Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 322 of 410
Found at i:100135422 original size:2 final size:2
Alignment explanation
Indices: 100135415--100135442 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
100135405 TTTGGGATAA
100135415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100135443 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100138901 original size:31 final size:31
Alignment explanation
Indices: 100138863--100138924 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
100138853 TTTTTTGGAG
*
100138863 AATGAAAGGTCAAGATTCATTGGTTTATGGT
1 AATGAAAGGTCAAGAGTCATTGGTTTATGGT
100138894 AATGAAAGGTCAAGAGTCATTGGTTTATGGT
1 AATGAAAGGTCAAGAGTCATTGGTTTATGGT
100138925 TTTTTATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.34
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTTATGGT
Found at i:100143257 original size:31 final size:31
Alignment explanation
Indices: 100143219--100143279 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
100143209 TTTTTAAGAG
* *
100143219 AATGAAAGGTTAAGAGTCATTGGTTTATGGC
1 AATGAAAGGTCAAGAGTCATTGGTTAATGGC
100143250 AATGAAAGGTCAAGAGTCATTGGTTAATGG
1 AATGAAAGGTCAAGAGTCATTGGTTAATGG
100143280 TTTTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTAATGGC
Found at i:100148838 original size:19 final size:19
Alignment explanation
Indices: 100148801--100148839 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
100148791 AAAGCCGAAT
**
100148801 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
100148820 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
100148839 T
1 T
100148840 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:100148963 original size:16 final size:16
Alignment explanation
Indices: 100148944--100149000 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
100148934 CATCTTGTTA
100148944 GCCGAATTTCTTTGTG
1 GCCGAATTTCTTTGTG
* * *
100148960 GCCGAATCCTCTATTTTA
1 GCCGAAT-TTCT-TTGTG
*
100148978 GCCAAATTTCTTTGTG
1 GCCGAATTTCTTTGTG
*
100148994 GCTGAAT
1 GCCGAAT
100149001 CCTCTATTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 15 0.50
17 6 0.20
18 9 0.30
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (16 bp):
GCCGAATTTCTTTGTG
Found at i:100148986 original size:34 final size:34
Alignment explanation
Indices: 100148941--100149008 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
100148931 TCACATCTTG
*
100148941 TTAGCCGAATTTCTTTGTGGCCGAATCCTCTATT
1 TTAGCCAAATTTCTTTGTGGCCGAATCCTCTATT
*
100148975 TTAGCCAAATTTCTTTGTGGCTGAATCCTCTATT
1 TTAGCCAAATTTCTTTGTGGCCGAATCCTCTATT
100149009 CTTTCCTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (34 bp):
TTAGCCAAATTTCTTTGTGGCCGAATCCTCTATT
Found at i:100153012 original size:19 final size:19
Alignment explanation
Indices: 100152988--100153026 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
100152978 AAAGCCGAAT
*
100152988 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTTATCTC
*
100153007 TCTTTCTTTTTCTTATCTC
1 TCTTTCTTCTTCTTATCTC
100153026 T
1 T
100153027 TCCTTTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
TCTTTCTTCTTCTTATCTC
Found at i:100154208 original size:20 final size:20
Alignment explanation
Indices: 100154165--100154210 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
100154155 ACTGTTTTGT
100154165 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
100154185 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
100154204 TATGGGC
1 TATGGGC
100154211 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:100155609 original size:18 final size:18
Alignment explanation
Indices: 100155587--100155651 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
100155577 CTGGCACTCT
*
100155587 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATGCA
* * *
100155605 GTAACAGTCATTTATTCA
1 ATAACAGTCAATTATGCA
* *
100155623 ATAACAGTCAATTATTCC
1 ATAACAGTCAATTATGCA
*
100155641 ATAGCAGTCAA
1 ATAACAGTCAA
100155652 CCTTTAATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (18 bp):
ATAACAGTCAATTATGCA
Found at i:100156539 original size:3 final size:3
Alignment explanation
Indices: 100156466--100156525 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
100156456 GTTTTGTTTT
100156466 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100156514 ATA ATA ATA ATA
1 ATA ATA ATA ATA
100156526 TACTTATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100160467 original size:25 final size:25
Alignment explanation
Indices: 100160416--100160468 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
100160406 GAAAACGCAA
* *
100160416 AAAAAGGCAGTAAGGAAAAAGAGGG
1 AAAAAGGCAGTAAGGAAAAAAAAGG
* * *
100160441 AAAACGGCAGTGAGTAAAAAAAAGG
1 AAAAAGGCAGTAAGGAAAAAAAAGG
100160466 AAA
1 AAA
100160469 GAACGAACAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.30, T:0.06
Consensus pattern (25 bp):
AAAAAGGCAGTAAGGAAAAAAAAGG
Found at i:100163368 original size:58 final size:58
Alignment explanation
Indices: 100163272--100163438 Score: 173
Period size: 58 Copynumber: 2.9 Consensus size: 58
100163262 TTTTTATAAT
*
100163272 ATTATATATTATGATTTT-TT-AATTCATA--TAATAATAATTTTATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTTATTAAATT-ATATTTAATAATAATTTTATTAA-AATTTGATTAA
* * * * * *
100163330 ATTATATATTA-TTTTATTAAATTATATTTAGTACTAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTGATTAA
* * *
100163387 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTT
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTT
100163439 AATAACAACA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
55 4 0.04
56 5 0.06
57 22 0.25
58 58 0.65
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (58 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTGATTAA
Found at i:100163629 original size:16 final size:16
Alignment explanation
Indices: 100163608--100163662 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
100163598 TGAATTACTG
100163608 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
100163624 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
100163640 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
*
100163656 ATGACAG
1 ATTACAG
100163663 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:100164655 original size:110 final size:109
Alignment explanation
Indices: 100164516--100164729 Score: 356
Period size: 110 Copynumber: 2.0 Consensus size: 109
100164506 TAGTCGAAAT
* * *
100164516 TTCGAGTTAATCTAATCGACTTTCAAATTTGAATAGAATTAAATTTTACAATTCGAATAATAAAT
1 TTCGAGTCAATCTAATCGACTTTCAAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
100164581 TTATGTAAATATCTATTTGATTCCTATCAAGTTTTAAAAAAAAAA
66 TTATGTAAATATCTATTTGATTCCTATCAAG-TTTAAAAAAAAAA
* * *
100164626 TTCGAGTCAATCTAATCGAGTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAGAT
1 TTCGAGTCAATCTAATCGACTTTCAAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
*
100164691 TTATGTAAATATTTATTTGATTCCTATCAAGTTTAAAAA
66 TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAA
100164730 TAAGTAAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 8 0.08
