Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 3 of 322
Found at i:582116 original size:31 final size:31
Alignment explanation
Indices: 582078--582223 Score: 222
Period size: 31 Copynumber: 4.7 Consensus size: 31
582068 GGCTATTACA
582078 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
*
582109 GAAAAGTGGTAGCTTCTGCTACCTGATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
*
582140 GAAAAGTGGTAGCTCCGGCTACCTGATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
* *
582171 GAAAAATGGTAG-TACCGGCTACCTGATCAGT
1 GAAAAGTGGTAGCT-TCGGCTACCTGATCAGT
* *
582202 GAATAGTGGTAGCTTCGACTAC
1 GAAAAGTGGTAGCTTCGGCTAC
582224 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 103 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (31 bp):
GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
Found at i:582311 original size:47 final size:46
Alignment explanation
Indices: 582241--582454 Score: 211
Period size: 47 Copynumber: 4.7 Consensus size: 46
582231 AAGTGATTTC
* * *
582241 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * * *
582287 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
582334 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TA
* * * *
582383 CGTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
582425 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATAGCTGGGATATGGCATC
582455 ATTATGTGAA
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
42 31 0.21
43 1 0.01
44 5 0.03
45 1 0.01
46 27 0.18
47 41 0.28
48 11 0.07
49 31 0.21
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
Found at i:582396 original size:49 final size:48
Alignment explanation
Indices: 582245--582498 Score: 227
Period size: 42 Copynumber: 5.6 Consensus size: 48
582235 GATTTCCGTA
* * * * * * *
582245 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTC-GTG
* * * *
582292 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
582338 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
*
582387 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
582429 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GA-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTCGTG
* **
582471 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
582499 GAAAACGAAG
Statistics
Matches: 186, Mismatches: 14, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
41 1 0.01
42 64 0.34
43 1 0.01
44 1 0.01
45 1 0.01
46 27 0.15
47 39 0.21
48 14 0.08
49 38 0.20
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:592374 original size:43 final size:43
Alignment explanation
Indices: 592272--592376 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
592262 CCTTGCTATA
* * *
592272 ATCTTACACAAAATCAAATAACGATGTCAATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
* ** * *
592315 GTCTTACATGTAATCACATAATGATGCCGATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
592358 ATCTTACACATAATCACAT
1 ATCTTACACATAATCACAT
592377 CTCGTTAATC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (43 bp):
ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
Found at i:597705 original size:48 final size:48
Alignment explanation
Indices: 597649--597794 Score: 283
Period size: 48 Copynumber: 3.0 Consensus size: 48
597639 CATATGTTCC
*
597649 ACCAGAGAACATTGAGAACATCACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
597697 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
597745 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
597793 AC
1 AC
597795 GAAATCCTGC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 97 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (48 bp):
ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
Found at i:599258 original size:17 final size:18
Alignment explanation
Indices: 599223--599262 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
599213 TACCTCTTAG
*
599223 AAGTATTTTTGGGATTAA
1 AAGTATTTTTGAGATTAA
599241 AAGTATTTTTGAGA-TAA
1 AAGTATTTTTGAGATTAA
599258 AAGTA
1 AAGTA
599263 ATGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
AAGTATTTTTGAGATTAA
Found at i:602465 original size:18 final size:18
Alignment explanation
Indices: 602442--602478 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
602432 TTATTCTTCT
602442 TATTCGGTAACCATTGGA
1 TATTCGGTAACCATTGGA
*
602460 TATTCGGTAACTATTGGA
1 TATTCGGTAACCATTGGA
602478 T
1 T
602479 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (18 bp):
TATTCGGTAACCATTGGA
Found at i:606773 original size:12 final size:13
Alignment explanation
Indices: 606748--606776 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
606738 TGGTGGCGCA
606748 GTGGTGGCTGCTG
1 GTGGTGGCTGCTG
606761 GTGGTGG-TGCTG
1 GTGGTGGCTGCTG
606773 GTGG
1 GTGG
606777 CGAAGCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.59, T:0.31
Consensus pattern (13 bp):
GTGGTGGCTGCTG
Found at i:607534 original size:3 final size:3
Alignment explanation
Indices: 607526--607560 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
607516 AGAATGCCAA
607526 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
607561 GGTGTTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:617701 original size:37 final size:38
Alignment explanation
Indices: 617637--617714 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
617627 GAAGATTTCC
617637 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
1 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
* **
617675 ATTTAATCTCTTT-AAATCTTTAATTATATTGGTTTTA
1 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
617712 ATT
1 ATT
617715 AGAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (38 bp):
ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
Found at i:618644 original size:91 final size:89
Alignment explanation
Indices: 618538--618801 Score: 336
Period size: 91 Copynumber: 2.9 Consensus size: 89
618528 TAATATATTG
*
618538 ATTGATAGTTCAAGTATCACATT-GAACATTTTCAAAGTATAAGTACCTAGTTGGACAATTTATG
1 ATTGATAGTTCAAGTACCACATTAG-ACATTTTCAAAGTATAAGTACC-A-TTGGACAATTTATG
618602 AAAGTACATGTATCAAATAAGACACAA
63 AAAGTACATGTATCAAATAAGACACAA
* *
618629 ATTGATAGTTCAAGTACCACATTAGAGATTTTCAAAGTAT-AGATATCACATTAGAC-ATATTAT
1 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAG-TA-C-CATTGGACAAT-TTAT
* *
618692 GAAAGTACATGTACCAAATAATACACAA
62 GAAAGTACATGTATCAAATAAGACACAA
* * *
618720 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAGGTACCACATTGAACATTTTATGA
1 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAGTA-C-CATTGGACAATTTATGA
* *
618785 AAGTATAAGTATCAAAT
64 AAGTACATGTATCAAAT
618802 GTGACATTAT
Statistics
Matches: 152, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
90 4 0.03
91 142 0.93
92 5 0.03
93 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (89 bp):
ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAGTACCATTGGACAATTTATGAAA
GTACATGTATCAAATAAGACACAA
Found at i:618791 original size:31 final size:29
Alignment explanation
Indices: 618642--618780 Score: 93
Period size: 29 Copynumber: 4.7 Consensus size: 29
618632 GATAGTTCAA
*
618642 GTACCACATTAGAGATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAG
* * * * *
618671 ATATCACATTAGACATATTATGAAAGTACAT
1 GTACCACATTAGACAT-TT-TCAAAGTATAG
* * ** * * *
618702 GTACCAAATAATACACAAATTGATAGT-TCAA
1 GTACCACAT--TAGACATTTTCAAAGTAT-AG
618733 GTACCACATTAGACATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAG
618762 GTACCACATT-GAACATTTT
1 GTACCACATTAG-ACATTTT
618781 ATGAAAGTAT
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
28 1 0.01
29 42 0.52
30 3 0.04
31 29 0.36
32 1 0.01
33 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (29 bp):
GTACCACATTAGACATTTTCAAAGTATAG
Found at i:621126 original size:24 final size:24
Alignment explanation
Indices: 621073--621131 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
621063 AAAATATAAC
621073 ATTAA-AAATATATATATGTAATAT
1 ATTAAGAAATATATATA-GTAATAT
*
621097 A-CAAGAAATATATATA-TAATAGT
1 ATTAAGAAATATATATAGTAATA-T
621120 ATTAAG-AATATA
1 ATTAAGAAATATA
621132 AACATAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 15 0.50
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (24 bp):
ATTAAGAAATATATATAGTAATAT
Found at i:622016 original size:14 final size:16
Alignment explanation
Indices: 621992--622033 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
621982 AAGGTAAAAA
621992 TTATATTTTTTTG-TT
1 TTATATTTTTTTGCTT
622007 TTAT-TTTTTTTGCTT
1 TTATATTTTTTTGCTT
*
622022 TT-TAGTTTTTTG
1 TTATATTTTTTTG
622034 GTATTTGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (16 bp):
TTATATTTTTTTGCTT
Found at i:624507 original size:20 final size:19
Alignment explanation
Indices: 624471--624542 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
624461 AAAATTAAAA
*
624471 TATATTTTT-ATATATTTT
1 TATATTTTTAATAAATTTT
624489 TATACTTTTTAATAAA-TTT
1 TATA-TTTTTAATAAATTTT
* *
624508 TAAATTTTTACTATAATTTT
1 TATATTTTTAATA-AATTTT
* *
624528 TAAAATTTTAA-AAAT
