanation
Indices: 932004--932061 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
931994 AGAATCGTCC
932004 TCAATAAATTCAAAGACAACTTAAGTCA
1 TCAATAAATTCAAAGACAACTTAAGTCA
*
932032 TCAATAGATTCAAAGACAACTTAAGTCA
1 TCAATAAATTCAAAGACAACTTAAGTCA
932060 TC
1 TC
932062 TCCAACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (28 bp):
TCAATAAATTCAAAGACAACTTAAGTCA
Found at i:932700 original size:23 final size:23
Alignment explanation
Indices: 932674--932723 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
932664 ACGAAATTAA
932674 TAAAATAACATATAAT-TATAT-T
1 TAAAATAA-ATATAATATATATAT
*
932696 TTAAA-AAATATAATATATATAT
1 TAAAATAAATATAATATATATAT
932718 TAAAAT
1 TAAAAT
932724 TAAAATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAATAAATATAATATATATAT
Found at i:932708 original size:20 final size:21
Alignment explanation
Indices: 932683--932722 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
932673 ATAAAATAAC
*
932683 ATATAAT-TATATTTTAAAAA
1 ATATAATATATATATTAAAAA
932703 ATATAATATATATATTAAAA
1 ATATAATATATATATTAAAA
932723 TTAAAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATAATATATATATTAAAAA
Found at i:933422 original size:3 final size:3
Alignment explanation
Indices: 933416--933453 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
933406 TCATCATCAT
933416 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
933454 TCATCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:934966 original size:16 final size:17
Alignment explanation
Indices: 934945--934997 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
934935 AAAAATGATA
934945 TTTTCTA-TCCTTTT-AT
1 TTTTCTACT-CTTTTAAT
934961 TTTTCTACTCTTTTAAT
1 TTTTCTACTCTTTTAAT
* *
934978 TTTT-TAATTTTTTAAT
1 TTTTCTACTCTTTTAAT
934994 TTTT
1 TTTT
934998 TAATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 26 0.79
17 7 0.21
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTACTCTTTTAAT
Found at i:934982 original size:24 final size:24
Alignment explanation
Indices: 934955--935006 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
934945 TTTTCTATCC
*
934955 TTTT-ATTTTTCTACTCTTTTAATT
1 TTTTAATTTTT-TAATCTTTTAATT
*
934979 TTTTAATTTTTTAATTTTTTAATT
1 TTTTAATTTTTTAATCTTTTAATT
935003 TTTT
1 TTTT
935007 TATTCTACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTAATTTTTTAATCTTTTAATT
Found at i:934984 original size:8 final size:8
Alignment explanation
Indices: 934971--935006 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
934961 TTTTCTACTC
934971 TTTTAATT
1 TTTTAATT
934979 TTTTAATT
1 TTTTAATT
934987 TTTTAATT
1 TTTTAATT
934995 TTTTAATT
1 TTTTAATT
935003 TTTT
1 TTTT
935007 TATTCTACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTAATT
Found at i:936995 original size:17 final size:16
Alignment explanation
Indices: 936970--937013 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
936960 TAAAGATTTC
*
936970 AAATAAAAAGTACATAA
1 AAATAAAAAGTA-AAAA
* *
936987 AATTAAAAATTAAAAA
1 AAATAAAAAGTAAAAA
937003 AAATAAAAAGT
1 AAATAAAAAGT
937014 GCTCTTCTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (16 bp):
AAATAAAAAGTAAAAA
Found at i:937256 original size:2 final size:2
Alignment explanation
Indices: 937249--937277 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
937239 CCAAAAATTA
937249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
937278 GATAGATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:937833 original size:11 final size:11
Alignment explanation
Indices: 937817--937843 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
937807 TTATTATATC
937817 AATCAAAATAA
1 AATCAAAATAA
937828 AATCAAAATAA
1 AATCAAAATAA
937839 AATCA
1 AATCA
937844 TGTCGCCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (11 bp):
AATCAAAATAA
