Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 39 of 290
Found at i:12821720 original size:45 final size:44
Alignment explanation
Indices: 12821649--12821986 Score: 257
Period size: 44 Copynumber: 7.5 Consensus size: 44
12821639 AGTTATAAGA
* * * *
12821649 TTGCAGTAGAGCAGATTAAAGCTATAAA-CTTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATC-TTATCTCCCTAAAG
* *
12821693 TTTGCAGTGGAGAAGATTGAAGTTATAAGTCTTATCTCCCTAAAG
1 -TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
* * * *
12821738 TTGCAGTGGAGCAGACTGAAGATA-ACGAATTTTATTTCCCTAAAG
1 TTGCAGTGGAGCAGATTGAAGTTATA--AATCTTATCTCCCTAAAG
* * * * *
12821783 TTTCAGTAGAGCAGTTTGAAGTTACAAATCTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
* ** * * *
12821827 TTGCTGTGGAGCAGATTGAAGTTACGAGTTTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
** * * *
12821871 TTGCAGTGGAATAAATTGAAGCTATAAATCTTATTTCCCTAAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
* * * * *
12821915 TTGTAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATT---G----AAGTTATAAATCTTATCTCCCTAAAG
* * *
12821966 TAGTAGTGGAGCAGGTTGAAG
1 TTGCAGTGGAGCAGATTGAAG
12821987 CGATAAACTC
Statistics
Matches: 232, Mismatches: 50, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
43 1 0.00
44 122 0.53
45 70 0.30
46 2 0.01
47 1 0.00
48 1 0.00
51 35 0.15
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (44 bp):
TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
Found at i:12821802 original size:89 final size:88
Alignment explanation
Indices: 12821678--12821917 Score: 302
Period size: 88 Copynumber: 2.7 Consensus size: 88
12821668 AGCTATAAAC
*
12821678 TTTATCTCCCTGAAGTTTGCAGTGGAGAAGATTGAAGTTATAAGTCTTATCTCCCTAAAGTTGCA
1 TTTATCTCCCTGAAGTTT-CAGTGGAGAAGATTGAAGTTATAAATCTTATCTCCCTAAAGTTGCA
12821743 GTGGAGCAGACTGAAGATAACGAAT
65 GTGGAGCAGACTGAAG-TAACGAAT
* * * * * * * *
12821768 TTTATTTCCCTAAAGTTTCAGTAGAGCAGTTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCTG
1 TTTATCTCCCTGAAGTTTCAGTGGAGAAGATTGAAGTTATAAATCTTATCTCCCTAAAGTTGCAG
* * *
12821833 TGGAGCAGATTGAAGTTACGAGT
66 TGGAGCAGACTGAAGTAACGAAT
* * * *
12821856 TTTATCTCCCTGAAGTTGCAGTGGA-ATAAATTGAAGCTATAAATCTTATTTCCCTAAAGTTG
1 TTTATCTCCCTGAAGTTTCAGTGGAGA-AGATTGAAGTTATAAATCTTATCTCCCTAAAGTTG
12821918 TAATGGAACA
Statistics
Matches: 126, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
88 56 0.44
89 54 0.43
90 16 0.13
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (88 bp):
TTTATCTCCCTGAAGTTTCAGTGGAGAAGATTGAAGTTATAAATCTTATCTCCCTAAAGTTGCAG
TGGAGCAGACTGAAGTAACGAAT
Found at i:12823699 original size:18 final size:17
Alignment explanation
Indices: 12823676--12823717 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
12823666 TTCTAGAAAC
12823676 TTTTATATT-TTATTTATT
1 TTTTAT-TTATTA-TTATT
12823694 TTTTATTTATTATTATT
1 TTTTATTTATTATTATT
12823711 TCTTTAT
1 T-TTTAT
12823718 CCTTTTACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTATTATT
Found at i:12823813 original size:29 final size:28
Alignment explanation
Indices: 12823781--12823848 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
12823771 TTATTATCGC
*
12823781 TATTATTTTATTTTTACT-TTTTTTTATAT
1 TATT-TTTTATTTTTACTATTTCTTT-TAT
12823810 TATTTTCGTTA-TTTTACTATTTCTTTTAT
1 TATTTT--TTATTTTTACTATTTCTTTTAT
12823839 TATTTTTTAT
1 TATTTTTTAT
12823849 ATTCTCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
27 3 0.09
28 2 0.06
29 20 0.59
30 9 0.26
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (28 bp):
TATTTTTTATTTTTACTATTTCTTTTAT
Found at i:12823853 original size:20 final size:21
Alignment explanation
Indices: 12823800--12823853 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
12823790 ATTTTTACTT
* *
12823800 TTTTTTATATTATTTTCGTTA
1 TTTTTTATATTCTTTTCATTA
*
12823821 TTTTACTAT-TTCTTTT-ATTA
1 TTTT-TTATATTCTTTTCATTA
12823841 TTTTTTATATTCT
1 TTTTTTATATTCT
12823854 CATTTCATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 3 0.11
20 11 0.41
21 10 0.37
22 3 0.11
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTTATATTCTTTTCATTA
Found at i:12828512 original size:29 final size:27
Alignment explanation
Indices: 12828469--12828523 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
12828459 TCAAATTTGA
* *
12828469 AAAGTAGAGGTACTAAATTATTGAAAATC
1 AAAGTACAGGGACTAAATT-TT-AAAATC
12828498 AAAGTACAGGGACTAAATTTTAAAAT
1 AAAGTACAGGGACTAAATTTTAAAAT
12828524 TGTGAAGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 2 0.08
29 17 0.71
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAGTACAGGGACTAAATTTTAAAATC
Found at i:12835276 original size:22 final size:23
Alignment explanation
Indices: 12835238--12835285 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
12835228 CTTTGAATTT
12835238 TAAACATTAAATCAATA-ATTCAA
1 TAAACATTAAATCAATACATT-AA
12835261 TAAA-ATTAAAAT-AATACATTAA
1 TAAACATT-AAATCAATACATTAA
12835283 TAA
1 TAA
12835286 TATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAACATTAAATCAATACATTAA
Found at i:12836069 original size:46 final size:46
Alignment explanation
Indices: 12835997--12836084 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
12835987 AAATAGTTGA
**
12835997 GTGACCATTTTGTAACATTTCATAGTTGGGTGACCAAAAAAGTTAG
1 GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAGTTAG
* *
12836043 GTGATCATTTTGTAACATTTCATAGTTGAATGACTAAAAAAG
1 GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAG
12836085 AAATTTACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (46 bp):
GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAGTTAG
Found at i:12841104 original size:14 final size:14
Alignment explanation
Indices: 12841068--12841106 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12841058 TTCTTTCACT
* *
12841068 GAAAATGACTTCCG
1 GAAAATGATTTCCA
*
12841082 GAAAATGATTTCTA
1 GAAAATGATTTCCA
12841096 GAAAATGATTT
1 GAAAATGATTT
12841107 ATATTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:12841589 original size:15 final size:15
Alignment explanation
Indices: 12841569--12841620 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
12841559 ACTACAAAAC
12841569 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
12841584 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
12841603 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
12841618 ATT
1 ATT
12841621 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:12841684 original size:16 final size:16
Alignment explanation
Indices: 12841653--12841689 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12841643 ATGTGAATAA
12841653 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
12841669 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
12841685 TATTA
1 TATTA
12841690 AAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:12846535 original size:15 final size:16
Alignment explanation
Indices: 12846517--12846550 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
12846507 AATCCTTTAA
12846517 AAATTATTAAAATC-T
1 AAATTATTAAAATCAT
12846532 AAATTATTAAAATCAT
1 AAATTATTAAAATCAT
12846548 AAA
1 AAA
12846551 ATTACATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTATTAAAATCAT
Found at i:12846654 original size:41 final size:41
Alignment explanation
Indices: 12846609--12846691 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
12846599 AAATTTTTTT
* * *
12846609 TGACTTCACCCCTAGAGGAGGCCAACCAGAACTTTGTGGAA
1 TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
* *
12846650 TGACTTCACCCCTAGAAGAGGCCTACGAAAACTTTGTAGAA
1 TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
12846691 T
1 T
12846692 TTCTCCAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
Found at i:12847851 original size:18 final size:19
Alignment explanation
Indices: 12847828--12847863 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12847818 TCAATAAAAT
12847828 TTAAATATG-TAATTTTTG
1 TTAAATATGATAATTTTTG
*
12847846 TTAAATTTGATAATTTTT
1 TTAAATATGATAATTTTT
12847864 AATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTAAATATGATAATTTTTG
Found at i:12848527 original size:12 final size:12
Alignment explanation
Indices: 12848510--12848547 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