110 89 0.92
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (109 bp):
TTCGAGTCAATCTAATCGACTTTCAAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAAAAAAA
Found at i:100164807 original size:19 final size:19
Alignment explanation
Indices: 100164765--100164816 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
100164755 AAATTACAAA
*
100164765 AAAAATTAAAAATAATTTT
1 AAAAATTTAAAATAATTTT
*
100164784 TAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
100164803 AAAAATTCTAAAAT
1 AAAAATT-TAAAAT
100164817 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:100164867 original size:45 final size:44
Alignment explanation
Indices: 100164753--100164867 Score: 109
Period size: 45 Copynumber: 2.7 Consensus size: 44
100164743 TTTTTCCAAG
* *
100164753 AAAA-ATTACAAAAAAAAT-T-AAAAATA-A-TTTTTAAAATTT
1 AAAATATTTCAAAAAAAATCTAAAAAATATATTTTTTAAAATAT
* * **
100164792 AAAATATTT-ATAAAAATTCTAAAATTTATATTTTTTAAAAAATAT
1 AAAATATTTCAAAAAAAATCTAAAAAATATATTTTTT--AAAATAT
100164837 AAAAT-TTTCAAAAAAAATCTAAAAAATATAT
1 AAAATATTTCAAAAAAAATCTAAAAAATATAT
100164868 AAAGAAAGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
39 11 0.19
40 4 0.07
41 5 0.09
42 1 0.02
43 5 0.09
44 3 0.05
45 29 0.50
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (44 bp):
AAAATATTTCAAAAAAAATCTAAAAAATATATTTTTTAAAATAT
Found at i:100167240 original size:28 final size:27
Alignment explanation
Indices: 100167204--100167259 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
100167194 ATATATTTTC
* *
100167204 TAATTTTTA-AAAAATATATAAACAATA
1 TAATTTTTATAAAAA-ATAAAAAAAATA
100167231 TAATATTTTATAAAAAATAAAAAAAATA
1 TAAT-TTTTATAAAAAATAAAAAAAATA
100167259 T
1 T
100167260 CGATTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 16 0.64
29 5 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TAATTTTTATAAAAAATAAAAAAAATA
Found at i:100167673 original size:16 final size:17
Alignment explanation
Indices: 100167652--100167683 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
100167642 CCCAATTCAT
100167652 TTTATATTT-TATATAG
1 TTTATATTTATATATAG
100167668 TTTATATTTATATATA
1 TTTATATTTATATATA
100167684 AAAGTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTATATTTATATATAG
Found at i:100168321 original size:12 final size:12
Alignment explanation
Indices: 100168273--100168319 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
100168263 TTTAGAACCC
100168273 TAAATCTAAAAT
1 TAAATCTAAAAT
* *
100168285 AAAAT-TAAACTT
1 TAAATCTAAA-AT
100168297 TAAATCTAAAAT
1 TAAATCTAAAAT
100168309 TAAATCCTAAA
1 TAAAT-CTAAA
100168320 TTCAATTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 4 0.14
12 15 0.54
13 9 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAATCTAAAAT
Found at i:100174323 original size:26 final size:25
Alignment explanation
Indices: 100174275--100174326 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
100174265 TAACTCATAA
100174275 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
100174301 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
100174327 TAACAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:100178071 original size:21 final size:21
Alignment explanation
Indices: 100178045--100178085 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
100178035 AACTTCTCTC
100178045 CTAAATATATTATTTACATAA
1 CTAAATATATTATTTACATAA
100178066 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
100178086 TTTAACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:100180165 original size:25 final size:27
Alignment explanation
Indices: 100180128--100180180 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
100180118 TCAAACATGC
100180128 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
100180154 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
100180180 A
1 A
100180181 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:100181750 original size:26 final size:26
Alignment explanation
Indices: 100181665--100181797 Score: 227
Period size: 25 Copynumber: 5.2 Consensus size: 26
100181655 CATGAAATTC
* *
100181665 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
100181691 TTATCAT-GAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
100181715 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
100181741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
100181767 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
100181792 TTATCA
1 TTATCA
100181798 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 1, Indels: 5
0.95 0.01 0.05
Matches are distributed among these distances:
24 8 0.08
25 55 0.53
26 41 0.39
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:100185985 original size:25 final size:26
Alignment explanation
Indices: 100185948--100185999 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
100185938 TCAAACATGC
100185948 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
100185974 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
100185999 A
1 A
100186000 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:100187520 original size:26 final size:26
Alignment explanation
Indices: 100187484--100187618 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
100187474 CATGAAATTC
*
100187484 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
100187510 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
100187536 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
100187562 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
100187588 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
100187613 TTATCA
1 TTATCA
100187619 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:100197641 original size:26 final size:26
Alignment explanation
Indices: 100197605--100197655 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
100197595 CAATTTTAAC
100197605 CCTTTTTTATTTCTATTGGACTCTTT
1 CCTTTTTTATTTCTATTGGACTCTTT
100197631 CCTTTTTTATTTCTATTGGACTCTT
1 CCTTTTTTATTTCTATTGGACTCTT
100197656 AGGAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.61
Consensus pattern (26 bp):
CCTTTTTTATTTCTATTGGACTCTTT
Found at i:100197758 original size:29 final size:30
Alignment explanation
Indices: 100197726--100197784 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
100197716 GATGATTTAA
*
100197726 TGTGTAATTGTATATAT-AAATTTTAATTT
1 TGTGTAATTGTATACATGAAATTTTAATTT
* *
100197755 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTAATTT
100197785 AATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAATTTTAATTT
Found at i:100198063 original size:20 final size:20
Alignment explanation
Indices: 100198038--100198077 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
100198028 TAAAAGTTCA
* *
100198038 TATATAAATTTAAGATTTAT
1 TATATAAATTAAACATTTAT
*
100198058 TATATAGATTAAACATTTAT
1 TATATAAATTAAACATTTAT
100198078 AATTAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATAAATTAAACATTTAT
Found at i:100201488 original size:21 final size:21
Alignment explanation
Indices: 100201459--100201498 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