1 TATATTTTTAATAAAT
624543 AATTAATTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
18 15 0.33
19 14 0.31
20 16 0.36
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTTTTAATAAATTTT
Found at i:628975 original size:34 final size:34
Alignment explanation
Indices: 628932--629001 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
628922 TAGGAGTTTA
628932 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
1 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
628966 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
1 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
629000 TT
1 TT
629002 GACTTTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (34 bp):
TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
Found at i:632382 original size:14 final size:15
Alignment explanation
Indices: 632363--632395 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
632353 AAATAAAGGG
632363 CTTTTTCTTT-TTTT
1 CTTTTTCTTTATTTT
632377 CTTTTTCTTTATTTT
1 CTTTTTCTTTATTTT
632392 -TTTT
1 CTTTT
632396 AACCTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (15 bp):
CTTTTTCTTTATTTT
Found at i:635612 original size:40 final size:40
Alignment explanation
Indices: 635557--635678 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
635547 TGTCGCACTT
*
635557 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGAATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
*
635597 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTGAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
*
635637 TTCTATTTTAACCCTAGTATTCTTGCTCTAAGGATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
635677 TT
1 TT
635679 TGCTCCATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (40 bp):
TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
Found at i:644465 original size:19 final size:19
Alignment explanation
Indices: 644443--644480 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
644433 TTTTAATTAT
644443 TATAATAAAAAAGAAAAAA
1 TATAATAAAAAAGAAAAAA
* *
644462 TATATTTAAAAAGAAAAAA
1 TATAATAAAAAAGAAAAAA
644481 ATTTAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
TATAATAAAAAAGAAAAAA
Found at i:645912 original size:30 final size:30
Alignment explanation
Indices: 645853--645915 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
645843 GTCTACATAC
* *
645853 TTTATTTGATCAAATTTAACCCTTGTACTT
1 TTTAATTGATCAAATTTAACCCTTATACTT
* * *
645883 TTTAATTGGTCAATTTTAATCCTTATACTT
1 TTTAATTGATCAAATTTAACCCTTATACTT
645913 TTT
1 TTT
645916 TTGAATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.54
Consensus pattern (30 bp):
TTTAATTGATCAAATTTAACCCTTATACTT
Found at i:651795 original size:20 final size:20
Alignment explanation
Indices: 651764--651816 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
651754 GATGATATTT
*
651764 TATA-ATTA-TTTAATTAGA
1 TATATATTATTTTAATGAGA
651782 TATATATTATTTTAATGAGA
1 TATATATTATTTTAATGAGA
* *
651802 TGTCTTATTATTTTA
1 TAT-ATATTATTTTA
651817 TTATTATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 11 0.38
21 10 0.34
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
TATATATTATTTTAATGAGA
Found at i:651820 original size:3 final size:3
Alignment explanation
Indices: 651806--651850 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
651796 ATGAGATGTC
*
651806 TTA TTA TT- TTA TTA TTA TT- TCA TTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
651849 TT
1 TT
651851 TAGTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 28 0.78
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:651822 original size:11 final size:11
Alignment explanation
Indices: 651806--651844 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
651796 ATGAGATGTC
651806 TTATTATTTTA
1 TTATTATTTTA
*
651817 TTATTATTTCA
1 TTATTATTTTA
651828 TTATTATTTTA
1 TTATTATTTTA
651839 TTATTA
1 TTATTA
651845 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:655390 original size:20 final size:21
Alignment explanation
Indices: 655361--655409 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
655351 ATATTTTATG
*
655361 ATTA-TTTAATTAGATAT-AT
1 ATTATTTTAATGAGATATCAT
* *
655380 ATTATTTTAATGAGATGTCTT
1 ATTATTTTAATGAGATATCAT
655401 ATTATTTTA
1 ATTATTTTA
655410 TTATTATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (21 bp):
ATTATTTTAATGAGATATCAT
Found at i:655413 original size:3 final size:3
Alignment explanation
Indices: 655399--655443 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
655389 ATGAGATGTC
*
655399 TTA TTA TT- TTA TTA TTA TT- TCA TTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
655442 TT
1 TT
655444 TAGTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 28 0.78
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:655415 original size:11 final size:11
Alignment explanation
Indices: 655399--655437 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
655389 ATGAGATGTC
655399 TTATTATTTTA
1 TTATTATTTTA
*
655410 TTATTATTTCA
1 TTATTATTTTA
655421 TTATTATTTTA
1 TTATTATTTTA
655432 TTATTA
1 TTATTA
655438 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:657627 original size:23 final size:23
Alignment explanation
Indices: 657593--657742 Score: 142
Period size: 23 Copynumber: 6.4 Consensus size: 23
657583 CCTATATATA
*
657593 GCTCTTTATGAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
*
657616 GCTCTTTGTGAGCCTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
** *
657639 TGCTCGCT-TGAACTTCCCGATATATG
1 -GCTCTTTGTGAGCTTCCCG--ATA-G
* * *
657665 GCTATCTG-GAGCTTCCCGGTAG
1 GCTCTTTGTGAGCTTCCCGATAG
* *
657687 GCTCTTCGTGAGCTTTCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
657710 GCTCTTTGTGAGCTTCCCGATATG
1 GCTCTTTGTGAGCTTCCCGATA-G
*
657734 GTTCTTTGT
1 GCTCTTTGT
657743 AAACTACCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
22 6 0.06
23 64 0.63
24 14 0.14
25 17 0.17
26 1 0.01
ACGTcount: A:0.14, C:0.26, G:0.25, T:0.35
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCCGATAG
Found at i:662582 original size:43 final size:43
Alignment explanation
Indices: 662527--662647 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
662517 AACAAGTACA
* *
662527 ATGCCGACGTCCCAAACGTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAAACGTGGTCTTACATGTAAATCAGATA-CG
** *
662570 ATGCCTCTGTCCCAAACAG-GGTCTTACACG-AAATCAGATACG
1 ATGCCGATGTCCCAAAC-GTGGTCTTACATGTAAATCAGATACG
* * *
662612 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATC
1 ATGCCGATGTCCCAAACGTGGTCTTACATGTAAATC
662648 TTAATTGAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAAACGTGGTCTTACATGTAAATCAGATACG
Found at i:662679 original size:85 final size:86
Alignment explanation
Indices: 662527--662686 Score: 191
Period size: 85 Copynumber: 1.9 Consensus size: 86
662517 AACAAGTACA
* * **
662527 ATGCCGACGTCCCAAACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAGGGT
1 ATGCCGACGTCCCAAACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAAACACAGT
662592 C-TTACACGAAATCAGATACG
66 CTTTACACGAAATCAGATACG
* * * * * *
662612 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTTAAT-T-GAGGCCTGTGTCCCAGACACA
1 ATGCCGACGTCCCAAACATGGTCTTACATGT-AAT-TCAATATCGAGGCCTCTGTCCCAAACACA
662675 GTCTTTACACGA
64 GTCTTTACACGA
662687 TGTCTCAGAC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 46 0.74
86 12 0.19
87 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (86 bp):
ATGCCGACGTCCCAAACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAAACACAGT
CTTTACACGAAATCAGATACG
Found at i:664666 original size:86 final size:86
Alignment explanation
Indices: 664576--664872 Score: 292
Period size: 86 Copynumber: 3.5 Consensus size: 86
664566 CCTCTCAATG
* * *
664576 CACTTAGTC-AAATTTATTTAAGGCGCACACCCTACAAGGGTA-TGACCCGCTAAGTCAATAGTA
1 CACTTAG-CAAAATTTATTTAAGGCACACACCCTACGAGGGTACTG-CCCGCTAAGTCAATAGCA
*
664639 GAATCGTTGCTAGCCTCCTAAGA
64 AAATCGTTGCTAGCCTCCTAAGA
* * ** * *
664662 CACTTAGCAAAATTTATTTAAGGCACACACCTTATGAGGGTACTGCTAGTTAAGTTAATAGCAAA
1 CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGGGTACTGCCCGCTAAGTCAATAGCAAA
* * * *
664727 ATCATTGTTAGCCTCTTAAGG
66 ATCGTTGCTAGCCTCCTAAGA
* * * * * * * *
664748 CACTTAGCTAAGTTTATTTAAAGCACAAACCCTACGAGGGTATTGCCCACTAAGCCAATAACAAA
1 CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGGGTACTGCCCGCTAAGTCAATAGCAAA
* * * *
664813 ATCGCTACTAGCCTTCTAAGC
66 ATCGTTGCTAGCCTCCTAAGA
* * * *
664834 CACTTAGCGAAATTTATTTAAGGCATACATCCTATGAGG
1 CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGG
664873 ATATTACCCT
Statistics
Matches: 167, Mismatches: 42, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
85 1 0.01
86 164 0.98
87 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (86 bp):
CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGGGTACTGCCCGCTAAGTCAATAGCAAA
ATCGTTGCTAGCCTCCTAAGA
Found at i:664782 original size:172 final size:170
Alignment explanation
Indices: 664440--664872 Score: 426