12848500 CCGCCTGTAT
12848510 TAATTTTTTATA
1 TAATTTTTTATA
12848522 TAATTTTTTATA
1 TAATTTTTTATA
*
12848534 TAATTTTATATA
1 TAATTTTTTATA
12848546 TA
1 TA
12848548 TATAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:12859606 original size:46 final size:46
Alignment explanation
Indices: 12859550--12859895 Score: 476
Period size: 46 Copynumber: 7.7 Consensus size: 46
12859540 AGTGTGCTCT
* *
12859550 CTGATTTGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12859596 CTGATATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12859642 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
12859688 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
12859726 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
12859772 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
12859818 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATGCCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
12859864 ATGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAA
12859896 AACACTATGG
Statistics
Matches: 273, Mismatches: 18, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
38 35 0.13
41 2 0.01
43 2 0.01
45 1 0.00
46 233 0.85
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12859793 original size:130 final size:130
Alignment explanation
Indices: 12859560--12859816 Score: 487
Period size: 130 Copynumber: 2.0 Consensus size: 130
12859550 CTGATTTGAA
*
12859560 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAGTGTGTAAGACCATGGTTG
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
*
12859625 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCT
66 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
12859690 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
*
12859755 AAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
66 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
12859817 TGTGACATGA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 124 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.24
Consensus pattern (130 bp):
GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
Found at i:12860213 original size:23 final size:25
Alignment explanation
Indices: 12860168--12860214 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12860158 AATAAATATA
*
12860168 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
12860193 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
12860215 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:12861702 original size:19 final size:19
Alignment explanation
Indices: 12861678--12861719 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12861668 AAAATTCATA
12861678 TTTAAAATAAATTAATATT
1 TTTAAAATAAATTAATATT
* **
12861697 TTTAAAATATATTTTTATT
1 TTTAAAATAAATTAATATT
12861716 TTTA
1 TTTA
12861720 TTTTATTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAAAATAAATTAATATT
Found at i:12865821 original size:30 final size:30
Alignment explanation
Indices: 12865787--12865850 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
12865777 TTGGACTTAT
** * *
12865787 TTGATTCTTTTTAATAGTATAGGGACTAAA
1 TTGATTCCATTTAATAATAGAGGGACTAAA
*
12865817 TTGA-TCCATTTAATAATAGAGGGACTAAT
1 TTGATTCCATTTAATAATAGAGGGACTAAA
12865846 TTGAT
1 TTGAT
12865851 ATAGTCCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (30 bp):
TTGATTCCATTTAATAATAGAGGGACTAAA
Found at i:12865975 original size:8 final size:8
Alignment explanation
Indices: 12865964--12865997 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
12865954 GTTAAAATGT
12865964 AAAAAAAG
1 AAAAAAAG
12865972 AAAAAAAG
1 AAAAAAAG
*
12865980 AAAAGAAG
1 AAAAAAAG
12865988 AAAAAAAG
1 AAAAAAAG
12865996 AA
1 AA
12865998 GTGAGCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:12869983 original size:31 final size:31
Alignment explanation
Indices: 12869948--12870009 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
12869938 AAAAAAACTT
*
12869948 AATAGCTCT-GTGACTTAAATGAAAAGTTTTA
1 AATAG-TCTAGTGACTTAAATGAAAACTTTTA
* *
12869979 AATAGTTTAGTGATTTAAATGAAAACTTTTA
1 AATAGTCTAGTGACTTAAATGAAAACTTTTA
12870010 GTAATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (31 bp):
AATAGTCTAGTGACTTAAATGAAAACTTTTA
Found at i:12872354 original size:22 final size:22
Alignment explanation
Indices: 12872326--12872371 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
12872316 CCTATTCTAA
12872326 AATAATAAAAATAAAAATAAAT
1 AATAATAAAAATAAAAATAAAT
* *
12872348 AATAATAATAATAAAACTAAAT
1 AATAATAAAAATAAAAATAAAT
12872370 AA
1 AA
12872372 AACAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAATAAAAATAAAAATAAAT
Found at i:12873789 original size:14 final size:15
Alignment explanation
Indices: 12873769--12873839 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
12873759 TAATATTAAA
12873769 AAATATTTCAAT-AT
1 AAATATTTCAATAAT
* *
12873783 TAATATTTTAATAAT
1 AAATATTTCAATAAT
* *
12873798 AAATATTTATTACAATTAC
1 AAATA--T-TT-CAATAAT
*
12873817 AAATATATCAATAAT
1 AAATATTTCAATAAT
12873832 AAATATTT
1 AAATATTT
12873840 TGTAGTATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
14 10 0.24
15 18 0.43
16 1 0.02
17 2 0.05
18 2 0.05
19 9 0.21
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTCAATAAT
Found at i:12874778 original size:16 final size:16
Alignment explanation
Indices: 12874764--12874795 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
12874754 ATAATATTTT
12874764 ATAATAAATATATTTAA
1 ATAA-AAATATATTTAA
12874781 ATAAAAATATATTTA
1 ATAAAAATATATTTA
12874796 TGTTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAAAATATATTTAA
Found at i:12882234 original size:21 final size:19
Alignment explanation
Indices: 12882208--12882247 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
12882198 GCTACTGTGC
12882208 CCCTTACTCTTCTATCTCCCT
1 CCCTTAC-CTT-TATCTCCCT
*
12882229 CCCTTACCTTTTTCTCCCT
1 CCCTTACCTTTATCTCCCT
12882248 TTATCTGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.07, C:0.47, G:0.00, T:0.45
Consensus pattern (19 bp):
CCCTTACCTTTATCTCCCT
Found at i:12892590 original size:45 final size:46
Alignment explanation
Indices: 12892503--12892597 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 46
12892493 TTTCACGTAC
*
12892503 CTATTAGCTTCCATAATAACAACTTTTAACTTTTAACATTTTTATG
1 CTATTAGCTTCCATAATAACAACTTTTAACTTTTAACATTTTTACG
* *
12892549 CTATTAGCTTCTATAATAACAA-TTTTAACTTTTAACTTTTTTACG
1 CTATTAGCTTCCATAATAACAACTTTTAACTTTTAACATTTTTACG
12892594 CTAT
1 CTAT
12892598 GTTAATTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 25 0.54
46 21 0.46
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (46 bp):
CTATTAGCTTCCATAATAACAACTTTTAACTTTTAACATTTTTACG
Found at i:12912447 original size:197 final size:186
Alignment explanation
Indices: 12912050--12912454 Score: 474
Period size: 188 Copynumber: 2.1 Consensus size: 186
12912040 AGAAACTATG
* * * * *
12912050 AAAACAGTCACTATTTCGATCTTTTCTTTCCACTTTCTCAAATCCAGTGGAGAGAAAATAAAATC
1 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAG-GCAGAGAAAAGAAAATA
* *
12912115 ATCAACTAAATACCGATCTAAAAAGTTCAAAACACAGATAAAATCCATAGCCACAACACAAAATT
65 ATCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAAATT
* ** * * *
12912180 CAAAAACCTCGGTAAGAAGTGATACTATATAGATATATATACATGCAAGCAGGATTA
130 CAAAAAACTCAATAACAAGTGATACTATATAGATATATATACATACAAGAAGGATTA
*
12912237 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCGAATCCA-GCA-AGTAAATAGAAAAT
1 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAGGCAGAG-AAA-AGAAAAT
* * * *
12912300 AAAATCAACCAAATACCGATC-AAAAGAGTTCAAAACGCAAATAAATTCCGTAGCCACAACACCA
64 --AATCAACCAAATACCGATCTAAAA-AGTTCAAAACACAAATAAAATCCATAGCCACAACACAA
*
12912364 AATTCGAAAGCAAAAAAACTCAATAACAAGTGATACTATATCGATATATATATACATACAAGAAG
126 AATT------C-AAAAAACTCAATAACAAGTGATACTATAT--AGATATATATACATACAAGAAG
12912429 GATTA
182 GATTA
*
12912434 AAAACAGTCGCTATTTTGATA
1 AAAACAGTCGCTATTTCGATA
12912455 GAAAAAAAAT
Statistics
Matches: 184, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
184 2 0.01
185 5 0.03
186 6 0.03
187 47 0.26
188 54 0.29
194 1 0.01
195 25 0.14
197 44 0.24
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (186 bp):
AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAGGCAGAGAAAAGAAAATAA
TCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAAATTC
AAAAAACTCAATAACAAGTGATACTATATAGATATATATACATACAAGAAGGATTA
Found at i:12915982 original size:111 final size:112
Alignment explanation
Indices: 12915815--12916040 Score: 445
Period size: 111 Copynumber: 2.0 Consensus size: 112
12915805 GTGCAATCTT
12915815 AGAGTGTCACATACAGTGTTTTGATAATTAGACTGATAGTTGAACTGATGAGACCACTGGTTCTC
1 AGAGTGTCACATACAGTGTTTTGATAATTAGACTGATAGTTGAACTGATGAGACCACTGGTTCTC
12915880 GATTCAATCAGTTTGATCGGTTCAACTGTTA-ACAAAAAATAATTAA
66 GATTCAATCAGTTTGATCGGTTCAACTGTTAGACAAAAAATAATTAA
12915926 AGAGTGTCACATACAGTGTTTTGATAATTAGACTGATAGTTGAACTGATGAGACCACTGGTTCTC
1 AGAGTGTCACATACAGTGTTTTGATAATTAGACTGATAGTTGAACTGATGAGACCACTGGTTCTC
12915991 GATTCAATCAGTTTGATCGGTTCAACTGTTAGACAAAAAATAATTAA
66 GATTCAATCAGTTTGATCGGTTCAACTGTTAGACAAAAAATAATTAA
12916038 AGA
1 AGA
12916041 AATAATTAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 96 0.84
112 18 0.16
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (112 bp):
AGAGTGTCACATACAGTGTTTTGATAATTAGACTGATAGTTGAACTGATGAGACCACTGGTTCTC
GATTCAATCAGTTTGATCGGTTCAACTGTTAGACAAAAAATAATTAA
Found at i:12923300 original size:31 final size:31
Alignment explanation
Indices: 12923243--12923302 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
12923233 TACCAGTGAT
** *
12923243 TTAAATAAAAAATTTTGAATAGTTTAATGGC
1 TTAAATAAAAAATTTCAAATAATTTAATGGC
12923274 TTAAAT-AAAAATTATCAAATAATTTAATG
1 TTAAATAAAAAATT-TCAAATAATTTAATG
12923303 ACTGTTTCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAAATTTCAAATAATTTAATGGC
Found at i:12936508 original size:31 final size:31
Alignment explanation
Indices: 12936473--12936548 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
12936463 AAATTGATGA
12936473 AAGAAATTAATTAATACAATACCAATACTTT
1 AAGAAATTAATTAATACAATACCAATACTTT
*
12936504 AAGAAATTAATTAATACAATATCAATACTTT
1 AAGAAATTAATTAATACAATACCAATACTTT
*
12936535 TA-AAATTCAATTAA
1 AAGAAATT-AATTAA
12936549 AAAGAACTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 5 0.12
31 37 0.88
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (31 bp):
AAGAAATTAATTAATACAATACCAATACTTT
Found at i:12938754 original size:19 final size:19
Alignment explanation
Indices: 12938731--12938772 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
12938721 TAAAATTTGA
*
12938731 ATTTTTTAAAA-TATATTG
1 ATTTTTGAAAATTATATTG
*
12938749 ATTTTTGAAAATTATTTTG
1 ATTTTTGAAAATTATATTG
12938768 ATTTT
1 ATTTT
12938773 GATTTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTTTGAAAATTATATTG
Found at i:12939137 original size:16 final size:16
Alignment explanation
Indices: 12939113--12939144 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12939103 ATACTAATAC
*
12939113 CAACTGATTTAAGACT
1 CAACCGATTTAAGACT
12939129 CAACCGATTTAAGACT
1 CAACCGATTTAAGACT
12939145 TAATCGACTC
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:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (16 bp):
CAACCGATTTAAGACT
Found at i:12939346 original size:20 final size:20
Alignment explanation
Indices: 12939323--12939370 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
12939313 TTTATATTTA
**
12939323 TTATAAATTATAAA-TATTAT
1 TTATAAATT-TAAATTAAAAT
*
12939343 TTATATATTTAAATTAAAAT
1 TTATAAATTTAAATTAAAAT
12939363 TTATAAAT
1 TTATAAAT
12939371 AATTTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATAAATTTAAATTAAAAT
Found at i:12939353 original size:31 final size:30
Alignment explanation
Indices: 12939315--12939393 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 30
12939305 GTCCCCTATT
12939315 TATATTT-ATTATAAA-TTATAAATATTATTTA
1 TATATTTAATTA-AAATTTATAAATA--ATTTA
12939346 TATATTTAAATTAAAATTTATAAATAATTTA
1 TATATTT-AATTAAAATTTATAAATAATTTA
*
12939377 TATTAATTAATTAAAAT
1 TA-TATTTAATTAAAAT
12939394 GCATTTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
31 23 0.53
32 7 0.16
33 13 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATATTTAATTAAAATTTATAAATAATTTA
Found at i:12942249 original size:31 final size:31
Alignment explanation
Indices: 12942214--12942273 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
12942204 AAAAAAACTT
*
12942214 AATAACCTAGTAACTTAAATAAAAACTTTCC
1 AATAACCTAATAACTTAAATAAAAACTTTCC
** *
12942245 AATAATTTAATAACTTAAATGAAAACTTT
1 AATAACCTAATAACTTAAATAAAAACTTT
12942274 TAAATAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (31 bp):
AATAACCTAATAACTTAAATAAAAACTTTCC
Found at i:12942280 original size:31 final size:31
Alignment explanation
Indices: 12942224--12942290 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
12942214 AATAACCTAG
* *
12942224 TAACTTAAATAAAAACTTTCCAATAATTTAA
1 TAACTTAAATAAAAACTTTCAAATAATTCAA
* *
12942255 TAACTTAAATGAAAACTTTTAAATAATTCAA
1 TAACTTAAATAAAAACTTTCAAATAATTCAA
12942286 TAACT
1 TAACT
12942291 ATTTCTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTCAAATAATTCAA
Found at i:12945895 original size:26 final size:26
Alignment explanation
Indices: 12945843--12945895 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
12945833 TTATATTTAA
* * *
12945843 AATTTTAAAATATTTTATGCATCATT
1 AATTTTAAAATAATTTATGAATAATT
12945869 AATTTTACAAATAATTTAT-AATAATT
1 AATTTTA-AAATAATTTATGAATAATT
12945895 A
1 A
12945896 TTTATACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTTAAAATAATTTATGAATAATT
Found at i:12955153 original size:14 final size:14
Alignment explanation
Indices: 12955134--12955164 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12955124 TAAACCATAG
12955134 TAATAAAAATAATA
1 TAATAAAAATAATA
*
12955148 TAATAATAATAATA
1 TAATAAAAATAATA
12955162 TAA
1 TAA
12955165 AAAGTGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATAAAAATAATA
Found at i:12956331 original size:21 final size:20
Alignment explanation
Indices: 12956301--12956339 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
12956291 AGTAGGTTTA
12956301 GTTATTGGGTTTTGGGGTGG
1 GTTATTGGGTTTTGGGGTGG
12956321 GTTAGTTGGGTTTTGGGGT
1 GTTA-TTGGGTTTTGGGGT
12956340 TTAATGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.46
Consensus pattern (20 bp):
GTTATTGGGTTTTGGGGTGG
Found at i:12961585 original size:12 final size:13
Alignment explanation
Indices: 12961561--12961589 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12961551 TATTAAAATT
12961561 TTTATATTATATA
1 TTTATATTATATA
12961574 TTTATA-TATATA
1 TTTATATTATATA
12961586 TTTA
1 TTTA
12961590 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATATTATATA
Found at i:12969281 original size:58 final size:60
Alignment explanation
Indices: 12969152--12969281 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
12969142 TTGGGATATG
* *
12969152 AACTTGGCAATTATTTTTACATTGGGGTCTGAACTTATTTGTGATCCAAGTTAATCCTTA
1 AACTTGGTAATTATTTTTACATTGGGGTCTGAAATTATTTGTGATCCAAGTTAATCCTTA
* * * * *
12969212 AACTTGATAATTATTTTTATATTGGGGT-TTAAATTTTTTTTG-TCCAAGTTAA-CCTCTA
1 AACTTGGTAATTATTTTTACATTGGGGTCTGAAATTATTTGTGATCCAAGTTAATCCT-TA
12969270 AACTTGGTAATT
1 AACTTGGTAATT
12969282 GTTACCATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 3 0.05
58 23 0.38
59 10 0.16
60 25 0.41
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (60 bp):
AACTTGGTAATTATTTTTACATTGGGGTCTGAAATTATTTGTGATCCAAGTTAATCCTTA
Found at i:12969478 original size:31 final size:31
Alignment explanation
Indices: 12969443--12969509 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
12969433 CAACAAAAAT
* **
12969443 TTCAAGCCCCAATAAGGGAACAATTGCTTAG
1 TTCAAGCCCCAATAAGAGAACAATTGCCAAG
* * *
12969474 TTCAAGCTCTAATATGAGAACAATTGCCAAG
1 TTCAAGCCCCAATAAGAGAACAATTGCCAAG
12969505 TTCAA
1 TTCAA
12969510 TGATTAACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (31 bp):
TTCAAGCCCCAATAAGAGAACAATTGCCAAG
Found at i:12973490 original size:18 final size:18
Alignment explanation
Indices: 12973458--12973500 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12973448 ATTGCTTTAA
**
12973458 AAAATATTATGAAAATTT
1 AAAATATTATGAAAAACT
12973476 AAAATATT-TGAAAAAACT
1 AAAATATTATG-AAAAACT
12973494 AAAATAT
1 AAAATAT
12973501 AATTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATATTATGAAAAACT
Found at i:12974543 original size:20 final size:20
Alignment explanation
Indices: 12974520--12974571 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 20
12974510 AAATACAAAT
12974520 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
12974540 TAAAAT-CATGAAATTCAGGA
1 TAAAATAC-TGAAATTCAGGA
12974560 TAAGAATACTGA
1 TAA-AATACTGA
12974572 TGTGGCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 21 0.72
21 6 0.21
22 1 0.03
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:12986179 original size:24 final size:24
Alignment explanation
Indices: 12986145--12986190 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
12986135 ATTACACATA
*
12986145 CCTGTATATTCTTCTTATCATCTT
1 CCTGTACATTCTTCTTATCATCTT
12986169 CCTGTACATTCTTCTTATCATC
1 CCTGTACATTCTTCTTATCATC
12986191 ATTTCCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.04, T:0.50
Consensus pattern (24 bp):
CCTGTACATTCTTCTTATCATCTT
Found at i:12987566 original size:16 final size:16
Alignment explanation
Indices: 12987547--12987595 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
12987537 ATCAGAATTG
12987547 GGAAAGTTAAGAAAAA
1 GGAAAGTTAAGAAAAA
***
12987563 GG-AAG--AAGAATTG
1 GGAAAGTTAAGAAAAA
12987576 GGAAAGTTAAGAAAAA
1 GGAAAGTTAAGAAAAA
12987592 GGAA
1 GGAA
12987596 GAAATAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 7 0.29
14 3 0.12
15 3 0.12
16 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.12
Consensus pattern (16 bp):
GGAAAGTTAAGAAAAA
Found at i:12987572 original size:29 final size:29
Alignment explanation
Indices: 12987540--12987598 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12987530 TATGCTGATC
12987540 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
1 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
12987569 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
1 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
12987598 A
1 A
12987599 ATAAAATAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.14
Consensus pattern (29 bp):
AGAATTGGGAAAGTTAAGAAAAAGGAAGA
Found at i:12989967 original size:15 final size:15
Alignment explanation
Indices: 12989947--12989976 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12989937 TACTTACATT
12989947 TTTCATCACTGACAA
1 TTTCATCACTGACAA
12989962 TTTCATCACTGACAA
1 TTTCATCACTGACAA
12989977 AATCTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
TTTCATCACTGACAA
Found at i:12995304 original size:18 final size:18
Alignment explanation
Indices: 12995281--12995315 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12995271 ATTTTTAATT
12995281 ATTTT-AAATATATTTATG
1 ATTTTAAAAT-TATTTATG
12995299 ATTTTAAAATTATTTAT
1 ATTTTAAAATTATTTAT
12995316 TCATTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTAAAATTATTTATG
Found at i:12995371 original size:20 final size:20
Alignment explanation
Indices: 12995346--12995386 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12995336 ATAGTGACAT
* *
12995346 ATTAAAACAAAGTATAAATG
1 ATTAAAACAAAATACAAATG
12995366 ATTAAAACAAAATACAAATG
1 ATTAAAACAAAATACAAATG
12995386 A
1 A
12995387 ACTGTCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (20 bp):
ATTAAAACAAAATACAAATG
Found at i:12996730 original size:21 final size:20
Alignment explanation
Indices: 12996683--12996724 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
12996673 TGAGGACAAG
12996683 AATAAAATAAAAATGAAATA
1 AATAAAATAAAAATGAAATA
*
12996703 AATAAAATAATTAATGAAATA
1 AATAAAATAA-AAATGAAATA
12996724 A
1 A
12996725 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AATAAAATAAAAATGAAATA
Found at i:12996849 original size:3 final size:3
Alignment explanation
Indices: 12996828--12996971 Score: 60
Period size: 3 Copynumber: 48.7 Consensus size: 3
12996818 AGATAACAAA
* * * * * * * *
12996828 AAT AAT GAT AAT AAA AAT AAT ACT -AT AAT AAT AAT GAC AGT AGT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * * *
12996875 AA- AAT AAT AAT AAT AGT GGT AAT AAT AAT AAT AAT TAT TAT TAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
12996922 TAT AAA AAT AGT AGT AAC AGT AAT AAT AAT AAT ACT GAA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
12996967 AAT AA
1 AAT AA
12996972 ATATAAAACT
Statistics
Matches: 107, Mismatches: 30, Indels: 8
0.74 0.21 0.06
Matches are distributed among these distances:
2 5 0.05
3 101 0.94
4 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12996855 original size:14 final size:15
Alignment explanation
Indices: 12996810--12996848 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
12996800 GAAATGGTTT
*
12996810 TAAAAA-AAAGATAA
1 TAAAAATAATGATAA
*
12996824 CAAAAATAATGATAA
1 TAAAAATAATGATAA
12996839 TAAAAATAAT
1 TAAAAATAAT
12996849 ACTATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (15 bp):
TAAAAATAATGATAA
Found at i:13001636 original size:17 final size:17
Alignment explanation
Indices: 13001614--13001647 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13001604 CTTCAGTGGT
13001614 CCACCTTTTACTTGGCA
1 CCACCTTTTACTTGGCA
13001631 CCACCTTTTACTTGGCA
1 CCACCTTTTACTTGGCA
13001648 TAGGGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.12, T:0.35
Consensus pattern (17 bp):
CCACCTTTTACTTGGCA
Found at i:13003481 original size:18 final size:18
Alignment explanation
Indices: 13003218--13003482 Score: 178
Period size: 18 Copynumber: 14.3 Consensus size: 18
13003208 GAATAATTAT
* *
13003218 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
13003236 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
13003254 TTATTCAATAATAACCAA
1 TTATTCAGTAACAATCAA
* *
13003272 TTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
13003290 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
13003316 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
13003334 -TATTCAGTAACTATTAA
1 TTATTCAGTAACAATCAA
* *
13003351 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* *
13003369 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
**
13003388 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
*
13003406 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
*
13003425 -TATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* * *
13003442 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
13003460 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
13003478 TTATT
1 TTATT
13003483 TTATACCTTT
Statistics
Matches: 191, Mismatches: 40, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
17 19 0.10
18 139 0.73
19 17 0.09
20 1 0.01
24 1 0.01
25 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:13003718 original size:45 final size:45
Alignment explanation
Indices: 13003650--13003793 Score: 207
Period size: 45 Copynumber: 3.2 Consensus size: 45
13003640 ATCCAGAACA
* * * *
13003650 GTAACAGTAACAGTATTCAACACACAAAGTACTGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
13003695 GTAACAATAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
* * *
13003740 GTAATAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACA
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
13003785 GTAGCAGTA
1 GTAACAGTA
13003794 GCGGTAACAG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 88 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
Found at i:13004598 original size:21 final size:21
Alignment explanation
Indices: 13004573--13004633 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
13004563 TTTAATTTCA
13004573 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
13004594 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
13004615 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
13004634 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:13009720 original size:16 final size:16
Alignment explanation
Indices: 13009701--13009735 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13009691 GAAATAAAAA
13009701 AATAAGACTAAATTCC
1 AATAAGACTAAATTCC
13009717 AATAAGACTAAATTCC
1 AATAAGACTAAATTCC
13009733 AAT
1 AAT
13009736 TGTACGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.26
Consensus pattern (16 bp):
AATAAGACTAAATTCC
Found at i:13012656 original size:42 final size:42