100201449 TTATTAATAT
100201459 TTTAACAAT-TCAATTATAAAA
1 TTTAACAATAT-AATTATAAAA
*
100201480 TTTATCAATATAATTATAA
1 TTTAACAATATAATTATAA
100201499 TTATCATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAACAATATAATTATAAAA
Found at i:100205431 original size:37 final size:37
Alignment explanation
Indices: 100205373--100205443 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
100205363 GCTCAGACGA
* *
100205373 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
* *
100205410 AATCTCCACACGTAGTCATCGGGTCTTACTCGGA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGA
100205444 ATATATTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (37 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
Found at i:100205656 original size:46 final size:46
Alignment explanation
Indices: 100205588--100205678 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
100205578 TATATATACA
* *
100205588 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
100205634 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
100205679 ATACATGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:100205723 original size:47 final size:47
Alignment explanation
Indices: 100205652--100205744 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
100205642 ACACGTTTCG
*
100205652 CATTAGCCATTCGGCTTTACCTCATATATACATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTACCTCATATATACATGTTCACATTCATCA
* * *
100205699 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATC
1 CATTAGCCATTCGGCCTTACCTCATATATACATGTTCACATTCATC
100205745 TCATATATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (47 bp):
CATTAGCCATTCGGCCTTACCTCATATATACATGTTCACATTCATCA
Found at i:100205745 original size:25 final size:25
Alignment explanation
Indices: 100205717--100205769 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
100205707 ATTCGGCCTT
100205717 ATCTCATATATGCATGTTCACATTC
1 ATCTCATATATGCATGTTCACATTC
100205742 ATCTCATATATGCATGTTCACATTC
1 ATCTCATATATGCATGTTCACATTC
100205767 ATC
1 ATC
100205770 ACATTGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (25 bp):
ATCTCATATATGCATGTTCACATTC
Found at i:100205759 original size:72 final size:72
Alignment explanation
Indices: 100205672--100205816 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
100205662 TCGGCTTTAC
* * *
100205672 CTCATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCA
1 CTCATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCA
100205737 CATTCAT
66 CATTCAT
*
100205744 CTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCA
1 CTCATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCA
100205809 CATTCAT
66 CATTCAT
100205816 C
1 C
100205817 ACATTGGCCA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.35
Consensus pattern (72 bp):
CTCATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCA
CATTCAT
Found at i:100205822 original size:47 final size:47
Alignment explanation
Indices: 100205753--100206041 Score: 443
Period size: 47 Copynumber: 6.0 Consensus size: 47
100205743 TCTCATATAT
100205753 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
100205800 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC----ATAC
* *
100205851 ACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
100205898 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC----ATAC
* *
100205949 ACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
100205996 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATA
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
100206042 TATATACAGG
Statistics
Matches: 221, Mismatches: 13, Indels: 16
0.88 0.05 0.06
Matches are distributed among these distances:
47 133 0.60
51 88 0.40
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
Found at i:100206099 original size:98 final size:98
Alignment explanation
Indices: 100205747--100206067 Score: 615
Period size: 98 Copynumber: 3.3 Consensus size: 98
100205737 CATTCATCTC
* *
100205747 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
100205812 TCATCACATTGGCCATTCGGCCTTATCACACAT
66 TCATCACATTGGCCATTCGGCCTTATCACACAT
100205845 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
100205910 TCATCACATTGGCCATTCGGCCTTATCACACAT
66 TCATCACATTGGCCATTCGGCCTTATCACACAT
100205943 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
*
100206008 TCATCACATTGGCCATTCGGCCTTATCACGCAT
66 TCATCACATTGGCCATTCGGCCTTATCACACAT
100206041 ATATATACAGGTTCACATTCATCACAT
1 ATATATACAGGTTCACATTCATCACAT
100206068 AAAATCCTAA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 220 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (98 bp):
ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
TCATCACATTGGCCATTCGGCCTTATCACACAT
Found at i:100210530 original size:12 final size:12
Alignment explanation
Indices: 100210513--100210543 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
100210503 TAGAATGAAA
100210513 AGGAATTTTCAC
1 AGGAATTTTCAC
100210525 AGGAATTTTCAC
1 AGGAATTTTCAC
100210537 AGGAATT
1 AGGAATT
100210544 ATGTCAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (12 bp):
AGGAATTTTCAC
Found at i:100218575 original size:13 final size:13
Alignment explanation
Indices: 100218557--100218691 Score: 106
Period size: 13 Copynumber: 11.6 Consensus size: 13
100218547 ACATATCTTT
100218557 ACTCCACTAAACC
1 ACTCCACTAAACC
100218570 ACT-C-C--AACC
1 ACTCCACTAAACC
100218579 ACT-C-C-AA-CC
1 ACTCCACTAAACC
*
100218588 ACTTCACTAAACC
1 ACTCCACTAAACC
* *
100218601 ACTCTATTAAACC
1 ACTCCACTAAACC
*
100218614 ACTACACTAAACC
1 ACTCCACTAAACC
100218627 ACTCCACTAAACC
1 ACTCCACTAAACC
100218640 AC-CC-C--AACC
1 ACTCCACTAAACC
100218649 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
100218662 ACTCCACTAAACC
1 ACTCCACTAAACC
100218675 AC-CC-C--AACC
1 ACTCCACTAAACC
100218684 ACTCCACT
1 ACTCCACT
100218692 TGCCTTCAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 27
0.75 0.05 0.20
Matches are distributed among these distances:
9 28 0.27
10 4 0.04
11 6 0.06
12 7 0.07
13 55 0.54
14 2 0.02
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:100218580 original size:9 final size:9
Alignment explanation
Indices: 100218566--100218590 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
100218556 TACTCCACTA
100218566 AACCACTCC
1 AACCACTCC
100218575 AACCACTCC
1 AACCACTCC
100218584 AACCACT
1 AACCACT
100218591 TCACTAAACC
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:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (9 bp):
AACCACTCC
Found at i:100218631 original size:48 final size:48
Alignment explanation
Indices: 100218575--100218691 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
100218565 AAACCACTCC
* * *
100218575 AACCACTCCAACCACTTCACTAAACCACTCTATTAAACCACTACACTA
1 AACCACTCCAACCACTCCACTAAACCACCCTACTAAACCACTACACTA
* ** ** *
100218623 AACCACTCC-ACTAAACCACCCCAACCACCCTACTAAACCACTCCACTA
1 AACCACTCCAACCACTCCA-CTAAACCACCCTACTAAACCACTACACTA
*
100218671 AACCACCCCAACCACTCCACT
1 AACCACTCCAACCACTCCACT