Period size: 172 Copynumber: 2.5 Consensus size: 170
664430 ACACACCTTT
* * * ** * * * *
664440 CAAGGGTATTGTCTGCTAAGTTAATAGTAGAATTTTTGCTAACCTCTTAATGCACTTAACCAAAT
1 CAAGGGTATTGCCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAA-GCACTTAGCAAAAT
* * * * *
664505 TTATTTGAA-GCAC-CCCCTATGAGAGTATTGTTCACTAAGTTAATAGCAGAACCACTGCTAACC
65 TTATTT-AAGGCACACACCTATGAGGGTACTGCTCACTAAGTTAATAGCAAAACCACTGCTAACC
* * * *
664568 TCTCAATGCACTTAGTCAAATTTATTTAAGGCGCACACCCTA
129 TCTCAAGGCACTTAGTCAAATTTATTTAAAGCACAAACCCTA
664610 CAAGGGTA-TGACCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGACACTTAGCAAAA
1 CAAGGGTATTG-CCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAG-CACTTAGCAAAA
* * * * *
664674 TTTATTTAAGGCACACACCTTATGAGGGTACTGCT-AGTTAAGTTAATAGCAAAATCATTGTTAG
64 TTTATTTAAGGCACACACC-TATGAGGGTACTGCTCA-CTAAGTTAATAGCAAAACCACTGCTAA
* *
664738 CCTCTTAAGGCACTTAG-CTAAGTTTATTTAAAGCACAAACCCTA
127 CCTCTCAAGGCACTTAGTC-AAATTTATTTAAAGCACAAACCCTA
* * * ** * * * * *
664782 CGAGGGTATTGCCCACTAAGCCAATAACAAAATCGCTACTAGCCTTCTAAGCCACTTAGCGAAAT
1 CAAGGGTATTGCCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAG-CACTTAGCAAAAT
*
664847 TTATTTAAGGCATACATCCTATGAGG
65 TTATTTAAGGCACACA-CCTATGAGG
664873 ATATTACCCT
Statistics
Matches: 217, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
169 5 0.02
170 61 0.28
171 5 0.02
172 142 0.65
173 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (170 bp):
CAAGGGTATTGCCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGCACTTAGCAAAATT
TATTTAAGGCACACACCTATGAGGGTACTGCTCACTAAGTTAATAGCAAAACCACTGCTAACCTC
TCAAGGCACTTAGTCAAATTTATTTAAAGCACAAACCCTA
Found at i:664915 original size:172 final size:173
Alignment explanation
Indices: 664539--664923 Score: 404
Period size: 172 Copynumber: 2.2 Consensus size: 173
664529 GTATTGTTCA
* * * * * * * *
664539 CTAAGTTAATAGCAGAACCACTGCTAACCTCTCAATGCACTTAGTCAAATTTATTTAAGGCGCAC
1 CTAAGTTAATAGAAGAATCACTGCTAGCCTCTTAAGGCACTTAGTCAAATTTATTTAAAGCACAA
* * ** * * *
664604 ACCCTACAAGGGTATGACCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGACACTTAG
66 ACCCTACAAGGGTATGACCCACTAAGCCAATAACAAAATCGCTACTAGCCTCCTAAGACACTTAG
* * *
664669 CAAAATTTATTTAAGGCACACACCTTATGAGGGTACTGCTAGT
131 CAAAATTTATTTAAGGCACACACCTTATGAGGATACTACTACT
* * *
664712 -TAAGTTAATAGCAA-AATCATTGTTAGCCTCTTAAGGCACTTAG-CTAAGTTTATTTAAAGCAC
1 CTAAGTTAATAG-AAGAATCACTGCTAGCCTCTTAAGGCACTTAGTC-AAATTTATTTAAAGCAC
* * *
664774 AAACCCTACGAGGGTATTG-CCCACTAAGCCAATAACAAAATCGCTACTAGCCTTCTAAGCCACT
64 AAACCCTACAAGGGTA-TGACCCACTAAGCCAATAACAAAATCGCTACTAGCCTCCTAAGACACT
* * * *
664838 TAGCGAAATTTATTTAAGGCATACATCC-TATGAGGATATTAC-CCT
128 TAGCAAAATTTATTTAAGGCACACA-CCTTATGAGGATACTACTACT
** * *
664883 CTAAGTTAATAGAAGAATTGCTGCTCGCCTCTTTAGGCACT
1 CTAAGTTAATAGAAGAATCACTGCTAGCCTCTTAAGGCACT
664924 AAAATTCAAG
Statistics
Matches: 172, Mismatches: 34, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
171 4 0.02
172 163 0.95
173 5 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (173 bp):
CTAAGTTAATAGAAGAATCACTGCTAGCCTCTTAAGGCACTTAGTCAAATTTATTTAAAGCACAA
ACCCTACAAGGGTATGACCCACTAAGCCAATAACAAAATCGCTACTAGCCTCCTAAGACACTTAG
CAAAATTTATTTAAGGCACACACCTTATGAGGATACTACTACT
Found at i:669649 original size:79 final size:78
Alignment explanation
Indices: 669481--669708 Score: 332
Period size: 79 Copynumber: 2.9 Consensus size: 78
669471 GATTTATTCC
*
669481 TGATTCAC-TATGGTAACTTAAGGTGGATAGGATTTAACCTGAAAAGGTAATCCTGATTCGCTAC
1 TGATTC-CTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTAC
*
669545 AGTTACATGATATA
65 AGTTACACGATATA
* * * *
669559 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCAGATTCGTTAC
1 TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
*
669624 GGTTACACGATATA
65 AGTTACACGATATA
* * * *
669638 TGATTCCTTATGATAACTTAAGATGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
669703 GTTACA
66 GTTACA
669709 TGAGATGTGG
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
78 63 0.48
79 69 0.52
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GTTACACGATATA
Found at i:671489 original size:19 final size:19
Alignment explanation
Indices: 671465--671511 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
671455 AGAGAATACC
*
671465 AAAAGAATGAAAAATAGAA
1 AAAAGAAAGAAAAATAGAA
* *
671484 AAAAGAAAGGAAAATATAA
1 AAAAGAAAGAAAAATAGAA
*
671503 AAAAAAAAG
1 AAAAGAAAG
671512 TTGAAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAAGAAAGAAAAATAGAA
Found at i:671505 original size:20 final size:19
Alignment explanation
Indices: 671473--671525 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
671463 CCAAAAGAAT
671473 GAAAAATAGAAAAAAGAAAG
1 GAAAAATAGAAAAAA-AAAG
671493 GAAAATATA-AAAAAAAAAG
1 GAAAA-ATAGAAAAAAAAAG
671512 TTGAAAAAT-GAAAA
1 --GAAAAATAGAAAA
671526 TAAGAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.14
20 17 0.59
21 8 0.28
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (19 bp):
GAAAAATAGAAAAAAAAAG
Found at i:671525 original size:21 final size:20
Alignment explanation
Indices: 671472--671525 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
671462 ACCAAAAGAA
*
671472 TGAAAAATAGAAAAAAGAAAG
1 TGAAAAAT-GAAAAAAAAAAG
671493 -GAAAATAT-AAAAAAAAAAG
1 TGAAAA-ATGAAAAAAAAAAG
671512 TTGAAAAATGAAAA
1 -TGAAAAATGAAAA
671526 TAAGAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 10 0.36
20 7 0.25
21 11 0.39
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (20 bp):
TGAAAAATGAAAAAAAAAAG
Found at i:673509 original size:22 final size:23
Alignment explanation
Indices: 673476--673518 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
673466 AGTATATCTA
*
673476 TTTTTCTATTTTCGTATTTAATT
1 TTTTTCTATTTTCGTACTTAATT
*
673499 TTTTTCT-TTTTGGTACTTAA
1 TTTTTCTATTTTCGTACTTAA
673519 ATATCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTTCTATTTTCGTACTTAATT
Found at i:674979 original size:31 final size:32
Alignment explanation
Indices: 674910--674979 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 32
674900 TTGTAAATTT
* *
674910 TATTTTTTTATATTTTATATATACTTTTCTGA
1 TATTTTTTTATATTTTATATATAATTTTCTCA
* *
674942 -AATTTTTTATATATTTAT-TTTAATTTT-TCA
1 TATTTTTTTATAT-TTTATATATAATTTTCTCA
674972 TATTTTTT
1 TATTTTTT
674980 AATGTGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.06
31 24 0.77
32 5 0.16
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (32 bp):
TATTTTTTTATATTTTATATATAATTTTCTCA
Found at i:676314 original size:3 final size:3
Alignment explanation
Indices: 676306--676332 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
676296 TGGGGTTTTG
676306 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
676333 TCCCTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:687862 original size:30 final size:27
Alignment explanation
Indices: 687786--687854 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
687776 TCAAAACTTG
* *
687786 AAAAATATAAAGACTGAAATTGACCAATT
1 AAAAATAT--AGACTAAAATTGACAAATT
*
687815 AGAAAAGTATAGTCTAAAATTGATCAAATT
1 A-AAAA-TATAGACTAAAATTGA-CAAATT
687845 AAAAATATAG
1 AAAAATATAG
687855 GGACTAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 5 0.15
29 16 0.47
30 10 0.29
31 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (27 bp):
AAAAATATAGACTAAAATTGACAAATT
Found at i:689017 original size:26 final size:24
Alignment explanation
Indices: 688987--689034 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
688977 AATAAAAAAA
*
688987 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
689013 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
689035 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:689054 original size:21 final size:21
Alignment explanation
Indices: 689005--689063 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
688995 ATAATAAATC
*
689005 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
689025 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
689047 AAATAATAGTAAAACAA
1 AAATAATATTAAAACAA
689064 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:689104 original size:15 final size:15
Alignment explanation
Indices: 689086--689146 Score: 52
Period size: 16 Copynumber: 4.0 Consensus size: 15
689076 TACACAGATT
689086 AATAAAATAATAAAA
1 AATAAAATAATAAAA
** *
689101 AATAGTTATATTAAAA
1 AATA-AAATAATAAAA
* *
689117 ATTTAAAATAATTAAA
1 A-ATAAAATAATAAAA
689133 AATAAAATAA-AAAA
1 AATAAAATAATAAAA
689147 TATATATTAA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
14 3 0.09
15 12 0.35
16 17 0.50
17 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AATAAAATAATAAAA
Found at i:693278 original size:42 final size:42
Alignment explanation
Indices: 693215--693341 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
693205 CTTCGTTTTC
** * *
693215 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
693258 T-GATGCCATAGCCCAGCTATGGTCGTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
693299 TCGATGCTATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
693340 TC
1 TC