Found at i:937911 original size:81 final size:81
Alignment explanation
Indices: 937818--937978 Score: 322
Period size: 81 Copynumber: 2.0 Consensus size: 81
937808 TATTATATCA
937818 ATCAAAATAAAATCAAAATAAAATCATGTCGCCGGGGAGTAGCTAAAATAAGAAATTTAACTAAC
1 ATCAAAATAAAATCAAAATAAAATCATGTCGCCGGGGAGTAGCTAAAATAAGAAATTTAACTAAC
937883 AAGAGTGACTAAAATT
66 AAGAGTGACTAAAATT
937899 ATCAAAATAAAATCAAAATAAAATCATGTCGCCGGGGAGTAGCTAAAATAAGAAATTTAACTAAC
1 ATCAAAATAAAATCAAAATAAAATCATGTCGCCGGGGAGTAGCTAAAATAAGAAATTTAACTAAC
937964 AAGAGTGACTAAAAT
66 AAGAGTGACTAAAAT
937979 AATAATTTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (81 bp):
ATCAAAATAAAATCAAAATAAAATCATGTCGCCGGGGAGTAGCTAAAATAAGAAATTTAACTAAC
AAGAGTGACTAAAATT
Found at i:937915 original size:11 final size:11
Alignment explanation
Indices: 937899--937924 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
937889 GACTAAAATT
937899 ATCAAAATAAA
1 ATCAAAATAAA
937910 ATCAAAATAAA
1 ATCAAAATAAA
937921 ATCA
1 ATCA
937925 TGTCGCCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (11 bp):
ATCAAAATAAA
Found at i:938198 original size:12 final size:13
Alignment explanation
Indices: 938181--938210 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
938171 ATTTCATTTC
938181 TTTTTTT-CTTTT
1 TTTTTTTCCTTTT
938193 TTTTTTTCCTTTT
1 TTTTTTTCCTTTT
938206 TTTTT
1 TTTTT
938211 AATTCTGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTCCTTTT
Found at i:945224 original size:2 final size:2
Alignment explanation
Indices: 945212--945248 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
945202 CTACTCTTCT
*
945212 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
945249 TTTCTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:951359 original size:6 final size:6
Alignment explanation
Indices: 951348--951379 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
951338 GCAAATGAAT
951348 CATTTC CATTTC CATTTC CATTTC CATTTC CA
1 CATTTC CATTTC CATTTC CATTTC CATTTC CA
951380 ATTTGAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (6 bp):
CATTTC
Found at i:954660 original size:39 final size:39
Alignment explanation
Indices: 954606--954681 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
954596 GTCCATAGCA
954606 ATTTTAAATACCAACTTGGATGTCCTATATGGCAAATCC
1 ATTTTAAATACCAACTTGGATGTCCTATATGGCAAATCC
*
954645 ATTTTAAATACCAACTTGGATGTCCTATGTGGCAAAT
1 ATTTTAAATACCAACTTGGATGTCCTATATGGCAAAT
954682 TCAAATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (39 bp):
ATTTTAAATACCAACTTGGATGTCCTATATGGCAAATCC
Found at i:954691 original size:39 final size:39
Alignment explanation
Indices: 954609--954692 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
954599 CATAGCAATT
**
954609 TTAAATACCAACTTGGATGTCCTATATGGCAAATCCATT
1 TTAAATACCAACTTGGATGTCCTATATGGCAAATCCAAA
* *
954648 TTAAATACCAACTTGGATGTCCTATGTGGCAAATTCAAA
1 TTAAATACCAACTTGGATGTCCTATATGGCAAATCCAAA
954687 TTAAAT
1 TTAAAT
954693 TTATTTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (39 bp):
TTAAATACCAACTTGGATGTCCTATATGGCAAATCCAAA
Found at i:957764 original size:20 final size:20
Alignment explanation
Indices: 957723--957787 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
957713 AATTTGATTT
* **
957723 ATTTAAAATAAAAATATTAA
1 ATTTAAATTAAAAATAGAAA
957743 ATTTAAATTAAAAATAGAAA
1 ATTTAAATTAAAAATAGAAA
*
957763 ATATATAATATTAAATATTAGAAA
1 AT-T-TAA-ATTAAA-AATAGAAA
957787 A
1 A
957788 CATTGTTGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 19 0.51
21 1 0.03
22 3 0.08
23 6 0.16
24 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
ATTTAAATTAAAAATAGAAA
Found at i:958014 original size:19 final size:19
Alignment explanation
Indices: 957992--958029 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
957982 CAAATTAATA