100218692 TGCCTTCAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
47 5 0.09
48 42 0.79
49 6 0.11
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (48 bp):
AACCACTCCAACCACTCCACTAAACCACCCTACTAAACCACTACACTA
Found at i:100218649 original size:35 final size:35
Alignment explanation
Indices: 100218557--100218691 Score: 145
Period size: 35 Copynumber: 3.9 Consensus size: 35
100218547 ACATATCTTT
*
100218557 ACTCCACTAAACCACTCCAACCACT-C-C--AACC
1 ACTCCACTAAACCACCCCAACCACTCCACTAAACC
* ** *
100218588 ACTTCACTAAACCACTCTATTAAACCACTACACTAAACC
1 ACTCCACTAAACCAC-C---CCAACCACTCCACTAAACC
100218627 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCC-ACTAAACC
100218662 ACTCCACTAAACCACCCCAACCACTCCACT
1 ACTCCACTAAACCACCCCAACCACTCCACT
100218692 TGCCTTCAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
31 14 0.16
34 1 0.01
35 48 0.56
36 3 0.03
37 1 0.01
38 1 0.01
39 18 0.21
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (35 bp):
ACTCCACTAAACCACCCCAACCACTCCACTAAACC
Found at i:100219095 original size:3 final size:3
Alignment explanation
Indices: 100219084--100219239 Score: 94
Period size: 3 Copynumber: 51.3 Consensus size: 3
100219074 TTATTTTTTT
* * *
100219084 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * *
100219128 TTG TTA CTT- CTA TTA TT- TT- TTA TT- TCTGA CTA CTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA
*
100219172 TTA TTA -TA TATA TATA TATA TATA TGTA TTA TTG TT- TGTA TTA TTA
1 TTA TTA TTA T-TA T-TA T-TA T-TA T-TA TTA TTA TTA T-TA TTA TTA
100219218 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
100219240 CACCCCTATT
Statistics
Matches: 126, Mismatches: 14, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
2 12 0.10
3 91 0.72
4 23 0.18
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:100219361 original size:12 final size:12
Alignment explanation
Indices: 100219326--100219375 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
100219316 TTACTATTAT
100219326 TATATAT-TAGTG
1 TATATATATA-TG
* *
100219338 TATATTTTTATG
1 TATATATATATG
100219350 TATATATATATG
1 TATATATATATG
*
100219362 TTTATATATA-G
1 TATATATATATG
100219373 TAT
1 TAT
100219376 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
11 3 0.09
12 27 0.84
13 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (12 bp):
TATATATATATG
Found at i:100221966 original size:19 final size:19
Alignment explanation
Indices: 100221944--100221990 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
100221934 CTTCCTTTCT
100221944 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
100221963 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
100221982 TTTGCATTA
1 TTTGCATTA
100221991 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:100226935 original size:44 final size:44
Alignment explanation
Indices: 100226887--100227649 Score: 623
Period size: 44 Copynumber: 17.4 Consensus size: 44
100226877 GGTGGAGAGT
* *
100226887 AGATCGAAGATTGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
100226931 AGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-C
**
100226976 AGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* * **
100227019 A-AGTTGAAAACGGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * *
100227063 AGATCGAAGATAGCAGATCTGACATTCCTATGCTTAT-GGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-C
** *
100227108 AGATCGAAGATTTCACA--TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* *
100227150 A-AGTTGAATATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * *
100227194 AGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-C
* ** *
100227239 AGATTGAAGATTTCAGCA--TGACATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * **
100227282 A-AGTTGAAAACAGTAGATTTGATATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
100227326 AGATAGAAGATAACAGATCTGACATTCCTGTGCTTA-CGGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-C
**
100227371 AGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* *
100227414 A-AGTTGAAGATAGTAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
100227458 AGATCGAAGATAGCAGATCTGACATTCCTATGCTTA-CGATGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAG-GGAA-C
* ** * *
100227503 AGATCAAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGAAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* *
100227546 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * *
100227590 A-AGTTGAA-ACAACAGATTTGGCATCCCTGTGTTTATGGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
100227633 AGATCGAAGA-AGCAGAT
1 AGATCGAAGATAGCAGAT
100227650 CAAGAACTCA
Statistics
Matches: 576, Mismatches: 107, Indels: 73
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.00
42 19 0.03
43 108 0.19
44 366 0.64
45 78 0.14
46 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
Found at i:100227353 original size:132 final size:132
Alignment explanation
Indices: 100226899--100227590 Score: 1136
Period size: 132 Copynumber: 5.2 Consensus size: 132
100226889 ATCGAAGATT
* *
100226899 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGTAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
100226964 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
**
100227029 CG
131 TA
*
100227031 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
** *
100227096 TTATGGTGAAGCAGATCGAAGATTTCA-CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAATA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
100227160 TA
131 TA
100227162 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
100227227 TTACAGTGAAGCAGATTGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
100227292 CA
131 TA
* ** * *
100227294 GTAGATTTGATATCCCTGTGCTTATAGGGAACAGATAGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
100227359 TTACGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
100227424 TA
131 TA
* *
100227426 GTAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * * *
100227491 TTAC-GATGAAGCAGATCAAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTGAAG
66 TTACAG-TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA
100227555 ATA
130 ATA
*
100227558 GCAGATTTGGCATCCCTGTGTTTATAGGGAACA
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACA
100227591 AGTTGAAACA
Statistics
Matches: 523, Mismatches: 35, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 125 0.24
132 398 0.76
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
TA
Found at i:100227974 original size:13 final size:13
Alignment explanation
Indices: 100227942--100228052 Score: 133
Period size: 13 Copynumber: 8.8 Consensus size: 13
100227932 CCAACCATTT
*
100227942 CACTAAACTACTC
1 CACTAAACCACTC
* *
100227955 CATTAAACCACTA
1 CACTAAACCACTC
100227968 CACTAAACCACTC
1 CACTAAACCACTC
* *
100227981 CATTAAACCACTA
1 CACTAAACCACTC
100227994 CACTAAACCACTC
1 CACTAAACCACTC
100228007 CACTAAACCAC-C
1 CACTAAACCACTC
100228019 C-C--AACCAC-C
1 CACTAAACCACTC
100228028 CTACTAAACCACTC
1 C-ACTAAACCACTC
100228042 CACTAAACCAC
1 CACTAAACCAC
100228053 CCCAACCACT
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