693342 TCAATGATAC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.14
42 61 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:695932 original size:47 final size:46
Alignment explanation
Indices: 695817--695935 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
695807 NNATGACAGG
* * * * * **
695817 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAAAAA
695863 AAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAAAAAA
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATG-AAAAA
* *
695910 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGAATAAGACCATGGTTGAAAGA
695936 CATTATGGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 37 0.59
47 26 0.41
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.18
Consensus pattern (46 bp):
AAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAAAAA
Found at i:696463 original size:31 final size:31
Alignment explanation
Indices: 696425--696485 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
696415 NNNNNNNNNN
696425 ATCAGGTAGCAGAAGCTACCACTTTTCACTG
1 ATCAGGTAGCAGAAGCTACCACTTTTCACTG
*
696456 ATCAGGTAGCCGAAGCTACCACTTTTCACT
1 ATCAGGTAGCAGAAGCTACCACTTTTCACT
696486 TGTCATTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (31 bp):
ATCAGGTAGCAGAAGCTACCACTTTTCACTG
Found at i:696567 original size:50 final size:51
Alignment explanation
Indices: 696461--696589 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
696451 CACTGATCAG
* * * *
696461 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAATT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
* *
696512 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
696562 GTAGCCGAAGCTATCATTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
696590 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 45 0.64
51 25 0.36
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:697455 original size:77 final size:77
Alignment explanation
Indices: 697328--697480 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
697318 AAGCCCATAA
697328 TTATTTTTATCCAATTTTTTATGATTTTACAAAGTTAGAACAGGGGAACCCGAAATCATTCTGAC
1 TTATTTTTATCCAATTTTTTATGATTTTACAAAGTTAGAACAGGGGAACCCGAAATCATTCTGAC
697393 CTTGCCTCACAT
66 CTTGCCTCACAT
697405 TTATTTTTATCCAATTTTTTATGATTTTACAAAGTTAGAACAGGGGAACCCGAAATCATTCTGAC
1 TTATTTTTATCCAATTTTTTATGATTTTACAAAGTTAGAACAGGGGAACCCGAAATCATTCTGAC
*
697470 CTTGTCTCACA
66 CTTGCCTCACA
697481 AAATTTATCA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (77 bp):
TTATTTTTATCCAATTTTTTATGATTTTACAAAGTTAGAACAGGGGAACCCGAAATCATTCTGAC
CTTGCCTCACAT
Found at i:700691 original size:23 final size:21
Alignment explanation
Indices: 700661--700703 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
700651 ATAGCTTAAT
700661 ATAAATAATATATACAAAAATA
1 ATAAATAATATATA-AAAAATA
*
700683 ATAATATAATATTTAAAAAAT
1 ATAA-ATAATATATAAAAAAT
700704 GCTCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:700765 original size:14 final size:14
Alignment explanation
Indices: 700741--700778 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
700731 ATAATGAAAC
700741 AGAATGAAAATATACA
1 AGAA-GAAAATA-ACA
700757 A-AAGAAAATAACA
1 AGAAGAAAATAACA
700770 AGAAGAAAA
1 AGAAGAAAA
700779 AATTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 14 0.67
15 2 0.10
16 1 0.05
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (14 bp):
AGAAGAAAATAACA
Found at i:706742 original size:17 final size:18
Alignment explanation
Indices: 706720--706754 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
706710 TCATTATATT
706720 AAAAATATATAT-TTTTA
1 AAAAATATATATATTTTA
706737 AAAAATATATATATTTTA
1 AAAAATATATATATTTTA
706755 TATTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATATATATATTTTA
Found at i:707997 original size:11 final size:11
Alignment explanation
Indices: 707981--708005 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
707971 TTTTCCTAAC
707981 AATAATTTAAA
1 AATAATTTAAA
707992 AATAATTTAAA
1 AATAATTTAAA
708003 AAT
1 AAT
708006 TACTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:708024 original size:31 final size:31
Alignment explanation
Indices: 707987--708047 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
707977 TAACAATAAT
*
707987 TTAAAAATAAT-TTAAAAATTACTATAAATTA
1 TTAAAAATAATGTTAAAAATT-CAATAAATTA
* *
708018 TTAAAAATTATGTTGAAAATTCAATAAATT
1 TTAAAAATAATGTTAAAAATTCAATAAATT
708048 TAGCCCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (31 bp):
TTAAAAATAATGTTAAAAATTCAATAAATTA
Found at i:708141 original size:61 final size:61
Alignment explanation
Indices: 708033--708157 Score: 151
Period size: 61 Copynumber: 2.0 Consensus size: 61
708023 AATTATGTTG
** * * * * *
708033 AAAATTCAATAAATTTAGCCCTCAATGTTTACAAATTTTTTAATTTTAATTATAATTCTAA
1 AAAATTCAATAAATTTAGCCCTCAAAATTTACAAAATCTGTAATTTTAATCATAACTCTAA
* ** *
708094 AAAATTCAATAAATTTGGCCCTCAAAATTTACAAAATCTGTCGTTTTAATCCTAACTCTAA
1 AAAATTCAATAAATTTAGCCCTCAAAATTTACAAAATCTGTAATTTTAATCATAACTCTAA
708155 AAA
1 AAA
708158 TTTTAAAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (61 bp):
AAAATTCAATAAATTTAGCCCTCAAAATTTACAAAATCTGTAATTTTAATCATAACTCTAA
Found at i:709604 original size:23 final size:23
Alignment explanation
Indices: 709559--709604 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
709549 ATTTTTTTAA
* * *
709559 AGATTTTTTTATGTAAATTTTTT
1 AGATTTGTTTACGTAAATATTTT
*
709582 AGATTTGTTTACGTATATATTTT
1 AGATTTGTTTACGTAAATATTTT
709605 GAACGTTTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (23 bp):
AGATTTGTTTACGTAAATATTTT
Found at i:709682 original size:20 final size:20
Alignment explanation
Indices: 709645--709688 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
709635 TATTCATAAA
*
709645 AATATTTTCACATAATTTTT
1 AATATTTTCACATAATTTTC
*
709665 AATATTTTTA-ATATATTTTC
1 AATATTTTCACATA-ATTTTC
709685 AATA
1 AATA
709689 ATCTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTTCACATAATTTTC
Found at i:711018 original size:18 final size:17
Alignment explanation
Indices: 710960--711021 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
710950 ATTATTTTAG
*
710960 ATTTTTAAATTTTTTTAT
1 ATTTTTAAA-TTTTTAAT
* *
710978 ATCTTTATATTTTTAAT
1 ATTTTTAAATTTTTAAT
*
710995 ACTTTTAAATTTTATAAT
1 ATTTTTAAATTTT-TAAT
*
711013 TTTTTTAAA
1 ATTTTTAAA
711022 AAATATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 17 0.49
18 18 0.51
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAAATTTTTAAT
Found at i:711178 original size:21 final size:21
Alignment explanation
Indices: 711153--711194 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
711143 ATTATTTGAG
*
711153 TTATTCGA-ATTATAACTCAAA
1 TTATTCGATATT-GAACTCAAA
711174 TTATTCGATATTGAACTCAAA
1 TTATTCGATATTGAACTCAAA
711195 ACTCGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
TTATTCGATATTGAACTCAAA
Found at i:711516 original size:19 final size:19
Alignment explanation
Indices: 711489--711526 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
711479 GATTTCTAGA
711489 AAATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
*
711508 AAATGATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
711527 TGTTTGGATG
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:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:728612 original size:34 final size:34
Alignment explanation
Indices: 728574--728654 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
728564 CGGTCCGCCG
* *
728574 ACACGGCTATGTAACCCCTCTACACGGTCTACCC
1 ACACGGCTGTGTAACCCCTCTACACGGTCTAACC
* ** *
728608 ACACGACTGTGTAAGTCCTTTACACGGTCTAACC
1 ACACGGCTGTGTAACCCCTCTACACGGTCTAACC
728642 ACACGGCTGTGTA
1 ACACGGCTGTGTA
728655 CCTTTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (34 bp):
ACACGGCTGTGTAACCCCTCTACACGGTCTAACC
Found at i:731115 original size:73 final size:73
Alignment explanation
Indices: 731030--731189 Score: 311
Period size: 73 Copynumber: 2.2 Consensus size: 73
731020 TGTGTACACC
731030 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
*
731095 ATGCCACT
66 AGGCCACT
731103 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
731168 AGGCCACT
66 AGGCCACT
731176 ATGTGTACAAGAGA
1 ATGTGTACAAGAGA
731190 ACTTCAATTT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 86 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (73 bp):
ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
AGGCCACT
Found at i:733682 original size:48 final size:48
Alignment explanation
Indices: 733610--733704 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
733600 ACGTAGGAAG
* * *
733610 TAGTCGACAATTTATCTACCCGACT-AGTGGTTCATCCATAATGTATTT
1 TAGTCGACAATTTATCTACACGACTGA-TGGTTCATCCACAATATATTT
* * *
733658 TAGTCGGCAGTTTATCTATACGACTGATGGTTCATCCACAATATATT
1 TAGTCGACAATTTATCTACACGACTGATGGTTCATCCACAATATATT
733705 GGCAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (48 bp):
TAGTCGACAATTTATCTACACGACTGATGGTTCATCCACAATATATTT
Found at i:735475 original size:22 final size:23