957992 TATAAAAATTGAAAAAATT
1 TATAAAAATTGAAAAAATT
*
958011 TATAAAAATTTAAAAAATT
1 TATAAAAATTGAAAAAATT
958030 AAATTTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TATAAAAATTGAAAAAATT
Found at i:958017 original size:10 final size:9
Alignment explanation
Indices: 957995--958029 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
957985 ATTAATATAT
*
957995 AAAAATTGA
1 AAAAATTTA
958004 AAAAATTTA
1 AAAAATTTA
958013 TAAAAATTTA
1 -AAAAATTTA
958023 AAAAATT
1 AAAAATT
958030 AAATTTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTTA
Found at i:958148 original size:9 final size:9
Alignment explanation
Indices: 958106--958147 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
958096 TTTTTTAAAT
958106 ATTTTTTAC
1 ATTTTTTAC
*
958115 ATTTTTTAT
1 ATTTTTTAC
*
958124 AATTTTTAC
1 ATTTTTTAC
*
958133 ACTTTTTAC
1 ATTTTTTAC
958142 -TTTTTT
1 ATTTTTT
958148 TTGTAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTTTAC
Found at i:958148 original size:18 final size:18
Alignment explanation
Indices: 958104--958140 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
958094 TATTTTTTAA
*
958104 ATATTTTTTACATTTTTT
1 ATATTTTTTACACTTTTT
*
958122 ATAATTTTTACACTTTTT
1 ATATTTTTTACACTTTTT
958140 A
1 A
958141 CTTTTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (18 bp):
ATATTTTTTACACTTTTT
Found at i:958223 original size:17 final size:19
Alignment explanation
Indices: 958203--958246 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
958193 TATTTTGTAA
958203 ATTTTTTTATA-ATT-TAT
1 ATTTTTTTATAGATTATAT
*
958220 ATTTTTTTCTAGATTATAT
1 ATTTTTTTATAGATTATAT
958239 ATATTTTT
1 AT-TTTTT
958247 GAATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 5 0.22
20 5 0.22
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTTTTTTATAGATTATAT
Found at i:958673 original size:29 final size:30
Alignment explanation
Indices: 958641--958709 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
958631 AAATGAAGGT
* *
958641 CAAACTTTT-CAAAATGGTCAAATAAGAAC
1 CAAACTTTTAAAAAATGCTCAAATAAGAAC
**
958670 CAAACTTTTTAAAAAATGCTCAAATAAGGGC
1 CAAAC-TTTTAAAAAATGCTCAAATAAGAAC
958701 CAAACTTTT
1 CAAACTTTT
958710 TCAAGCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.15
30 8 0.24
31 21 0.62
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (30 bp):
CAAACTTTTAAAAAATGCTCAAATAAGAAC
Found at i:958686 original size:31 final size:31
Alignment explanation
Indices: 958651--958710 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
958641 CAAACTTTTC
*
958651 AAAATGGTCAAATAAGAACCAAACTTTTTAA
1 AAAATGCTCAAATAAGAACCAAACTTTTTAA
**
958682 AAAATGCTCAAATAAGGGCCAAACTTTTT
1 AAAATGCTCAAATAAGAACCAAACTTTTT
958711 CAAGCAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (31 bp):
AAAATGCTCAAATAAGAACCAAACTTTTTAA
Found at i:958690 original size:60 final size:59
Alignment explanation
Indices: 958576--958709 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 59
958566 TGCTAACATA
* * * * **
958576 AAGGTCAAAGTTTTCAAAATGGTAATATATGGACCTAACATTTATAAATGTGCTCAAAT
1 AAGGTCAAACTTTTCAAAATGGTAATATAAGAACCAAACATTTATAAAAATGCTCAAAT
*
958635 GAAGGTCAAACTTTTCAAAATGGTCAA-ATAAGAACCAAAC-TTTTTAAAAAATGCTCAAAT
1 -AAGGTCAAACTTTTCAAAATGGT-AATATAAGAACCAAACATTTAT-AAAAATGCTCAAAT
*
958695 AAGGGCCAAACTTTT
1 AA-GGTCAAACTTTT
958710 TCAAGCAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 6 0.10
60 55 0.87
61 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (59 bp):
AAGGTCAAACTTTTCAAAATGGTAATATAAGAACCAAACATTTATAAAAATGCTCAAAT
Found at i:962245 original size:37 final size:37
Alignment explanation
Indices: 962171--962260 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
962161 AGTACACAAG
*
962171 TAATCCAACCGA-AACATGCCAAACGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAACGCTCATAAAAGC
* *
962207 TAATCCAACCGATAACATGCCAAATGTTCCA-AAAAGC
1 TAATCCAACCGATAACATGCCAAACGCT-CATAAAAGC
*
962244 TAATCCAACTGATAACA
1 TAATCCAACCGATAACA
962261 CACCACGACA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
36 12 0.25
37 34 0.71
38 2 0.04
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (37 bp):
TAATCCAACCGATAACATGCCAAACGCTCATAAAAGC
Found at i:969880 original size:66 final size:66
Alignment explanation
Indices: 969798--969932 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
969788 ACATAATCCC
*
969798 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGTAATGATGCAAATTCAAATC
1 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
969863 A
66 A
*
969864 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGTGTATGCAATGATGCAAATTCAAATC
1 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
969929 A
66 A
969930 AAC
1 AAC
969933 TCATATAATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (66 bp):
AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
A
Found at i:975194 original size:26 final size:26
Alignment explanation
Indices: 975164--975216 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
975154 GATAACATAT
*
975164 AATCAATTAAATAAATGT-TTAAATTA
1 AATCAAATAAATAAAT-TATTAAATTA
*
975190 AATCAAATAGATAAATTATTAAATTA
1 AATCAAATAAATAAATTATTAAATTA
975216 A
1 A
975217 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (26 bp):
AATCAAATAAATAAATTATTAAATTA
Found at i:975485 original size:6 final size:6
Alignment explanation
Indices: 975474--975614 Score: 60
Period size: 6 Copynumber: 23.0 Consensus size: 6
975464 TGTCATACAA
* * * **
975474 TATAAT TATAAT TATTTTAT TTTATT TATTAAT ATATTAAT TATGGT TATAAT
1 TATAAT TATAAT TA--TAAT TATAAT TA-TAAT -TA-TAAT TATAAT TATAAT
* * *
975527 TATAAT TATAA- TATAGT TGATCA- TACAA- TATAAT TATAAT TAT--T
1 TATAAT TATAAT TATAAT T-ATAAT TATAAT TATAAT TATAAT TATAAT
* **
975571 T-TATT TATTAAT ATATTAAT TATGGT TATAAT TATAAT TATAAT
1 TATAAT TA-TAAT -TA-TAAT TATAAT TATAAT TATAAT TATAAT
975615 ATAGTTGATG
Statistics
Matches: 102, Mismatches: 21, Indels: 24
0.69 0.14 0.16
Matches are distributed among these distances:
3 1 0.01
4 2 0.02
5 12 0.12
6 57 0.56
7 12 0.12
8 18 0.18
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TATAAT
Found at i:975585 original size:76 final size:75
Alignment explanation
Indices: 975480--975623 Score: 270
Period size: 76 Copynumber: 1.9 Consensus size: 75
975470 ACAATATAAT
*
975480 TATAATTATTTTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGTT
1 TATAATTATATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGTT
975545 GATCATACAA
66 GATCATACAA
975555 TATAATTATAATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGT
1 TATAATTAT-ATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGT
975620 TGAT
65 TGAT
975624 GTTGCAATCA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 9 0.13
76 58 0.87
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (75 bp):
TATAATTATATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGTT
GATCATACAA
Found at i:979675 original size:13 final size:13
Alignment explanation
Indices: 979657--979682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
979647 CAGTTTCTAC
979657 CTATTATAAAAGT
1 CTATTATAAAAGT
979670 CTATTATAAAAGT
1 CTATTATAAAAGT
979683 AAAAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CTATTATAAAAGT
Found at i:979752 original size:15 final size:15
Alignment explanation
Indices: 979710--979756 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
979700 TAATAAATTG
* *
979710 AAAATTTAAATGCTGA
1 AAAATTTAAAT-ATTA
979726 AAAA-TTAAATATTA
1 AAAATTTAAATATTA
979740 AAAATTTAAATATTA
1 AAAATTTAAATATTA
979755 AA
1 AA
979757 TTTAAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 18 0.64