9 8 0.10
11 2 0.02
12 2 0.02
13 70 0.83
14 2 0.02
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (13 bp):
CACTAAACCACTC
Found at i:100228034 original size:35 final size:35
Alignment explanation
Indices: 100227995--100228061 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
100227985 AAACCACTAC
100227995 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
1 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
100228030 ACTAAACCACTCCACTAAACCACCCCAACCAC
1 ACTAAACCACTCCACTAAACCACCCCAACCAC
100228062 TTTACTTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.51, G:0.00, T:0.10
Consensus pattern (35 bp):
ACTAAACCACTCCACTAAACCACCCCAACCACCCT
Found at i:100228472 original size:3 final size:3
Alignment explanation
Indices: 100228461--100228531 Score: 51
Period size: 3 Copynumber: 23.3 Consensus size: 3
100228451 TTTATTTTTT
* *
100228461 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
100228504 TCTCA TGTA TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA TTA TTA T
100228532 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
2 6 0.11
3 41 0.75
4 6 0.11
5 2 0.04
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:100228518 original size:21 final size:18
Alignment explanation
Indices: 100228465--100228531 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
100228455 TTTTTTTTAT
* *
100228465 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
100228484 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
100228502 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
100228523 -TTATATTAT
1 TTTATATTAT
100228532 ATATGCCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 19 0.46
19 8 0.20
20 6 0.15
21 8 0.20
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:100228532 original size:18 final size:19
Alignment explanation
Indices: 100228479--100228535 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
100228469 TTATTTTTAC
100228479 TATTATTTATATTAT-TAT
1 TATTATTTATATTATATAT
*
100228497 TATTATTTCTCATGTATATAT
1 TATTATTTAT-AT-TATATAT
100228518 TATTA-TTATATTATATAT
1 TATTATTTATATTATATAT
100228536 GCCCTCTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 16 0.47
19 4 0.12
20 6 0.18
21 8 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TATTATTTATATTATATAT
Found at i:100230706 original size:13 final size:13
Alignment explanation
Indices: 100230676--100230700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100230666 ACCAGGGGAC
100230676 ACACAACCGTGTA
1 ACACAACCGTGTA
100230689 ACACAACCGTGT
1 ACACAACCGTGT
100230701 GTCACACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (13 bp):
ACACAACCGTGTA
Found at i:100235113 original size:15 final size:16
Alignment explanation
Indices: 100235088--100235117 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100235078 TTTATTTATT
100235088 TTATCTTATTATTTTA
1 TTATCTTATTATTTTA
100235104 TTAT-TTATTATTTT
1 TTATCTTATTATTTT
100235118 TAGATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATCTTATTATTTTA
Found at i:100236743 original size:15 final size:15
Alignment explanation
Indices: 100236723--100236774 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
100236713 CATTTTATTT
100236723 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
100236738 ATATTAAGATAA-T-
1 ATATTAGGATAATTA
*
100236751 -TATTAGGATATTTA
1 ATATTAGGATAATTA
*
100236765 ATTTTAGGAT
1 ATATTAGGAT
100236775 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 1 0.03
15 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:100236786 original size:35 final size:35
Alignment explanation
Indices: 100236747--100236823 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
100236737 AATATTAAGA
100236747 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
1 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
100236782 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
1 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
100236817 TAATTAT
1 TAATTAT
100236824 CTTTATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.57
Consensus pattern (35 bp):
TAATTATTAGGATATTTAATTTTAGGATTTTATTT
Found at i:100236803 original size:22 final size:19
Alignment explanation
Indices: 100236761--100236821 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
100236751 TATTAGGATA
100236761 TTTAATTTTAGGATTTTAT
1 TTTAATTTTAGGATTTTAT
100236780 TTTAATTATTAGGA---TA-
1 TTTAATT-TTAGGATTTTAT
100236796 TTTAATTTTAGGATTTTAT
1 TTTAATTTTAGGATTTTAT
100236815 TTTAATT
1 TTTAATT
100236822 ATCTTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.16
16 7 0.19
17 2 0.05
18 2 0.05
19 14 0.38
20 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTAATTTTAGGATTTTAT
Found at i:100236808 original size:15 final size:15
Alignment explanation
Indices: 100236747--100236818 Score: 76
Period size: 15 Copynumber: 4.5 Consensus size: 15
100236737 AATATTAAGA
100236747 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
100236763 TAATTTTAGGATTTTATTT
1 TAATTTTAGGA---TA-TT
100236782 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
100236798 TAATTTTAGGAT-TT
1 TAATTTTAGGATATT
100236812 T-ATTTTA
1 TAATTTTA
100236819 ATTATCTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.12
14 3 0.06
15 13 0.25
16 12 0.24
17 2 0.04
18 2 0.04
19 7 0.14
20 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TAATTTTAGGATATT
Found at i:100239192 original size:21 final size:20
Alignment explanation
Indices: 100239166--100239204 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
100239156 TTGTTTATCA
*
100239166 ATCATCAAGCATTCAAAATCT
1 ATCATCAAACA-TCAAAATCT
100239187 ATCATCAAACATCAAAAT
1 ATCATCAAACATCAAAAT
100239205 AAACATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
ATCATCAAACATCAAAATCT
Found at i:100244434 original size:22 final size:23
Alignment explanation
Indices: 100244392--100244434 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
100244382 TTTCAAAAAT
*
100244392 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
100244415 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
100244435 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:100244522 original size:43 final size:43
Alignment explanation
Indices: 100244461--100244567 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 43
100244451 TTTTTAACGT
* *
100244461 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGCGAGAAAAGCGCCGCTAAAGG
*
100244504 TCATGATCTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGCGAGAAAAGCGCCGCTAAAGG
* *
100244547 TCATGGTCTTTAGCAGCGTTT
1 TCATGATCTTTAGCGGCGTTT
100244568 TTTTAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGCGAGAAAAGCGCCGCTAAAGG
Found at i:100253309 original size:18 final size:18
Alignment explanation
Indices: 100253282--100253320 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100253272 AGGAATAGAA
*
100253282 AATTTCATTAGGTTAATT
1 AATTTAATTAGGTTAATT
*
100253300 AATTTAATTAGTTTAATT
1 AATTTAATTAGGTTAATT
100253318 AAT
1 AAT
100253321 ACCTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