Alignment explanation
Indices: 735440--735501 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
735430 CATTAAATCT
**
735440 ATTAAAAAACAATT-TGAAAAAA
1 ATTAAAAATTAATTATGAAAAAA
*
735462 ATTAAAAATTAATTATTAAAAAA
1 ATTAAAAATTAATTATGAAAAAA
*
735485 ACTCAAAAATATAATTA
1 A-TTAAAAAT-TAATTA
735502 AAATCAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 12 0.36
23 8 0.24
24 7 0.21
25 6 0.18
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (23 bp):
ATTAAAAATTAATTATGAAAAAA
Found at i:742118 original size:31 final size:30
Alignment explanation
Indices: 742077--742154 Score: 138
Period size: 31 Copynumber: 2.6 Consensus size: 30
742067 GAAAAGCTCC
*
742077 TGAAGATTATAGCTTTTCAGGGCATTCCAT
1 TGAAGTTTATAGCTTTTCAGGGCATTCCAT
742107 TGAAGTTTTATAGCTTTTCAGGGCATTCCAT
1 TGAAG-TTTATAGCTTTTCAGGGCATTCCAT
742138 TGAAGTTTATAGCTTTT
1 TGAAGTTTATAGCTTTT
742155 AATCCTTGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.37
31 29 0.63
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (30 bp):
TGAAGTTTATAGCTTTTCAGGGCATTCCAT
Found at i:748986 original size:17 final size:16
Alignment explanation
Indices: 748961--749016 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
748951 ATAGCTTAAG
748961 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
748979 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
748994 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
749010 AAAATAA
1 AAAATAA
749017 AATTTCCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 9 0.27
16 15 0.45
17 5 0.15
18 4 0.12
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:753130 original size:29 final size:29
Alignment explanation
Indices: 753074--753131 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
753064 ACATAGACAT
*
753074 GCTTTAGTAAAAAGCACTGACAATGACGC
1 GCTTTAGTAAAAAGCACTGACAAGGACGC
*
753103 GCTTTAGTAAAAAGCACTGACGAGGACGC
1 GCTTTAGTAAAAAGCACTGACAAGGACGC
753132 ATTTTTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (29 bp):
GCTTTAGTAAAAAGCACTGACAAGGACGC
Found at i:755369 original size:15 final size:16
Alignment explanation
Indices: 755349--755378 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
755339 TGGAATTATT
755349 ATTTTAAT-TAATATC
1 ATTTTAATATAATATC
755364 ATTTTAATATAATAT
1 ATTTTAATATAATAT
755379 GTTGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAATATAATATC
Found at i:755850 original size:21 final size:20
Alignment explanation
Indices: 755811--755861 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
755801 AACCATCATT
* *
755811 TTTTAAAAAATTAATAAATA
1 TTTTATAAAATTAAAAAATA
755831 TTTTATAAAATATAAAAAATA
1 TTTTATAAAAT-TAAAAAATA
* *
755852 ATTAATAAAA
1 TTTTATAAAA
755862 ATTACACGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTATAAAATTAAAAAATA
Found at i:756527 original size:54 final size:57
Alignment explanation
Indices: 756454--756734 Score: 270
Period size: 54 Copynumber: 4.8 Consensus size: 57
756444 GGGTTTAGAA
756454 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAG-GA-T-TTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAGTGATTGTTAGG
* * *
756508 AAAAATTAAATTAGAGTATTATGTTTTTAATTGTTTAGGGTTTTA--AAAT-TTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAGTGATTGTTAGG
* * * *
756562 AAAATTTAAATTAAGGTATTATG-TTTTAATTGTTTAGGATTTTAGCGTTTTATTAGGGTTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTA--G--TGATT---GTTAGG
* * * *
756625 AAAAATTATATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTTATGGTTTGATTAGAGGTTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTA--G--TGATT----GTTAGG
*
756690 AAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTA
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTA
756735 TGGTTTAATT
Statistics
Matches: 191, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
53 21 0.11
54 70 0.37
59 2 0.01
63 24 0.13
64 25 0.13
65 49 0.26
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (57 bp):
AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAGTGATTGTTAGG
Found at i:756657 original size:25 final size:25
Alignment explanation
Indices: 756628--756675 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
756618 GGTTAGGAAA
*
756628 AATTATATTAGGGTATTA-GGTTTTT
1 AATTAT-TTAAGGTATTATGGTTTTT
*
756653 AATTATTTAAGGTTTTATGGTTT
1 AATTATTTAAGGTATTATGGTTT
756676 GATTAGAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (25 bp):
AATTATTTAAGGTATTATGGTTTTT
Found at i:756703 original size:65 final size:64
Alignment explanation
Indices: 756557--756740 Score: 257
Period size: 65 Copynumber: 2.9 Consensus size: 64
756547 GTTTTAAAAT
* * * *
756557 TTAGGAAAATTTAAATTAAGGTATTATG-TTTTAATTGTTT-AGGATTTTA-GCGTTTTATTAGG
1 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGG-TTTTATG-GTTTGATTAGG
756619 G
64 G
* *
756620 TTAGGAAAAATTATATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTTATGGTTTGATTAGAGG
1 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTATGGTTTGATTAG-GG
*
756685 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTATGGTTT
1 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTATGGTTT
756741 AATTTTTTTA
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
63 24 0.22
64 25 0.23
65 59 0.55
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (64 bp):
TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTATGGTTTGATTAGGG
Found at i:756889 original size:59 final size:59
Alignment explanation
Indices: 756808--757011 Score: 318
Period size: 59 Copynumber: 3.4 Consensus size: 59
756798 TACAGTCACT
* * *
756808 AATATATTTATACAAAACTATTCAAAAGAAATTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* * *
756868 AATAATTTGTACAAAAATATTCAGAAGAACTTCTATTTTATTAAATGAAAAAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
*
756927 AATAATTTGTACAAAAATATTCAAAAGGACTTCTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* *
756986 AATAATTTTTACAAAAATATTAAAAA
1 AATAATTTGTACAAAAATATTCAAAA
757012 ATAAATCAAG
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 128 0.97
60 4 0.03
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:760003 original size:21 final size:21
Alignment explanation
Indices: 759979--760018 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
759969 TTAATTAATT
* *
759979 TTTATATATTTTTTAAAAATA
1 TTTATATAATTTTAAAAAATA
*
760000 TTTATTTAATTTTAAAAAA
1 TTTATATAATTTTAAAAAA
760019 AAGTCAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATAATTTTAAAAAATA
Found at i:764260 original size:160 final size:160
Alignment explanation
Indices: 763996--764315 Score: 631
Period size: 160 Copynumber: 2.0 Consensus size: 160
763986 TTCCAATAAA
*
763996 AACATTGTATTAGAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCGT
1 AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCGT
764061 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
66 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
764126 GGTTGTTGTGATACTCATGCCGCCATCTTC
131 GGTTGTTGTGATACTCATGCCGCCATCTTC
764156 AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCGT
1 AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCGT
764221 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
66 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
764286 GGTTGTTGTGATACTCATGCCGCCATCTTC
131 GGTTGTTGTGATACTCATGCCGCCATCTTC
764316 TTCAGCGCGA
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 159 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (160 bp):
AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCGT
TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
GGTTGTTGTGATACTCATGCCGCCATCTTC
Found at i:766689 original size:24 final size:24
Alignment explanation
Indices: 766632--766725 Score: 79
Period size: 24 Copynumber: 3.9 Consensus size: 24
766622 AAAAAAACTT
*
766632 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATT-TTATTTACATA
766656 TATCTATATTATATTTTA-TTACATAA
1 TAT-T-TATTATATTTTATTTACAT-A
* *
766682 TATTTATTATATTTT-TTTATATT
1 TATTTATTATATTTTATTTACATA
* *
766705 TTTTTATTATATTAT-TTTACA
1 TATTTATTATATTTTATTTACA
766726 CTTTAATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
23 18 0.31
24 19 0.32
25 7 0.12
26 9 0.15
27 6 0.10
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTATTATATTTTATTTACATA
Found at i:766709 original size:13 final size:14
Alignment explanation
Indices: 766660--766722 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
766650 TACCTATATC
766660 TATATTATATTTTAT
1 TATATTAT-TTTTAT
* * *
766675 TACATAATATTTA-
1 TATATTATTTTTAT
766688 T-TA-TATTTTT-T
1 TATATTATTTTTAT
766699 TATATT-TTTTTAT
1 TATATTATTTTTAT
766712 TATATTATTTT
1 TATATTATTTT
766723 ACACTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
11 6 0.16
12 8 0.22
13 9 0.24
14 8 0.22
15 6 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TATATTATTTTTAT
Found at i:766723 original size:13 final size:13
Alignment explanation
Indices: 766667--766723 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