Alignment explanation
Indices: 13012597--13012727 Score: 201
Period size: 42 Copynumber: 3.1 Consensus size: 42
13012587 TCCTCCAAAG
13012597 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
* * * * *
13012639 CCACCGAAGCCACCGGTGGTGAAGCCACCGTATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
13012681 CCACCTAAGCCTCCGGTGGTGAAACCC-CCATATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGT-AAACCCACCATATCACCCTAAA
13012723 CCACC
1 CCACC
13012728 AAAACATCCA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 74 0.95
43 4 0.05
ACGTcount: A:0.29, C:0.41, G:0.15, T:0.15
Consensus pattern (42 bp):
CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
Found at i:13012832 original size:69 final size:69
Alignment explanation
Indices: 13012759--13012961 Score: 298
Period size: 69 Copynumber: 2.9 Consensus size: 69
13012749 CAAGCCACCT
* ** * * *
13012759 GTTGTGAAGCCTCCATATATACCCAAGCCACCTATTGTAAAGCCTCCACCGTATACACCCAAACC
1 GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
13012824 CCCG
66 CCCG
13012828 GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
1 GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
*
13012893 GCCG
66 CCCG
* *
13012897 GTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAA
1 GTTGTGAAGCCT---CCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAA
13012962 GCCACCTTAC
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
69 74 0.61
72 48 0.39
ACGTcount: A:0.28, C:0.37, G:0.16, T:0.19
Consensus pattern (69 bp):
GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
CCCG
Found at i:13012838 original size:36 final size:36
Alignment explanation
Indices: 13012747--13012967 Score: 256
Period size: 36 Copynumber: 6.3 Consensus size: 36
13012737 ACCGCAGCAT
* * *
13012747 CCCAAGCCACCTGTTGTGAAGCCT---CCATATATA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* ** * *
13012780 CCCAAGCCACCTATTGTAAAGCCTCCACCGTATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* *
13012816 CCCAAACCCCCGGTTGTGAAGCCT---CCATATATA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
*
13012849 CCCAAACCACCGGTTGTGAAGCCTCCGCCATATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* *
13012885 CCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* *
13012921 CCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
*
13012957 CCCAAGCCACC
1 CCCAAACCACC
13012968 TTACTATCCA
Statistics
Matches: 166, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
33 52 0.31
36 114 0.69
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (36 bp):
CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
Found at i:13013077 original size:168 final size:168
Alignment explanation
Indices: 13012886--13013400 Score: 987
Period size: 168 Copynumber: 3.1 Consensus size: 168
13012876 CCATATACAC
13012886 CCAA-ACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
13012950 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
66 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
13013015 AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
131 AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
13013053 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
*
13013118 ATATGCACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
66 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
13013183 AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
131 AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
13013221 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
*
13013286 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAATACTGCCTCCAA
66 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
* *
13013351 AGCCACCAGTCCACCCCAGTCCACCAATAGTGAACCCA
131 AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
13013389 CCAACACCGCCG
1 CCAACACCGCCG
13013401 ATTCTACCAC
Statistics
Matches: 342, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
167 4 0.01
168 338 0.99
ACGTcount: A:0.28, C:0.42, G:0.15, T:0.16
Consensus pattern (168 bp):
CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
Found at i:13013105 original size:36 final size:37
Alignment explanation
Indices: 13013053--13013129 Score: 138
Period size: 36 Copynumber: 2.1 Consensus size: 37
13013043 AGTGAATCCA
13013053 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
*
13013090 CCAA-ACCGCCGGTTGTGAAGCCTCCGCCATATGCAC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
13013126 CCAA
1 CCAA
13013130 GCCACCTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 35 0.90
37 4 0.10
ACGTcount: A:0.25, C:0.40, G:0.19, T:0.16
Consensus pattern (37 bp):
CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
Found at i:13013273 original size:36 final size:37
Alignment explanation
Indices: 13013221--13013297 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
13013211 AGTGAATCCA
13013221 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
13013258 CCAA-ACCGCCGGTTGTGAAGCCTCCGCCATATACAC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
13013294 CCAA
1 CCAA
13013298 GCCACCTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.26, C:0.40, G:0.18, T:0.16
Consensus pattern (37 bp):
CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
Found at i:13013437 original size:24 final size:24
Alignment explanation
Indices: 13013410--13013468 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
13013400 GATTCTACCA
*
13013410 CCACCATCACCACCTATTGTGAAG
1 CCACCATCACCACCTATCGTGAAG
* * *
13013434 CCACCAACGCCTCCTATCGTGAAG
1 CCACCATCACCACCTATCGTGAAG
*
13013458 CCACCTTCACC
1 CCACCATCACC
13013469 GGAAACACCG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.44, G:0.12, T:0.19
Consensus pattern (24 bp):
CCACCATCACCACCTATCGTGAAG
Found at i:13014479 original size:17 final size:18
Alignment explanation
Indices: 13014441--13014479 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13014431 AAATTTTTTC
* *
13014441 TTTTCTTTTATAATTTAG
1 TTTTCTTTTATAATATAA
13014459 TTTT-TTTTATAATATAA
1 TTTTCTTTTATAATATAA
13014476 TTTT
1 TTTT
13014480 AAACGCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTCTTTTATAATATAA
Found at i:13014779 original size:46 final size:46
Alignment explanation
Indices: 13014712--13014799 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
13014702 ATAACTAAAA
*
13014712 CATAAATTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
1 CATAAACTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
*
13014758 CATAAACTTATTGATATTTTACTGATTTTGGGTGTAGTTTAC
1 CATAAACTTATTGATATTTTACTGATCTTGGGTGTAGTTTAC
13014800 TCTTTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (46 bp):
CATAAACTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
Found at i:13018979 original size:3 final size:3
Alignment explanation
Indices: 13018973--13019001 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13018963 TTTTTTTAAA
13018973 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13019002 GGTTAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13019715 original size:19 final size:20
Alignment explanation
Indices: 13019682--13019720 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13019672 TTTAATTTGG
*
13019682 TAATTTTTATCTT-AATTTT
1 TAATTTTTATATTAAATTTT
*
13019701 TAATTTTTTTATTAAATTTT
1 TAATTTTTATATTAAATTTT
13019721 CTTAATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
TAATTTTTATATTAAATTTT
Found at i:13020389 original size:22 final size:22
Alignment explanation
Indices: 13020360--13020411 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 22
13020350 ATAATCAAAT
13020360 TATT-AATAAAATATTATAAAAA
1 TATTAAATAAAAT-TTATAAAAA
13020382 T-TTAAAT-AAATTTATAAAAA
1 TATTAAATAAAATTTATAAAAA
13020402 TAATTAAATA
1 T-ATTAAATA
13020412 CATTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 10 0.38
21 6 0.23
22 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTAAATAAAATTTATAAAAA
Found at i:13020425 original size:22 final size:22
Alignment explanation
Indices: 13020368--13020416 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13020358 ATTATTAATA
13020368 AAATATTATAAAAAT--TTAAAT
1 AAAT-TTATAAAAATAATTAAAT
13020389 AAATTTATAAAAATAATTAAAT