AATTTAATTAGGTTAATT
Found at i:100257416 original size:45 final size:48
Alignment explanation
Indices: 100257284--100257455 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 48
100257274 CTTGTGTGGG
* * * *
100257284 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGA-GATGAGAA
* * *
100257330 CCAGTATAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGAA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGATGAGAA
* *
100257378 CTAGTGTAAGA-CATGT-TGGGACAT-GCATCGGCTATGAGATGTG-T
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGAA
100257422 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
100257456 ATTATACGCT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 9 0.08
44 6 0.06
45 22 0.21
46 27 0.25
47 20 0.19
48 21 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGAA
Found at i:100257442 original size:91 final size:94
Alignment explanation
Indices: 100257284--100257454 Score: 260
Period size: 91 Copynumber: 1.9 Consensus size: 94
100257274 CTTGTGTGGG
*
100257284 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTATAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTATAAGACCATGTCT
100257349 GGGACATGGCATCGGTATTGAGACGAGAA
66 GGGACATGGCATCGGTATTGAGACGAGAA
* * * *
100257378 CTAGTGTAAGACATGT-TGGGACATGCATCGG-C-TATGA-GATGTGTCAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA-GAGCCAGTATAAGACCATGTC
100257439 TGGGACATGGCATCGG
65 TGGGACATGGCATCGG
100257455 CATTATACGC
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
90 2 0.03
91 37 0.52
92 1 0.01
93 15 0.21
94 16 0.23
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTATAAGACCATGTCT
GGGACATGGCATCGGTATTGAGACGAGAA
Found at i:100261576 original size:30 final size:30
Alignment explanation
Indices: 100261542--100261603 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
100261532 TTCTGAGTGT
*
100261542 AAGATTATCTGTCTGTATTCTGTTTGTCTG
1 AAGATTATCTGTCTGTATTCTCTTTGTCTG
100261572 AAGATTATCTGTCTGTATTCTCTTTGTCTG
1 AAGATTATCTGTCTGTATTCTCTTTGTCTG
100261602 AA
1 AA
100261604 CTGCATTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (30 bp):
AAGATTATCTGTCTGTATTCTCTTTGTCTG
Found at i:100261626 original size:14 final size:15
Alignment explanation
Indices: 100261594--100261633 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
100261584 CTGTATTCTC
100261594 TTTGT-CTGAACTGCA
1 TTTGTGCTGAA-TGCA
100261609 TTTGTGCTGAAT-CA
1 TTTGTGCTGAATGCA
100261623 TTTGTG-TGAAT
1 TTTGTGCTGAAT
100261634 TTGATGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 6 0.25
16 5 0.21
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (15 bp):
TTTGTGCTGAATGCA
Found at i:100264533 original size:75 final size:75
Alignment explanation
Indices: 100264410--100264559 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
100264400 AGAGTAATAG
*
100264410 TGGAGAGTAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
*
100264475 GCTGCTGATT
66 GATGCTGATT
100264485 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
100264550 GATGCTGATT
66 GATGCTGATT
100264560 CCTCAATGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (75 bp):
TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
GATGCTGATT
Found at i:100269251 original size:12 final size:13
Alignment explanation
Indices: 100269234--100269262 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
100269224 TCTGGGCCAG
100269234 AAATTTA-AAGAA
1 AAATTTAGAAGAA
100269246 AAATTTAGAAGAA
1 AAATTTAGAAGAA
100269259 AAAT
1 AAAT
100269263 AAAAGGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (13 bp):
AAATTTAGAAGAA
Found at i:100272364 original size:13 final size:14
Alignment explanation
Indices: 100272339--100272384 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
100272329 CGCGGGCATT
100272339 ACAAACAAATCAAA
1 ACAAACAAATCAAA
*
100272353 ACAAAC-AATCAAT
1 ACAAACAAATCAAA
100272366 ACAAACAAATCAAA
1 ACAAACAAATCAAA
100272380 ACAAA
1 ACAAA
100272385 TAATCAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.70, C:0.22, G:0.00, T:0.09
Consensus pattern (14 bp):
ACAAACAAATCAAA
Found at i:100272376 original size:27 final size:27
Alignment explanation
Indices: 100272338--100272392 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
100272328 CCGCGGGCAT
100272338 TACAAACAAATCAAAACAAACAATCAA
1 TACAAACAAATCAAAACAAACAATCAA
*
100272365 TACAAACAAATCAAAACAAATAATCAA
1 TACAAACAAATCAAAACAAACAATCAA
100272392 T
1 T
100272393 CATAATCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.65, C:0.20, G:0.00, T:0.15
Consensus pattern (27 bp):
TACAAACAAATCAAAACAAACAATCAA
Found at i:100272389 original size:13 final size:13
Alignment explanation
Indices: 100272339--100272391 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
100272329 CGCGGGCATT
100272339 ACAAACAAATCAAA
1 ACAAA-AAATCAAA
* *
100272353 ACAAACAATCAAT
1 ACAAAAAATCAAA
100272366 ACAAACAAATCAAA
1 ACAAA-AAATCAAA
*
100272380 ACAAATAATCAA
1 ACAAAAAATCAA
100272392 TCATAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 17 0.52
14 16 0.48
ACGTcount: A:0.68, C:0.21, G:0.00, T:0.11
Consensus pattern (13 bp):
ACAAAAAATCAAA
Found at i:100272909 original size:42 final size:42
Alignment explanation
Indices: 100272862--100272944 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
100272852 TCGAAGTTGG
* * *
100272862 GACACATGGCCATGTCTCAGCCTGTGTAACTCACTGACTTGA
1 GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
*
100272904 GACACACGGTCATGTCTCAGCCCGCGTAACTCACTGACTTG
1 GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTG
100272945 GGTCACAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (42 bp):
GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
Found at i:100277897 original size:7 final size:7
Alignment explanation
Indices: 100277885--100277909 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
100277875 AAAATATATA
100277885 AATTAAT
1 AATTAAT
100277892 AATTAAT
1 AATTAAT
100277899 AATTAAT
1 AATTAAT
100277906 AATT
1 AATT
100277910 CTTTGAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:100278661 original size:31 final size:32
Alignment explanation
Indices: 100278618--100278677 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
100278608 ATTCTTTATA
* *
100278618 ATTTTTTTTACAATTTTTATTAT-TTTTAAAT
1 ATTTCTTTTACAATTTTTATAATATTTTAAAT
100278649 ATTTCTTTTACAATTTTTATAATATTTTA
1 ATTTCTTTTACAATTTTTATAATATTTTA
100278678 TTAGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (32 bp):
ATTTCTTTTACAATTTTTATAATATTTTAAAT
Found at i:100281980 original size:2 final size:2
Alignment explanation
Indices: 100281969--100282001 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
100281959 TTGAATCTGT
*
100281969 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100282002 CACAACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100286740 original size:31 final size:31
Alignment explanation
Indices: 100286705--100286776 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
100286695 TTTAAACTTC
* * *
100286705 AATTTAGTCCTTCAGGCATTTATTTTCTTAT
1 AATTTAGGCCTTCAAGCATTTATTTTATTAT