766657 ATCTATATTA
*
766667 TATTTTATTACAT
1 TATTTTATTATAT
*
766680 AATATTTATTATA-
1 TAT-TTTATTATAT
766693 T-TTTT-TTATAT
1 TATTTTATTATAT
*
766704 TTTTTTATTATAT
1 TATTTTATTATAT
766717 TATTTTA
1 TATTTTA
766724 CACTTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 5 0.14
13 14 0.39
14 8 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTATAT
Found at i:767327 original size:18 final size:18
Alignment explanation
Indices: 767304--767340 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
767294 TGTTGTTATG
767304 TAACTAAGATTTGCTATA
1 TAACTAAGATTTGCTATA
767322 TAACTAAGATTTGCTATA
1 TAACTAAGATTTGCTATA
767340 T
1 T
767341 TTATGTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TAACTAAGATTTGCTATA
Found at i:773612 original size:33 final size:33
Alignment explanation
Indices: 773575--773652 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
773565 TGGCCTTGCC
* *
773575 ATGGTCTTACACTCGTAG-TGCCATAACCCAGTT
1 ATGGTCTTACACTC-AAGATGCCATAACCCAGCT
**
773608 ATGGTCTTATCA-TCAAGATGCCATGGCCCAGCT
1 ATGGTCTTA-CACTCAAGATGCCATAACCCAGCT
773641 ATGGTCTTACAC
1 ATGGTCTTACAC
773653 GTATTCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 4 0.11
33 32 0.84
34 2 0.05
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (33 bp):
ATGGTCTTACACTCAAGATGCCATAACCCAGCT
Found at i:777250 original size:30 final size:30
Alignment explanation
Indices: 777214--777273 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
777204 ATTCTAGAGA
777214 TAGAGAACTTAACCCATGAACCCGTCTCGT
1 TAGAGAACTTAACCCATGAACCCGTCTCGT
*
777244 TAGAGAACTTAACCTATGAACCCGTCTCGT
1 TAGAGAACTTAACCCATGAACCCGTCTCGT
777274 GGGTTCTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (30 bp):
TAGAGAACTTAACCCATGAACCCGTCTCGT
Found at i:781726 original size:22 final size:23
Alignment explanation
Indices: 781701--781744 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
781691 AAATGGTAGC
*
781701 AAAATAATTAAAAAA-CAACAAG
1 AAAATAATAAAAAAAGCAACAAG
781723 AAAATAATAAAAAAAGCAACAA
1 AAAATAATAAAAAAAGCAACAA
781745 TTTTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.75, C:0.09, G:0.05, T:0.11
Consensus pattern (23 bp):
AAAATAATAAAAAAAGCAACAAG
Found at i:782334 original size:72 final size:73
Alignment explanation
Indices: 782247--782410 Score: 258
Period size: 73 Copynumber: 2.3 Consensus size: 73
782237 TCATCTATAC
* *
782247 CCTTCTCCCTCTTTTTCATTCTCATGTCTGAAGCATCTTC-TTATTTTCATTCTTCTTCCCATTT
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTATTTTCATTCTTCTACCCATTT
782311 CCTTCCAA
66 CCTTCCAA
* * *
782319 CCTTCTCTCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTTCATTCTTCTACCTATTT
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTATTTTCATTCTTCTACCCATTT
*
782384 CCTTCTAA
66 CCTTCCAA
*
782392 CATTCTCCCTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
782411 GCTTCTATCC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 38 0.46
73 45 0.54
ACGTcount: A:0.13, C:0.32, G:0.04, T:0.51
Consensus pattern (73 bp):
CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTATTTTCATTCTTCTACCCATTT
CCTTCCAA
Found at i:785405 original size:33 final size:33
Alignment explanation
Indices: 785366--785432 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
785356 AACTCTTGTT
785366 TCCATCATGGATGTTTGAATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAATTTGATCAAATTGG
*
785399 TCCATCATGGATGTTTGGATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAATTTGATCAAATTGG
785432 T
1 T
785433 TGGTTTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (33 bp):
TCCATCATGGATGTTTGAATTTGATCAAATTGG
Found at i:785511 original size:43 final size:43
Alignment explanation
Indices: 785450--785535 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
785440 ATCAGGAATT
785450 GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
1 GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
* *
785493 GGTTGGGTATCAAGTTGGAAAAGGCATCAAATTGGTTGCCTTA
1 GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
785536 TTGATTCGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.30
Consensus pattern (43 bp):
GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
Found at i:785759 original size:178 final size:178
Alignment explanation
Indices: 785460--785815 Score: 712
Period size: 178 Copynumber: 2.0 Consensus size: 178
785450 GGTTGGGTAT
785460 AAAGTTGGAAAAGACATCAAATTGGTTGCCTTAGGTTGGGTATCAAGTTGGAAAAGGCATCAAAT
1 AAAGTTGGAAAAGACATCAAATTGGTTGCCTTAGGTTGGGTATCAAGTTGGAAAAGGCATCAAAT
785525 TGGTTGCCTTATTGATTCGTATAAATTGTTGAATTAGGTTAAAAAACTAGTTAATCGATTTTTAA
66 TGGTTGCCTTATTGATTCGTATAAATTGTTGAATTAGGTTAAAAAACTAGTTAATCGATTTTTAA
785590 TTTTTATAAATATTATTTTTATAATTTTTTAATAATTTATTTAATTAA
131 TTTTTATAAATATTATTTTTATAATTTTTTAATAATTTATTTAATTAA
785638 AAAGTTGGAAAAGACATCAAATTGGTTGCCTTAGGTTGGGTATCAAGTTGGAAAAGGCATCAAAT
1 AAAGTTGGAAAAGACATCAAATTGGTTGCCTTAGGTTGGGTATCAAGTTGGAAAAGGCATCAAAT
785703 TGGTTGCCTTATTGATTCGTATAAATTGTTGAATTAGGTTAAAAAACTAGTTAATCGATTTTTAA
66 TGGTTGCCTTATTGATTCGTATAAATTGTTGAATTAGGTTAAAAAACTAGTTAATCGATTTTTAA
785768 TTTTTATAAATATTATTTTTATAATTTTTTAATAATTTATTTAATTAA
131 TTTTTATAAATATTATTTTTATAATTTTTTAATAATTTATTTAATTAA
785816 TTCATTGATA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (178 bp):
AAAGTTGGAAAAGACATCAAATTGGTTGCCTTAGGTTGGGTATCAAGTTGGAAAAGGCATCAAAT
TGGTTGCCTTATTGATTCGTATAAATTGTTGAATTAGGTTAAAAAACTAGTTAATCGATTTTTAA
TTTTTATAAATATTATTTTTATAATTTTTTAATAATTTATTTAATTAA
Found at i:786141 original size:17 final size:17
Alignment explanation
Indices: 786121--786153 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
786111 ATTAAGAATG
786121 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
786138 TTATTAAATTATATTT
1 TTATTAAATTATATTT
786154 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:786165 original size:16 final size:16
Alignment explanation
Indices: 786144--786178 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
786134 TTTTTTATTA
*
786144 AATTATATTTAATAAT
1 AATTATATTAAATAAT
*
786160 AATTATATTAAANAAT
1 AATTATATTAAATAAT
786176 AAT
1 AAT
786179 AATAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTATATTAAATAAT
Found at i:786443 original size:16 final size:16
Alignment explanation
Indices: 786419--786489 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
786409 TAAATTACTG
786419 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
786435 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
786451 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
786467 ATTACATCCCTATTCA
1 ATTACAGCTCTATTCA
786483 ATTACAG
1 ATTACAG
786490 TGAACTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:787272 original size:7 final size:8
Alignment explanation
Indices: 787251--787277 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
787241 AAGTAGATAT
787251 AATTTTTA
1 AATTTTTA
787259 AATTTTTA
1 AATTTTTA
787267 AATTTTTA
1 AATTTTTA
787275 AAT
1 AAT
787278 GTTAAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
AATTTTTA
Found at i:787395 original size:17 final size:19
Alignment explanation
Indices: 787368--787406 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
787358 TAAATAAAAA
*
787368 TTTACTTTTAA-ATTATTT
1 TTTACTTTTAAGATAATTT
787386 TTTA-TTTTAAGATAATTT
1 TTTACTTTTAAGATAATTT
787404 TTT
1 TTT
787407 TAATGAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTACTTTTAAGATAATTT
Found at i:787998 original size:11 final size:11
Alignment explanation
Indices: 787984--788019 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
787974 TTTCTACGTT
787984 TTTTGTTTTTG
1 TTTTGTTTTTG
787995 TTTTG-TTTTG
1 TTTTGTTTTTG
*
788005 TTTTTTTTTTG
1 TTTTGTTTTTG
788016 TTTT
1 TTTT
788020 TGGTAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:788003 original size:16 final size:16
Alignment explanation
Indices: 787984--788019 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
787974 TTTCTACGTT
787984 TTTTGTTTTTGTTTTG
1 TTTTGTTTTTGTTTTG
*
788000 TTTTGTTTTTTTTTTG
1 TTTTGTTTTTGTTTTG
788016 TTTT
1 TTTT
788020 TGGTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (16 bp):
TTTTGTTTTTGTTTTG
Found at i:788277 original size:15 final size:15
Alignment explanation
Indices: 788257--788292 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
788247 TTTAATTCTT
*
788257 TATAAATTATAAAAA
1 TATAAACTATAAAAA
788272 TATAAACTATAAAAA
1 TATAAACTATAAAAA
*
788287 TTTAAA
1 TATAAA
788293 ATTTCATCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:797742 original size:10 final size:9
Alignment explanation
Indices: 797695--797909 Score: 80
Period size: 10 Copynumber: 22.7 Consensus size: 9
797685 CATTTGACAA
*
797695 AAAAATGAT
1 AAAAATTAT
797704 AAAAA-T-T
1 AAAAATTAT
*
797711 AAAAATCAAT
1 AAAAAT-TAT
**
797721 AAAGGTTAT
1 AAAAATTAT
797730 AAAAATTATT
1 AAAAATTA-T
**
797740 AAATTTTAAT
1 AAAAATT-AT
797750 AATAAAATATAT
1 -A-AAAAT-TAT
797762 AAAATATT-T
1 AAAA-ATTAT
*
797771 AAAACTTACT
1 AAAAATTA-T
*
797781 AAAAATTAG