1 AAATTTATAAAAATAATTAAAT
*
13020411 ACATTT
1 AAATTT
13020417 TAATTAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 4 0.16
22 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATTTATAAAAATAATTAAAT
Found at i:13023003 original size:31 final size:31
Alignment explanation
Indices: 13022931--13023005 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
13022921 TGATTTAGTG
* * *
13022931 TAATTGTATATATAAAATTTTCATTGTGGTT
1 TAATTGTATACATAAAATTTTAATTGTGATT
* * *
13022962 CAAATGTATACATAAAATTTTAATTTTGATT
1 TAATTGTATACATAAAATTTTAATTGTGATT
*
13022993 TAATTATATACAT
1 TAATTGTATACAT
13023006 TCAAATAAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (31 bp):
TAATTGTATACATAAAATTTTAATTGTGATT
Found at i:13024408 original size:21 final size:21
Alignment explanation
Indices: 13024388--13024428 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13024378 TACTTGAAAT
13024388 TTTAAAAAAT-ATATTTAAAA
1 TTTAAAAAATAATATTTAAAA
**
13024408 TTTACCAAATAATATTTAAAA
1 TTTAAAAAATAATATTTAAAA
13024429 ATCATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTAAAAAATAATATTTAAAA
Found at i:13033475 original size:18 final size:17
Alignment explanation
Indices: 13033442--13033475 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13033432 TCCAAATTTG
*
13033442 AGCTCGATTAAGCTCTT
1 AGCTCGATAAAGCTCTT
13033459 AGCTCGATAAGAGCTCT
1 AGCTCGATAA-AGCTCT
13033476 AAGCATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (17 bp):
AGCTCGATAAAGCTCTT
Found at i:13041353 original size:28 final size:31
Alignment explanation
Indices: 13041321--13041397 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 31
13041311 CTCAAATTTG
*
13041321 AAAAGTAGAGGGA-T-T-AATTCTTGAAAAT
1 AAAAGTAGAGGGACTATAAATTCTTAAAAAT
*
13041349 AAAAGTATAGGGACTAACTAAATTCTTAAAAAT
1 AAAAGTAGAGGGACT-A-TAAATTCTTAAAAAT
* *
13041382 AAAAGTATAAGGACTA
1 AAAAGTAGAGGGACTA
13041398 AATTCCAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.29
29 1 0.02
32 2 0.05
33 26 0.63
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (31 bp):
AAAAGTAGAGGGACTATAAATTCTTAAAAAT
Found at i:13041373 original size:33 final size:33
Alignment explanation
Indices: 13041336--13041398 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
13041326 TAGAGGGATT
* *
13041336 AATTCTTGAAAATAAAAGTATAGGGACTAACTA
1 AATTCTTAAAAATAAAAGTATAAGGACTAACTA
13041369 AATTCTTAAAAATAAAAGTATAAGGACTAA
1 AATTCTTAAAAATAAAAGTATAAGGACTAA
13041399 ATTCCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (33 bp):
AATTCTTAAAAATAAAAGTATAAGGACTAACTA
Found at i:13041588 original size:13 final size:13
Alignment explanation
Indices: 13041570--13041595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13041560 ATAATATGTG
13041570 AAGATTATTATTT
1 AAGATTATTATTT
13041583 AAGATTATTATTT
1 AAGATTATTATTT
13041596 TTTAAAATTT
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAGATTATTATTT
Found at i:13041594 original size:16 final size:17
Alignment explanation
Indices: 13041573--13041612 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13041563 ATATGTGAAG
*
13041573 ATTATTATTTAAGA-TT
1 ATTATTATTTAAAATTT
*
13041589 ATTATTTTTTAAAATTT
1 ATTATTATTTAAAATTT
13041606 ATTATTA
1 ATTATTA
13041613 AAATAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
ATTATTATTTAAAATTT
Found at i:13043725 original size:49 final size:49
Alignment explanation
Indices: 13043661--13043754 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
13043651 ATCCTGTTAC
*
13043661 ATGGCTCTCATGAGCTT-C-TTGATATTGACTCGCATGAGCTTCCCGATTG
1 ATGGCTCTCATGAGCTTCCGTT-ATA-TGACTCACATGAGCTTCCCGATTG
*
13043710 ATGGCTCTTCA-GAGCTTCCGTTATATGGCTCACATGAGCTTCCCG
1 ATGGCTC-TCATGAGCTTCCGTTATATGACTCACATGAGCTTCCCG
13043755 TTATATGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
49 31 0.77
50 7 0.17
51 2 0.05
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (49 bp):
ATGGCTCTCATGAGCTTCCGTTATATGACTCACATGAGCTTCCCGATTG
Found at i:13043761 original size:25 final size:25
Alignment explanation
Indices: 13043656--13043779 Score: 103
Period size: 25 Copynumber: 5.0 Consensus size: 25
13043646 TAAGCATCCT
* * **
13043656 GTTACATGGCTCTCATGAGCTTCTT
1 GTTATATGGCTCACATGAGCTTCCC
* * *
13043681 GATAT-TGACTCGCATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
* *
13043705 GATT-GATGGCTCTTCA-GAGCTT-CC
1 G-TTATATGGCTC-ACATGAGCTTCCC
13043729 GTTATATGGCTCACATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
* *
13043754 GTTATATGGCTCAAAAGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
13043779 G
1 G
13043780 ATTACATGCT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
23 4 0.05
24 32 0.41
25 41 0.52
26 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCCC
Found at i:13047450 original size:19 final size:18
Alignment explanation
Indices: 13047422--13047457 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13047412 GATCAAGTAA
*
13047422 AATTAAATTAATCTAATC
1 AATTAAATTAATATAATC
13047440 AATTAAAATTAATATAAT
1 AATT-AAATTAATATAAT
13047458 ATTTTTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTAAATTAATATAATC
Found at i:13047936 original size:31 final size:29
Alignment explanation
Indices: 13047901--13047958 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
13047891 AATAGTATTT
*
13047901 TATTAATTTAATATTGAAGTGATTATCTTAA
1 TATTAAATTAA-ATTGAA-TGATTATCTTAA
* *
13047932 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTGAATGATTATCTT
13047959 GTAGACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTGAATGATTATCTTAA
Found at i:13049726 original size:22 final size:22
Alignment explanation
Indices: 13049698--13049752 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
13049688 CTCACAGAGG
13049698 ATGTCAGTACTTGGGACTGAGA
1 ATGTCAGTACTTGGGACTGAGA
13049720 ATGTCAGTACTTGGGACTGAGA
1 ATGTCAGTACTTGGGACTGAGA
13049742 ATGTCAGTACT
1 ATGTCAGTACT
13049753 GGAGGTAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGTCAGTACTTGGGACTGAGA
Found at i:13051483 original size:23 final size:22
Alignment explanation
Indices: 13051432--13051484 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
13051422 TTTTAATCAA
13051432 ATATTTAATAATTTATATATAT
1 ATATTTAATAATTTATATATAT
13051454 ATTTATTTAA-AATTTATATATAGT
1 A--TATTTAATAATTTATATATA-T
13051478 CATATTT
1 -ATATTT
13051485 GTTATGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 1 0.04
23 17 0.63
24 8 0.30
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTTAATAATTTATATATAT
Found at i:13052250 original size:22 final size:24
Alignment explanation
Indices: 13052198--13052251 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
13052188 TTTTGGATGA
*
13052198 TTAAATTATTGTTATTAAATATCCT
1 TTAAATTATTGTAATT-AATATCCT
* *
13052223 TGAAATTATTG-AATT-ATATCTT
1 TTAAATTATTGTAATTAATATCCT
13052245 TTAAATT
1 TTAAATT
13052252 GAATTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTAAATTATTGTAATTAATATCCT
Found at i:13057157 original size:14 final size:15
Alignment explanation
Indices: 13057138--13057199 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 15
13057128 GCCACCCCAT
13057138 TTTATTTTA-TTTTA
1 TTTATTTTATTTTTA
13057152 TTTATTATTATTTTTA
1 TTTATT-TTATTTTTA
13057168 TATTA-TTTATTTTTA
1 T-TTATTTTATTTTTA
**
13057183 TTT-TACTATTTTTA
1 TTTATTTTATTTTTA
13057197 TTT
1 TTT
13057200 TACTTATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 19 0.45
15 13 0.31
16 7 0.17
17 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:13057168 original size:21 final size:21
Alignment explanation
Indices: 13057142--13057215 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
13057132 CCCCATTTTA
13057142 TTTTATTTTATTTATTATTAT
1 TTTTATTTTATTTATTATTAT
* *
13057163 TTTTATATTATTTATTTTTAT
1 TTTTATTTTATTTATTATTAT
13057184 TTTACTATTTTTATTTTACTTATTAT
1 TTT--TA-TTTTA-TTTA-TTATTAT
*
13057210 TCTTAT
1 TTTTAT
13057216 ACTTAGATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 22 0.51
23 3 0.07
24 6 0.14
25 4 0.09
26 8 0.19
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTATTTTATTTATTATTAT
Found at i:13057266 original size:21 final size:23
Alignment explanation
Indices: 13057233--13057275 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