100286736 AATTTAGGCCTTCAAGCATTTATTTTATTAT
1 AATTTAGGCCTTCAAGCATTTATTTTATTAT
100286767 AATTTAGGCC
1 AATTTAGGCC
100286777 CAAAATCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (31 bp):
AATTTAGGCCTTCAAGCATTTATTTTATTAT
Found at i:100286918 original size:16 final size:15
Alignment explanation
Indices: 100286893--100286933 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
100286883 TATTAATGAT
100286893 TCATTTTTTTATTAA
1 TCATTTTTTTATTAA
100286908 TCATTTCTTTTATT-A
1 TCATTT-TTTTATTAA
*
100286923 TTATTTTTTTA
1 TCATTTTTTTA
100286934 GTATTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (15 bp):
TCATTTTTTTATTAA
Found at i:100286918 original size:19 final size:19
Alignment explanation
Indices: 100286879--100286925 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
100286869 TTTAATCAAA
*
100286879 TTTTTATTAATGATTCATT
1 TTTTTATTAATCATTCATT
100286898 TTTTTATTAATCATTTC-TT
1 TTTTTATTAATCA-TTCATT
*
100286917 TTATTATTA
1 TTTTTATTA
100286926 TTTTTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTATTAATCATTCATT
Found at i:100287564 original size:22 final size:23
Alignment explanation
Indices: 100287522--100287564 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
100287512 CCGAATATCC
* *
100287522 TTTTAAAATCAAAATACATAAGA
1 TTTTAAAATCAAAAAAAATAAGA
100287545 TTTTAAAAT-AAAAAAAATAA
1 TTTTAAAATCAAAAAAAATAA
100287565 AGGCAAGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTTAAAATCAAAAAAAATAAGA
Found at i:100291564 original size:5 final size:5
Alignment explanation
Indices: 100291554--100291586 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
100291544 TACTTTTAAG
100291554 TATTA TATTA TATTA TTATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA TAT
100291587 GCTTAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:100301581 original size:38 final size:39
Alignment explanation
Indices: 100301514--100301655 Score: 209
Period size: 38 Copynumber: 3.6 Consensus size: 39
100301504 GATATATTAA
*
100301514 ATATTCGGGTTAAATCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTAATGT
100301553 ATATCCGGGTTAAATCC-CAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTAATGT
* *
100301591 ATATCCGGGTTAAATCCGCAGGCTTAGTGCTGGT-A-CT
1 ATATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTAATGT
100301628 ATATCCGGGCTTAAAGTTCCGCAGGCTT
1 ATATCCGGG-TTAAA--TCCGCAGGCTT
100301656 TGAGCTAGTA
Statistics
Matches: 96, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
37 10 0.10
38 44 0.46
39 31 0.32
40 11 0.11
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (39 bp):
ATATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTAATGT
Found at i:100309482 original size:40 final size:40
Alignment explanation
Indices: 100309438--100309553 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
100309428 GATATATTAA
*
100309438 ATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
100309478 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
* *
100309518 ATATCCGGGTTAAATCCCGCAGGTTTAGTGCTGGTA
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
100309554 CTATATTCGG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
Found at i:100312841 original size:2 final size:2
Alignment explanation
Indices: 100312834--100312858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100312824 TTAAAAGATA
100312834 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
100312859 AAGATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100314418 original size:14 final size:14
Alignment explanation
Indices: 100314399--100314445 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
100314389 TTGGACTTTA
100314399 ATTTTGGTTTTTGT
1 ATTTTGGTTTTTGT
100314413 ATTTTGGTTTATTTTGT
1 ATTTTGG--T-TTTTGT
*
100314430 TTTTTGGTTTTTGT
1 ATTTTGGTTTTTGT
100314444 AT
1 AT
100314446 GGGCCCGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 14 0.50
15 1 0.04
16 1 0.04
17 12 0.43
ACGTcount: A:0.09, C:0.00, G:0.19, T:0.72
Consensus pattern (14 bp):
ATTTTGGTTTTTGT
Found at i:100314429 original size:17 final size:17
Alignment explanation
Indices: 100314407--100314439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
100314397 TAATTTTGGT
100314407 TTTTGTATTTTGGTTTA
1 TTTTGTATTTTGGTTTA
*
100314424 TTTTGTTTTTTGGTTT
1 TTTTGTATTTTGGTTT
100314440 TTGTATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (17 bp):
TTTTGTATTTTGGTTTA
Found at i:100315766 original size:5 final size:5
Alignment explanation
Indices: 100315754--100315818 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
100315744 ACTTCACTTT
* * * *
100315754 AAAA- AAAAG AAAA- AAAAG AAAAG AAAAC AAAAG AAAAC AAAAT AATAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG
100315803 ATAAAG AAAAAG AAAA
1 A-AAAG -AAAAG AAAA
100315819 AGAACAAGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
4 8 0.16
5 31 0.62
6 9 0.18
7 2 0.04
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.05
Consensus pattern (5 bp):
AAAAG
Found at i:100315768 original size:9 final size:9
Alignment explanation
Indices: 100315754--100315813 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
100315744 ACTTCACTTT
100315754 AAAAAAAAG
1 AAAAAAAAG
100315763 AAAAAAAAG
1 AAAAAAAAG
*
100315772 AAAAGAAAAC
1 AAAA-AAAAG
100315782 AAAAGAAAA-
1 AAAA-AAAAG
* * *
100315791 CAAAATAAT
1 AAAAAAAAG
*
100315800 AAAATAAAG
1 AAAAAAAAG
100315809 AAAAA
1 AAAAA
100315814 GAAAAAGAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 3 0.07
9 25 0.61
10 13 0.32
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:100315795 original size:28 final size:28
Alignment explanation
Indices: 100315764--100315818 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
100315754 AAAAAAAAGA
100315764 AAAAAAAGAAAAGAAA-ACAAAAGAAAAC
1 AAAAAAAGAAAAGAAAGA-AAAAGAAAAC
* * *
100315792 AAAATAATAAAATAAAGAAAAAGAAAA
1 AAAAAAAGAAAAGAAAGAAAAAGAAAA
100315819 AGAACAAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.05
Consensus pattern (28 bp):
AAAAAAAGAAAAGAAAGAAAAAGAAAAC
Found at i:100316981 original size:44 final size:44
Alignment explanation
Indices: 100316918--100317166 Score: 144
Period size: 44 Copynumber: 5.6 Consensus size: 44
100316908 GGCAAATCTT
* * *
100316918 ATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTATTA-ACCTC
1 ATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-TAGACCTC
* * * *
100316962 ATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAGACCTC
* ** ** * * * * *
100317006 ATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-TAGACCTC
* * ** ** * *
100317051 ATCTCTCTGAAATTGCAGAAGAGTAGATTAAAGCTATAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAGACCTC
* * * * * * *
100317095 ATCTCCCTGAAGTTGCGGCGGAGCATG-TTGAAGTTACA-AGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAACA-GATTAAAGCTATAGA-CCTC
*
100317139 ATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 ATCTCCCTGAAGTTGCAGTGGAACAGAT
100317167 GAAGATAGCG
Statistics
Matches: 163, Mismatches: 37, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
43 4 0.02
44 124 0.76