1 AAAAATTAT
*
797790 AAAAAATAT
1 AAAAATTAT
*
797799 AAAAATCAT
1 AAAAATTAT
*
797808 AAAAAATTGT
1 -AAAAATTAT
*
797818 AAAATTTTAT
1 AAAA-ATTAT
*
797828 AAAAATCAT
1 AAAAATTAT
797837 AAAATATTAT
1 AAAA-ATTAT
797847 -AAAATATAT
1 AAAAAT-TAT
* *
797856 AGAAATGTAG
1 AAAAAT-TAT
*
797866 AAAAAATAT
1 AAAAATTAT
*
797875 -AAAATTTT
1 AAAAATTAT
* *
797883 ATAAAGTCAT
1 A-AAAATTAT
797893 AAGAAAATTAT
1 -A-AAAATTAT
797904 AAAAAT
1 AAAAAT
797910 ATGTAAAGAA
Statistics
Matches: 148, Mismatches: 39, Indels: 38
0.66 0.17 0.17
Matches are distributed among these distances:
7 6 0.04
8 10 0.07
9 56 0.38
10 58 0.39
11 12 0.08
12 5 0.03
13 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:797803 original size:19 final size:19
Alignment explanation
Indices: 797781--797878 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 19
797771 AAAACTTACT
797781 AAAAATTAGAAAAAATAT-
1 AAAAATTAGAAAAAATATA
* * *
797799 AAAAATCATAAAAAATTGTA
1 AAAAATTAGAAAAAA-TATA
** *
797819 AAATTTTA-TAAAAATCATA
1 AAAAATTAGAAAAAAT-ATA
* * *
797838 AAATATTATAAAATATAT-
1 AAAAATTAGAAAAAATATA
*
797856 AGAAATGTAGAAAAAATATA
1 AAAAAT-TAGAAAAAATATA
797876 AAA
1 AAA
797879 TTTTATAAAG
Statistics
Matches: 58, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
18 18 0.31
19 28 0.48
20 12 0.21
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATTAGAAAAAATATA
Found at i:797813 original size:29 final size:29
Alignment explanation
Indices: 797781--797861 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
797771 AAAACTTACT
797781 AAAAATTAG-AAAA-AATATAAAAATCATA
1 AAAAATT-GTAAAATAATATAAAAATCATA
**
797809 AAAAATTGTAAAATTTTATAAAAATCATA
1 AAAAATTGTAAAATAATATAAAAATCATA
* * *
797838 AAATATTATAAAAT-ATATAGAAAT
1 AAAAATTGTAAAATAATATAAAAAT
797862 GTAGAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 19 0.42
29 25 0.56
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAAATTGTAAAATAATATAAAAATCATA
Found at i:797904 original size:29 final size:28
Alignment explanation
Indices: 797804--797907 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 28
797794 AATATAAAAA
* *
797804 TCATAAAAAATTGTAAAATTTTATAAAAA
1 TCATAAAAAATTATAAAATTTTAT-AAAG
* * *
797833 TCATAAAATATTATAAAATATATAGAAATG
1 TCATAAAAAATTATAAAAT-TTTATAAA-G
*
797863 T-AGAAAAAA-TATAAAATTTTATAAAG
1 TCATAAAAAATTATAAAATTTTATAAAG
797889 TCATAAGAAAATTATAAAA
1 TCATAA-AAAATTATAAAA
797908 ATATGTAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
26 2 0.03
27 9 0.15
28 12 0.20
29 33 0.55
30 4 0.07
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
TCATAAAAAATTATAAAATTTTATAAAG
Found at i:797908 original size:38 final size:39
Alignment explanation
Indices: 797751--797908 Score: 113
Period size: 38 Copynumber: 4.2 Consensus size: 39
797741 AATTTTAATA
*
797751 ATAAAATAT-ATAAAATATT-TAAAACT-TACTA-AAAATT
1 ATAAAAAATCATAAAATATTATAAAA-TATA-TAGAAAATT
* * *
797788 AGAAAAAAT-ATAAAA-ATCATAAAA-A-ATTGTAAAATT
1 ATAAAAAATCATAAAATATTATAAAATATATAG-AAAATT
*
797824 TTATAAAAATCATAAAATATTATAAAATATATAG-AAATGT
1 ATA-AAAAATCATAAAATATTATAAAATATATAGAAAAT-T
* * *
797864 AGAAAAAAT-ATAAAATTTTATAAAGTCATA-AGAAAATT
1 ATAAAAAATCATAAAATATTATAAAAT-ATATAGAAAATT
797902 ATAAAAA
1 ATAAAAA
797909 TATGTAAAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
34 1 0.01
35 1 0.01
36 9 0.09
37 24 0.25
38 30 0.31
39 25 0.26
40 3 0.03
41 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (39 bp):
ATAAAAAATCATAAAATATTATAAAATATATAGAAAATT
Found at i:797941 original size:20 final size:21
Alignment explanation
Indices: 797893--797950 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
797883 ATAAAGTCAT
797893 AAGAAAATTATAAAAATATGTA
1 AAGAAAA-TATAAAAATATGTA
797915 AAG-AAATAT-AAAAT-TCGTA
1 AAGAAAATATAAAAATAT-GTA
*
797934 AAGAAAATTACAAAAAT
1 AAGAAAA-TATAAAAAT
797951 TATCGTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.03
19 11 0.35
20 6 0.19
21 5 0.16
22 8 0.26
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (21 bp):
AAGAAAATATAAAAATATGTA
Found at i:800699 original size:243 final size:246
Alignment explanation
Indices: 800207--800813 Score: 868
Period size: 243 Copynumber: 2.5 Consensus size: 246
800197 ATTGTCAGAA
* * * *
800207 ATTGCTCAAGGTAATGATGATCCAAGATGAATGCCCT-TTCGTTTACCACTGCCTGCCATATAGT
1 ATTGCTCAAGG--ATGGTGATCCAAGATGAATGCCCTATTGGCTT-CCATTGCCTGCCATATAGT
* *
800271 GTTGTGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAATTTGTTTTTCTT
63 GTTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACAT-AACTTGTTTTTCTT
* * * * *
800336 TTTTACCAAATACACATCTAGCAATTGCGGCTGTTTATGCTTCTTTCCCTGTAGAACCTGCAACG
127 TTTTACCAAATACAAATCTAGCAATTGCGACTGTTAATGCTTATTTCCCAGTAGAACCTGCAACG
**
800401 TTTAAAATACTGGATTGTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
192 TTTAAAATACTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
* *
800456 ATTGCTCAAGG-T-GTGATCCAAGATGAATGCACTATTGGCTTCAATTGCCTGCCATATAGTGTT
1 ATTGCTCAAGGATGGTGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTGTT
800519 ATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAACTTG-TTTTCTTTTTT
66 ATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAACTTGTTTTTCTTTTTT
*** * * *
800583 ACCTTTTTCAAATTTTGCAATTGCGACTGGTTAAT-CTTATTGT-CCAGCT-GAACCTGCAACGT
131 ACCAAATACAAATCTAGCAATTGCGACT-GTTAATGCTTATT-TCCCAG-TAGAACCTGCAACGT
*
800645 TTAAAATATTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
193 TTAAAATACTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
*
800699 ATTGCTCAAGGTAATGGAGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
1 ATTGCTCAAGG--ATGGTGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
*
800764 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAGATACATA
64 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATA
800814 TCTCTGCAAA
Statistics
Matches: 324, Mismatches: 26, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
243 114 0.35
244 12 0.04
245 85 0.26
246 7 0.02
247 95 0.29
249 11 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (246 bp):
ATTGCTCAAGGATGGTGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTGTT
ATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAACTTGTTTTTCTTTTTT
ACCAAATACAAATCTAGCAATTGCGACTGTTAATGCTTATTTCCCAGTAGAACCTGCAACGTTTA
AAATACTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
Found at i:805589 original size:239 final size:239
Alignment explanation
Indices: 805165--805776 Score: 1107
Period size: 239 Copynumber: 2.6 Consensus size: 239
805155 TATGTAATCT
* * *
805165 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGAAATAGTTACACAAAATTCCATTAT
1 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACACAAAATTCCATTAA
*
805230 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTAGTAATATCTTGAGC
66 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
805295 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
131 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
*
805360 ACCAGTTTTGCATATGTATTATGTAACACCTCTAACCCACATCC
196 ACCAGTTTTGCATACGTATTATGTAACACCTCTAACCCACATCC
*
805404 GTCACCGGAACAGGGTTACAAGATGTTATCGATGTTTACGGAATAATTACACAAAATTCCATTAA
1 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACACAAAATTCCATTAA
805469 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
66 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
*
805534 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGTTCAGAGGATAGTAACA
131 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
* *
805599 ACCGGTTTTGCATACGTATTATGTAACAGCTCTAACCCACATCC
196 ACCAGTTTTGCATACGTATTATGTAACACCTCTAACCCACATCC
*
805643 GTCACCGGAACAGGGTTACAAGATGTTACCGAAGTTTACGGAATAATTACACAAAAATTCCATTA
1 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACAC-AAAATTCCATTA
* *
805708 ATTACTTATATTCACATCAAAACTGTCCACTCGAGTCATACTCACTAAATTATTAATATCTTGAG
65 ATTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAG
805773 CTAC
130 CTAC
805777 GGAACTCAAA
Statistics
Matches: 359, Mismatches: 13, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
239 280 0.78
240 79 0.22
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (239 bp):
GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACACAAAATTCCATTAA
TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
ACCAGTTTTGCATACGTATTATGTAACACCTCTAACCCACATCC
Found at i:806848 original size:35 final size:35
Alignment explanation
Indices: 806731--806889 Score: 159
Period size: 35 Copynumber: 4.7 Consensus size: 35
806721 TCCTCATTGA
* * * *
806731 AATATCATACCTACATTTTACAACTCGGTATGGAA
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * **
806766 AATGCCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
806801 AATA-C---CGT--ATTTCACAACTCAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
806830 AATACCATACCTACATTTCACAATTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
806865 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTACATTTCACAACT
806890 TTGCCATGGA
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