13057223 TTTTTAAATT
13057233 TATTTTAATTTTTCTACTATTTC
1 TATTTTAATTTTTCTACTATTTC
*
13057256 TATTTT-ATTTTT-TAGTATTT
1 TATTTTAATTTTTCTACTATTT
13057276 ATTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (23 bp):
TATTTTAATTTTTCTACTATTTC
Found at i:13058396 original size:23 final size:23
Alignment explanation
Indices: 13058370--13058415 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13058360 TCTATTATTG
13058370 TCAAAAAAATTGTTAAAAAGAAA
1 TCAAAAAAATTGTTAAAAAGAAA
13058393 TCAAAAAAATTGTTAAAAAGAAA
1 TCAAAAAAATTGTTAAAAAGAAA
13058416 AAGAAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (23 bp):
TCAAAAAAATTGTTAAAAAGAAA
Found at i:13064757 original size:23 final size:23
Alignment explanation
Indices: 13064731--13064775 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13064721 TCCAATTTTA
13064731 TTATTATTA-TTATTTATTTTATT
1 TTATT-TTAGTTATTTATTTTATT
* *
13064754 TTATTTTAGTTCTTTTTTTTAT
1 TTATTTTAGTTATTTATTTTAT
13064776 AAATTTCGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTATTTTAGTTATTTATTTTATT
Found at i:13065509 original size:6 final size:6
Alignment explanation
Indices: 13065498--13065522 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13065488 TCGAAGCCGG
13065498 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
13065523 CGGTACACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:13065615 original size:12 final size:12
Alignment explanation
Indices: 13065598--13065622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13065588 AGTGTCGAAT
13065598 CGGTAACAGTAA
1 CGGTAACAGTAA
13065610 CGGTAACAGTAA
1 CGGTAACAGTAA
13065622 C
1 C
13065623 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:13066700 original size:5 final size:5
Alignment explanation
Indices: 13066690--13066756 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
13066680 TTTCTTTTAT
13066690 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
13066740 ATATA ATATA ATATA AT
1 ATATA ATATA ATATA AT
13066757 TATTAAATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:13066779 original size:17 final size:18
Alignment explanation
Indices: 13066690--13066771 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 18
13066680 TTTCTTTTAT
13066690 ATATAATATAA-TA-T-A
1 ATATAATATAATTATTAA
*
13066705 ATATAATATAATATAATATA
1 ATATAATATAAT-TATTA-A
*
13066725 ATATAATATAATATAATATA
1 ATATAATATAAT-TATTA-A
13066745 ATATAATATAATTATTAA
1 ATATAATATAATTATTAA
13066763 ATA-AATATA
1 ATATAATATA
13066772 TATTTTAATC
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
15 11 0.18
17 8 0.13
18 5 0.08
19 4 0.07
20 33 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAATATAATTATTAA
Found at i:13069807 original size:10 final size:10
Alignment explanation
Indices: 13069780--13069809 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13069770 AAGCTTATGG
13069780 TTTTAGCTCA
1 TTTTAGCTCA
13069790 TTTT-GCTCA
1 TTTTAGCTCA
13069799 TTTTAGCTCA
1 TTTTAGCTCA
13069809 T
1 T
13069810 ATTTTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (10 bp):
TTTTAGCTCA
Found at i:13073397 original size:19 final size:20
Alignment explanation
Indices: 13073362--13073427 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
13073352 TATAATACAC
13073362 ATAAAATATAATATTTAATA
1 ATAAAATATAATATTTAATA
*
13073382 ATAAAA-ATAGTATTTAAT-
1 ATAAAATATAATATTTAATA
*
13073400 ATACAATATATAATATATAATA
1 ATA-AA-ATATAATATTTAATA
*
13073422 ACAAAA
1 ATAAAA
13073428 ATTTATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 8 0.21
21 12 0.32
22 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAAATATAATATTTAATA
Found at i:13084305 original size:20 final size:20
Alignment explanation
Indices: 13084187--13084305 Score: 50
Period size: 20 Copynumber: 5.8 Consensus size: 20
13084177 ATATATGTAA
*
13084187 AAATAATATATAATATGT-AT
1 AAATAATA-ATAATATATAAT
13084207 AAATAATTAATAAATATATAAT
1 AAATAA-TAAT-AATATATAAT
*
13084229 ACAAGTAA-AAAAATATAGATAAT
1 A-AA-TAATAATAATAT--ATAAT
* *
13084252 AATGTAA-AATATTA-ATAAT
1 AA-ATAATAATAATATATAAT
*** *
13084271 TTGTGAAAAAT-ATATATAAT
1 AAAT-AATAATAATATATAAT
13084291 AAATAATAATAATAT
1 AAATAATAATAATAT
13084306 GAAATAATTT
Statistics
Matches: 75, Mismatches: 12, Indels: 24
0.68 0.11 0.22
Matches are distributed among these distances:
18 2 0.03
19 14 0.19
20 21 0.28
21 13 0.17
22 14 0.19
23 8 0.11
24 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATAATAATAATATATAAT
Found at i:13084312 original size:43 final size:39
Alignment explanation
Indices: 13084237--13084315 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
13084227 ATACAAGTAA
* *
13084237 AAAAATATAGATAATAATGTAAAATATTAATAATTTGTG
1 AAAAATATAGATAATAATATAAAATATAAATAATTTGTG
*
13084276 AAAAATATATATAATAAATAATAATAATATGAAATAATTT
1 AAAAATATAGATAAT-AAT-ATAA-AATAT-AAATAATTT
13084316 ATTGTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.42
40 3 0.09
41 3 0.09
42 5 0.15
43 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (39 bp):
AAAAATATAGATAATAATATAAAATATAAATAATTTGTG
Found at i:13086014 original size:12 final size:12
Alignment explanation
Indices: 13085997--13086030 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13085987 CGGCCCACTC
13085997 ATATTAATTTTT
1 ATATTAATTTTT
*
13086009 ATATTATTTTTT
1 ATATTAATTTTT
13086021 ATA-TAATTTT
1 ATATTAATTTT
13086031 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:13086271 original size:22 final size:22
Alignment explanation
Indices: 13086246--13086288 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13086236 TATCCAAACA
13086246 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
13086268 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
13086289 AATAGGGAGA
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:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:13086292 original size:11 final size:11
Alignment explanation
Indices: 13086253--13086293 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13086243 ACAATAACAA
13086253 CAAAATAGTAG
1 CAAAATAGTAG
* *
13086264 CAACATAATAG
1 CAAAATAGTAG
*
13086275 TAAAATAGTAG
1 CAAAATAGTAG
13086286 CAAAATAG
1 CAAAATAG
13086294 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:13093535 original size:26 final size:26
Alignment explanation
Indices: 13093506--13093558 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13093496 AACCCAACAG
13093506 CTTGGTCTTTCCCTAACCATCCTATT
1 CTTGGTCTTTCCCTAACCATCCTATT
13093532 CTTGGTCTTTCCCTAACCATCCTATT
1 CTTGGTCTTTCCCTAACCATCCTATT
13093558 C
1 C
13093559 CTACCATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.36, G:0.08, T:0.42
Consensus pattern (26 bp):
CTTGGTCTTTCCCTAACCATCCTATT
Found at i:13102461 original size:3 final size:3
Alignment explanation
Indices: 13102453--13102480 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13102443 ACGATGAATT
13102453 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13102481 TGGCTCAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13105245 original size:20 final size:20
Alignment explanation
Indices: 13105222--13105283 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
13105212 GAAAAAAATC
13105222 AAATCCA-AATTAAAATACTG
1 AAATCCAGAA-TAAAATACTG
* *
13105242 AAATTCAGAATAAAATCCTG
1 AAATCCAGAATAAAATACTG
* *
13105262 AAATTCAGGATAAGAATACTG
1 AAATCCAGAATAA-AATACTG
13105283 A
1 A
13105284 TGTGGCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 27 0.75
21 9 0.25
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (20 bp):
AAATCCAGAATAAAATACTG
Found at i:13105452 original size:20 final size:21
Alignment explanation
Indices: 13105415--13105455 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13105405 GATACAAATT
13105415 AAAAAAATTCAATAAATTTTA
1 AAAAAAATTCAATAAATTTTA
*
13105436 AAAAAAAGTT-AATAATTTTT
1 AAAAAAA-TTCAATAAATTTT
13105456 TTTAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAAATTCAATAAATTTTA
Found at i:13105642 original size:117 final size:117
Alignment explanation
Indices: 13105515--13105745 Score: 417
Period size: 117 Copynumber: 2.0 Consensus size: 117
13105505 ACTATTACAT
* * *