16 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (15 bp):
AAAATTTAAATATTA
Found at i:981277 original size:13 final size:13
Alignment explanation
Indices: 981259--981284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
981249 TTTTGATCTT
981259 AATGTCAGCTGGG
1 AATGTCAGCTGGG
981272 AATGTCAGCTGGG
1 AATGTCAGCTGGG
981285 TTGTGGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
AATGTCAGCTGGG
Found at i:986033 original size:21 final size:21
Alignment explanation
Indices: 986007--986060 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
985997 CGGGTGTGGG
*
986007 ACACGGGCGTGTTACCCTTCC
1 ACACGGGCGTGTTACCATTCC
986028 ACACGGGCGTGTTACCATTCC
1 ACACGGGCGTGTTACCATTCC
*
986049 ACATGGGCGTGT
1 ACACGGGCGTGT
986061 GCCCTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.31, G:0.28, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTTACCATTCC
Found at i:987538 original size:46 final size:46
Alignment explanation
Indices: 987486--987661 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
987476 TGGTTGAGCA
*
987486 TCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
987532 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
987577 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
987625 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
987662 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:987642 original size:93 final size:93
Alignment explanation
Indices: 987483--987653 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
987473 GGATGGTTGA
* **
987483 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
987548 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
987576 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
987641 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
987654 ACTTATGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:990211 original size:17 final size:17
Alignment explanation
Indices: 990191--990616 Score: 68
Period size: 17 Copynumber: 25.2 Consensus size: 17
990181 TTACAGAAGT
990191 AAATTAATTAAAGTTTA
1 AAATTAATTAAAGTTTA
* * *
990208 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
* * ** *
990225 AAAATATTTAAAACAATCA
1 AAATTAATT-AAA-GTTTA
**
990244 AAATTAATTAAAG-AAA
1 AAATTAATTAAAGTTTA
* *
990260 TAAATAAATTAAATTTTAAAA
1 -AAATTAATTAAAGTTT---A
990281 TAAATTAATTAAAGTTTA
1 -AAATTAATTAAAGTTTA
* * *
990299 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
* * ** *
990316 AAAATATTTAAAACAATCA
1 AAATTAATT-AAA-GTTTA
*
990335 AAATTAAATAAA---T-
1 AAATTAATTAAAGTTTA
*
990348 AAATTAATTAAATTTTAAAA
1 AAATTAATTAAAGTTT---A
990368 TAAATTAATTAAAGTTTA
1 -AAATTAATTAAAGTTTA
* * *
990386 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
* * ** *
990403 AAAATATTTAAAACAATAA
1 AAATTAATT-AAA-GTTTA
* **
990422 AAATTAATTAATG-AAA
1 AAATTAATTAAAGTTTA
*
990438 TAAATTAATTAAATTTTA
1 -AAATTAATTAAAGTTTA
* * *
990456 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
*
990473 AAA--AA-TAAA--ATA
1 AAATTAATTAAAGTTTA
** *
990485 AAATT--TTAAAAATCA
1 AAATTAATTAAAGTTTA
*
990500 AAATTAATTAAAGTTGA
1 AAATTAATTAAAGTTTA
990517 AAATAAATGAATTAAAGTTTA
1 AAAT---T-AATTAAAGTTTA
* *
990538 AAATAAATTTAA-TTTA
1 AAATTAATTAAAGTTTA
*
990554 AAA--AATTTAA-TTT-
1 AAATTAATTAAAGTTTA
* *
990567 AATTTAA--AAA--TCA
1 AAATTAATTAAAGTTTA
990580 AAATTAATTAAAGTTTA
1 AAATTAATTAAAGTTTA
* * *
990597 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
990614 AAA
1 AAA
990617 AATAGAATTT
Statistics
Matches: 294, Mismatches: 76, Indels: 78
0.66 0.17 0.17
Matches are distributed among these distances:
12 6 0.02
13 25 0.09
14 13 0.04
15 13 0.04
16 11 0.04
17 136 0.46
18 17 0.06
19 26 0.09
20 1 0.00
21 46 0.16
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTAATTAAAGTTTA
Done.