29 21 0.21
30 1 0.01
31 2 0.02
33 2 0.02
34 1 0.01
35 71 0.72
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:806858 original size:64 final size:64
Alignment explanation
Indices: 806745--806870 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 64
806735 TCATACCTAC
* * * * **
806745 ATTTTACAACTCGGTATGGAAAATGCCATACCTACGTTTCTTAACTCAGTATGGATAATACCGT
1 ATTTCACAACTCAGTATGGAAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCGT
** * *
806809 ATTTCACAACTCAGTATGGTTAATACCATACCTACATTTCACAATTCAGTATGGATGATACC
1 ATTTCACAACTCAGTATGGAAAATACCATACCTACATTTCACAACTCAGTATGGATAATACC
806871 ATACCTACGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (64 bp):
ATTTCACAACTCAGTATGGAAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCGT
Found at i:813006 original size:17 final size:18
Alignment explanation
Indices: 812984--813017 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
812974 AGTCAAATTG
812984 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
813001 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
813018 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:815529 original size:10 final size:10
Alignment explanation
Indices: 815514--815559 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
815504 ATAGTAAAAT
815514 ATAAATACAA-
1 ATAAATA-AAG
815524 ATAAATAAAG
1 ATAAATAAAG
815534 ATAAATAAAG
1 ATAAATAAAG
815544 ATAAATGAAA-
1 ATAAAT-AAAG
815554 ATAAAT
1 ATAAAT
815560 CTTAAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.06
10 29 0.85
11 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:817064 original size:18 final size:18
Alignment explanation
Indices: 817041--817104 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
817031 ACATCGTGAT
817041 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
817059 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
817080 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
817098 CTGAAGC
1 CTGAAGC
817105 TCATCAGAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 15 0.42
19 7 0.19
20 6 0.17
21 8 0.22
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:817547 original size:21 final size:22
Alignment explanation
Indices: 817507--817547 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
817497 TTCCAAATAA
* *
817507 AACATTATATCGTTTCTAATTC
1 AACATTATATCGATTATAATTC
817529 AACATT-TATCGATTATAAT
1 AACATTATATCGATTATAAT
817548 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (22 bp):
AACATTATATCGATTATAATTC
Found at i:818345 original size:16 final size:18
Alignment explanation
Indices: 818314--818348 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
818304 CAATTAACCC
818314 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
818332 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
818348 C
1 C
818349 CTAAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:820372 original size:5 final size:5
Alignment explanation
Indices: 820362--820470 Score: 82
Period size: 5 Copynumber: 21.6 Consensus size: 5
820352 TTAATATCCA
* * *
820362 AAAAT AAAAT AATAA- ATAAT AAAAT AAAGT AAAAT AAAAT AAAAAT ACTAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT A-AAAT
* * * *
820414 AAAAT AAAAT GAAAT AAAAT AATAA- ACAAT AAAATT AAGA- AAAGT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAA-T AAAAT AAAAT AAAAT
820463 AAAAT AAA
1 AAAAT AAA
820471 GGTTGGGTTG
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
4 10 0.12
5 54 0.67
6 17 0.21
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:820414 original size:27 final size:28
Alignment explanation
Indices: 820362--820439 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
820352 TTAATATCCA
*
820362 AAAATAAAATAATAAATAATAAAATAAAGT
1 AAAATAAAATAA-AAATAAT-AAATAAAAT
*
820392 AAAATAAAATAAAAATACT-AATAAAAT
1 AAAATAAAATAAAAATAATAAATAAAAT
*
820419 AAAATGAAAT-AAAATAATAAA
1 AAAATAAAATAAAAATAATAAA
820440 CAATAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 7 0.16
27 18 0.42
29 6 0.14
30 12 0.28
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (28 bp):
AAAATAAAATAAAAATAATAAATAAAAT
Found at i:823472 original size:17 final size:18
Alignment explanation
Indices: 823450--823483 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
823440 AGTTAAATTG
823450 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
823467 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
823484 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:824216 original size:10 final size:10
Alignment explanation
Indices: 824197--824246 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
824187 TTAAATACTA
824197 AAAGATAAAT
1 AAAGATAAAT
824207 ACAA-ATAAAT
1 A-AAGATAAAT
824217 AAAGATAAAT
1 AAAGATAAAT
824227 AAAGATAAAT
1 AAAGATAAAT
824237 GAAA-ATAAAT
1 -AAAGATAAAT
824247 CCTAAAATTA
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:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:825861 original size:12 final size:12
Alignment explanation
Indices: 825844--825875 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
825834 CAGCCTGCTC
825844 ATATTAATTTTT
1 ATATTAATTTTT
825856 ATATT-ATTTTT
1 ATATTAATTTTT
825867 ATA-TAATTT
1 ATATTAATTT
825876 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:826135 original size:21 final size:20
Alignment explanation
Indices: 826109--826160 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
826099 CAAAATAGAG
826109 AAAAAATAGCAAGAAAATAAT
1 AAAAAATAGCAA-AAAATAAT
826130 AAAAAATAGCAAAAAA-AAGT
1 AAAAAATAGCAAAAAATAA-T
826150 AAAAAA-AGCAA
1 AAAAAATAGCAA
826161 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.23
20 11 0.37
21 12 0.40
ACGTcount: A:0.75, C:0.06, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAATAGCAAAAAATAAT
Found at i:827515 original size:18 final size:17
Alignment explanation
Indices: 827453--827518 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
827443 CAAATAAAAT
827453 AAATAGATATTTAAA--A
1 AAATAGA-ATTTAAATTA
827469 AAATTA-AATTTAAATTA
1 AAA-TAGAATTTAAATTA
*
827486 AAATAGATTTTATAATT-
1 AAATAGAATTTA-AATTA
827503 AAATAGTAATTTAAAT
1 AAATAG-AATTTAAAT
827519 CAAATTTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.17
16 6 0.14
17 20 0.48
18 9 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
AAATAGAATTTAAATTA
Found at i:827523 original size:17 final size:16
Alignment explanation
Indices: 827449--827523 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 16
827439 TAAACAAATA
827449 AAAT-AAATAGATATTT
1 AAATAAAATAGA-ATTT
827465 AAA-AAAATTA-AATTT
1 AAATAAAA-TAGAATTT
*
827480 AAATTAAAATAGATTTT
1 AAA-TAAAATAGAATTT
*
827497 ATAATTAAATAGTAATTT
1 A-AATAAAATAG-AATTT
*
827515 AAATCAAAT
1 AAATAAAAT
827524 TTAGAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 7 0.15
16 9 0.19
17 25 0.52
18 7 0.15
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (16 bp):
AAATAAAATAGAATTT
Found at i:828521 original size:23 final size:23
Alignment explanation
Indices: 828495--828588 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
828485 AAGTTAGAAG
828495 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
828518 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
828541 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
828564 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
828587 AG
1 AG
828589 ATACCCACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:831546 original size:23 final size:23
Alignment explanation
Indices: 831520--831613 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
831510 AAGTTAGAAG
831520 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
831543 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
831566 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
831589 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
831612 AG
1 AG
831614 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:833748 original size:18 final size:18
Alignment explanation
Indices: 833721--833755 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
833711 ACATGATTAG
*
833721 TAATTGGATTTAATCAAA
1 TAATTAGATTTAATCAAA
833739 TAATTAGATTTAATCAA
1 TAATTAGATTTAATCAA
833756 TAGTATTTAA
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:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (18 bp):
TAATTAGATTTAATCAAA
Found at i:833830 original size:30 final size:30
Alignment explanation
Indices: 833779--833868 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
833769 TTTGGGCCAG
* *
833779 GACTAAAATT-TTAAAATTTGAAAAATACAA
1 GACTAAAATTGATCAAA-TTGAAAAATACAA
* *
833809 GACTAAAATTGATCAAATTGAAAAGTATAA
1 GACTAAAATTGATCAAATTGAAAAATACAA
* *
833839 GAACAATAACATTGATCAAATTAAAAAATA
1 G-AC--TAAAATTGATCAAATTGAAAAATA
833869 TGGACTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
30 22 0.45
31 6 0.12
33 21 0.43
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.27
Consensus pattern (30 bp):
GACTAAAATTGATCAAATTGAAAAATACAA
Done.