13105515 CAGTGCCATTGAAGATTGTGGACTAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
1 CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
13105580 GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGACAC
66 GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGACAC
13105632 CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
1 CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
* *
13105697 GTAAATGTTAGGGGCTAATTTTGCCACTATGCCAACCCAACTTTAGGGA
66 GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGA
13105746 TATGGGTGCT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (117 bp):
CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGACAC
Found at i:13106348 original size:42 final size:41
Alignment explanation
Indices: 13106275--13106364 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 41
13106265 AGCACTTAGC
* *
13106275 AGCTTTCCATTCCAATGGCGGCGAACCCTCCAAACACCGTT
1 AGCTTTCCATTCCAATGACGCCGAACCCTCCAAACACCGTT
* **
13106316 AGCTTTCCATTTTCAATGACGCCGAGGCCTCCAAACACCGTT
1 AGCTTTCCA-TTCCAATGACGCCGAACCCTCCAAACACCGTT
*
13106358 CGCTTTC
1 AGCTTTC
13106365 GATTGGATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 9 0.21
42 33 0.79
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.26
Consensus pattern (41 bp):
AGCTTTCCATTCCAATGACGCCGAACCCTCCAAACACCGTT
Found at i:13108378 original size:20 final size:20
Alignment explanation
Indices: 13108353--13108402 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
13108343 TGGCTTAAAA
13108353 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
13108373 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
13108390 GTGGTAGTGGATT
1 TTGGTAGTGGATT
13108403 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:13113015 original size:20 final size:20
Alignment explanation
Indices: 13112990--13113039 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
13112980 TGGCTTAAAA
13112990 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
13113010 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
13113027 GTGGTAGTGGATT
1 TTGGTAGTGGATT
13113040 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:13115385 original size:25 final size:24
Alignment explanation
Indices: 13115334--13115380 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
13115324 TTGAAGCTTA
13115334 TGTTGAAAAGTCAAATTAAAAGGGG
1 TGTTGAAAAGTCAAA-TAAAAGGGG
13115359 TGTTGAAAAGTCAAA-AAAAGGG
1 TGTTGAAAAGTCAAATAAAAGGG
13115381 AGGTGCAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.47, C:0.04, G:0.28, T:0.21
Consensus pattern (24 bp):
TGTTGAAAAGTCAAATAAAAGGGG
Found at i:13118207 original size:21 final size:21
Alignment explanation
Indices: 13118181--13118221 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13118171 AGACGAGCAA
* *
13118181 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
13118202 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
13118222 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:13123590 original size:10 final size:9
Alignment explanation
Indices: 13123575--13123599 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13123565 TAATGCAAAG
13123575 AAAAAAATA
1 AAAAAAATA
13123584 AAAAAAATA
1 AAAAAAATA
13123593 AAAAAAA
1 AAAAAAA
13123600 GGCTAGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:13125951 original size:132 final size:132
Alignment explanation
Indices: 13125708--13125952 Score: 330
Period size: 132 Copynumber: 1.9 Consensus size: 132
13125698 GGAAGATACA
* ** *
13125708 AGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACGGGAGATTGCAACCCAACACGATAG
1 AGTGAAATTCCGAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAACACGATAG
* * ** * *
13125773 GGCACTATTCCCCAAATTGCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAATG
66 GGCACGATTCCCCAAATTACCAAACATCGAACATCGCCTCCATTTTAAAGAGTTTTTAGAAAATG
13125838 TG
131 TG
* * * *
13125840 AGTGAAATTCTGAAGAGATATTCGACTATTTTGAGCAAACAAGAAATTGCAACCCAGCAC-AGTA
1 AGTGAAATTCCGAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAACACGA-TA
* *
13125904 GGGCACGATTCCCCAAATTACCAAACATCGAATATCGCCTCCGTTTTAA
65 GGGCACGATTCCCCAAATTACCAAACATCGAACATCGCCTCCATTTTAA
13125953 GGAATTATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
131 1 0.01
132 95 0.99
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (132 bp):
AGTGAAATTCCGAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAACACGATAG
GGCACGATTCCCCAAATTACCAAACATCGAACATCGCCTCCATTTTAAAGAGTTTTTAGAAAATG
TG
Found at i:13139829 original size:11 final size:11
Alignment explanation
Indices: 13139779--13139829 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
13139769 GGGTTTTGGC
13139779 AGCAAAAC-AA
1 AGCAAAACAAA
13139789 AGCAAAACAAA
1 AGCAAAACAAA
*
13139800 ACCAAGAACAAA
1 AGCAA-AACAAA
*
13139812 ATG-AAAACAGA
1 A-GCAAAACAAA
13139823 AGCAAAA
1 AGCAAAA
13139830 ACGAAAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 9 0.26
11 16 0.47
12 9 0.26
ACGTcount: A:0.69, C:0.18, G:0.12, T:0.02
Consensus pattern (11 bp):
AGCAAAACAAA
Found at i:13141238 original size:17 final size:17
Alignment explanation
Indices: 13141216--13141257 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
13141206 CTCAAGTCAG
* *
13141216 ATATAATATACTTTTAA
1 ATATAATACACATTTAA
13141233 ATATAA-ACACATTTAA
1 ATATAATACACATTTAA
13141249 ATA-AATACA
1 ATATAATACA
13141258 TATAATAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATACACATTTAA
Found at i:13143048 original size:43 final size:45
Alignment explanation
Indices: 13142987--13143122 Score: 179
Period size: 45 Copynumber: 3.1 Consensus size: 45
13142977 ACATGTAATT
* * *
13142987 ATATATC-ATGCCACTGTCCCAGACAGGGTCTTACACG-AATCAC
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACAC
* * * *
13143030 ATATA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCAA
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACAC
*
13143074 ATATATCGATGTCAATGTCCCAGACATGGTCTTACACGAAAACAC
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACAC
13143119 ATAT
1 ATAT
13143123 CGGAATCCTA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 32 0.40
44 9 0.11
45 38 0.47
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (45 bp):
ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACAC
Found at i:13143097 original size:45 final size:44
Alignment explanation
Indices: 13142987--13143113 Score: 177
Period size: 43 Copynumber: 2.9 Consensus size: 44
13142977 ACATGTAATT
* * * *
13142987 ATATATC-ATGCCACTGTCCCAGACAGGGTCTTACACGAATCAC
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCAA
*
13143030 ATATA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCAA
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AACCAA
*
13143074 ATATATCGATGTCAATGTCCCAGACATGGTCTTACACGAA
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
13143114 AACACATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.01
43 32 0.43
44 11 0.15
45 30 0.41
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCAA
Found at i:13146449 original size:21 final size:21
Alignment explanation
Indices: 13146424--13146487 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
13146414 CATTCAATTT
13146424 TCTATAATTCAAATGACCTAA
1 TCTATAATTCAAATGACCTAA
13146445 TCTATAATGTC--AT-A---AA
1 TCTATAAT-TCAAATGACCTAA
13146461 --TATAATTCAAATGACCTAA
1 TCTATAATTCAAATGACCTAA
13146480 TCTATAAT
1 TCTATAAT
13146488 GTCATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 18
0.65 0.00 0.35
Matches are distributed among these distances:
13 2 0.06
14 6 0.18
15 2 0.06
16 3 0.09
19 3 0.09
20 2 0.06
21 14 0.41
22 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TCTATAATTCAAATGACCTAA
Found at i:13146472 original size:35 final size:35
Alignment explanation
Indices: 13146426--13146497 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
13146416 TTCAATTTTC
13146426 TATAATTCAAATGACCTAATCTATAATGTCATAAA
1 TATAATTCAAATGACCTAATCTATAATGTCATAAA
13146461 TATAATTCAAATGACCTAATCTATAATGTCATAAA
1 TATAATTCAAATGACCTAATCTATAATGTCATAAA
13146496 TA
1 TA
13146498 AGAAGATTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.35
Consensus pattern (35 bp):
TATAATTCAAATGACCTAATCTATAATGTCATAAA
Done.