45 35 0.21
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAGACCTC
Found at i:100317147 original size:133 final size:132
Alignment explanation
Indices: 100316909--100317218 Score: 392
Period size: 133 Copynumber: 2.3 Consensus size: 132
100316899 ATCTACTGTG
** * * *
100316909 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTATTAACCTCATCTCCCTGAAG
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAATAGATTAAAGCTATAAACCTCATCTCCCTGAAG
* * * * *
100316974 TTGCAGTGGAACAGATTGAAGTTATAGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAG
66 TTGCAGCGGAACAGATTGAAGTTAAAGATCTCATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAG
100317039 ATA
130 ATA
* * * *
100317042 GCAAATCTTATCTCTCTGAAA-TTGCAGAAGAGTAGATTAAAGCTATAAACCTTATCTCCCTGAA
1 GCAAATCTTATCTCCCT-AAAGTTACAGAAGAATAGATTAAAGCTATAAACCTCATCTCCCTGAA
* *
100317106 GTTGCGGCGGAGCATG-TTGAAGTTACAAG-TCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGA
65 GTTGCAGCGGAACA-GATTGAAGTTA-AAGATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGA
100317169 AGATA
128 AGATA
* * *
100317174 GCGAATCTTATTTCCCTAAAGTTACAGTAGAATAGATTAAAGCTA
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAATAGATTAAAGCTA
100317219 CCAGACACAA
Statistics
Matches: 151, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.02
132 42 0.28
133 100 0.66
134 6 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (132 bp):
GCAAATCTTATCTCCCTAAAGTTACAGAAGAATAGATTAAAGCTATAAACCTCATCTCCCTGAAG
TTGCAGCGGAACAGATTGAAGTTAAAGATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGA
TA
Found at i:100317190 original size:44 final size:45
Alignment explanation
Indices: 100316909--100317816 Score: 476
Period size: 45 Copynumber: 19.7 Consensus size: 45
100316899 ATCTACTGTG
* * * * * *
100316909 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * * *
100316954 -TTAACCTCATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
100316998 -TAGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * * *
100317042 GCAAATCTTATCTCTCTGAAATTGCAGAAGAGTAGATTAAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
100317087 -TAAACCTTATCTCCCTGAAGTTGCGGCGGAGCATG-TTGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATA
* *
100317131 -CAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * ** * *
100317174 GCGAATCTTATTTCCCTAAAGTTACAGTAGAATAGATTAAAGCTACCA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TA
* * * **
100317222 GACACAAATCTTATAC-CTCTGAAGTTGCAGTAAGTTGGATCA-ATTCTACCATA
1 G---CAAATCTTAT-CTCCCTGAAGTTGC----AG-TGGAGCAGATT-GAAGATA
* * *
100317275 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
100317320 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAGGCTACAAATTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGA-TA
* * * * *
100317372 -CAAATCTGATCTCCATAAAGTTGTAGTGGAGCAGATTGAAGAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
100317416 GCAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
100317461 GCAAATCTTACCTCTCTGAAGTTGCAGTAGAGCATATTAAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
100317506 -TAAGTCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAATATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * **
100317550 GCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATT-AAGACTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * *
100317595 -CAAATTACAGATCTTATCTCCTTGAAGTTACAGTGGACCAGACTGAAGATA
1 GC-----A-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
100317646 GCGAATCTTATTTCCCTGAAGTTGCAGTGAAACTGATTAAAGCTATAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A
* * * * *
100317695 TTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCATG-TCGAAGTTA
1 --GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATA
* * * * * *
100317742 -CAAGTCTTATCTCCTTGAAGTTGTAGTGGAGTAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
100317786 GCGAATCTTATTTCCCTAAAGTTGCAGTGGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGA
100317817 ATAGATTAAA
Statistics
Matches: 646, Mismatches: 169, Indels: 96
0.71 0.19 0.11
Matches are distributed among these distances:
43 8 0.01
44 225 0.35
45 240 0.37
46 6 0.01
47 4 0.01
48 4 0.01
49 3 0.00
50 24 0.04
51 111 0.17
52 8 0.01
53 2 0.00
54 1 0.00
55 5 0.01
56 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:100317488 original size:236 final size:232
Alignment explanation
Indices: 100317128--100317833 Score: 671
Period size: 230 Copynumber: 3.0 Consensus size: 232
100317118 CATGTTGAAG
* *
100317128 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTATTTCCCTAA
1 TTACAAATCTCATCTCCATGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTATTTCCCTAA
* * *
100317193 AGTTACAGTAGAATAGATTAAAGCTACCAGACACAAATCTTATAC-CTCTGAAGTTGCAGTAAGT
66 AGTTACAGTGGAATAGAGT-AAG--ACTAG---CAAATCTTA-ACTCTCTGAAGTTGCAGTAAG-
* *** *
100317257 TGGATCAATTCTACCATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGC
123 TGGATC-ATTCAAAGTTA-CAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGC
* *
100317322 AAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAGGCTACAAA
186 GAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAGGCTACAAA
* * * * * *
100317369 TTACAAATCTGATCTCCATAAAGTTGTAGTGGAGCAGATTGAAGAAAGCAAATCTTATCTCCCTA
1 TTACAAATCTCATCTCCATGAAGTTGCAGTGGAGCAGA-TGAAGATAGCGAATCTTATTTCCCTA
* * * *
100317434 AAGTTACAGTGGAGTAGAGTGAAGA-TAGCAAATCTTACCTCTCTGAAGTTGCAGT-AGAGCAT-
65 AAGTTACAGTGGAATAGAGT-AAGACTAGCAAATCTTAACTCTCTGAAGTTGCAGTAAGTGGATC
* * * * * *
100317496 ATT-AAAGTTATAAGTCTTAT-TTTCCTAAAGTTGCAGTGGAGCAGATTGAATATAGCGAATCTT
129 ATTCAAAGTTACAAGTCTTATCTCT-CTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTT
* * *
100317559 ATTTCCCTGAAGTTGTAGTGGAATAGATTAAGACTACAAA
193 ATTTCCCTAAAGTTGCAGTGGAATAGATTAAGGCTACAAA
* * * * * *
100317599 TTACAGATCTTATCTCCTTGAAGTTACAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTG
1 TTACAAATCTCATCTCCATGAAGTTGCAGTGGAGCAGA-TGAAGATAGCGAATCTTATTTCCCTA
* * * * * * * *
100317664 AAGTTGCAGTGAAACTGATTAAAGCTATAAATTA-CAAATCTTATCTCCCTAAAGTTGC---AA-
65 AAGTTACAGTG-----GAATAGAG-TA-AGACTAGCAAATCTTAACTCTCTGAAGTTGCAGTAAG
* * * *
100317724 TGGAGCATGTCGAAGTTACAAGTCTTATCTC-CTTGAAGTTGTAGTGGAGTAAACTGAAGATAGC
123 TGGATCAT-TCAAAGTTACAAGTCTTATCTCTC-TGAAGTTGCAGTGGAGCAAACTGAAGATAGC
*
100317788 GAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTACAA
186 GAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAGGCTACAA
100317834 GTTATCATGG
Statistics
Matches: 381, Mismatches: 67, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
229 2 0.01
230 141 0.37
231 3 0.01
232 3 0.01
233 2 0.01
234 6 0.02
235 12 0.03
236 130 0.34
237 3 0.01
239 2 0.01
240 1 0.00
241 33 0.09
242 43 0.11
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (232 bp):
TTACAAATCTCATCTCCATGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTATTTCCCTAA
AGTTACAGTGGAATAGAGTAAGACTAGCAAATCTTAACTCTCTGAAGTTGCAGTAAGTGGATCAT
TCAAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATT
TCCCTAAAGTTGCAGTGGAATAGATTAAGGCTACAAA
Found at i:100317647 original size:96 final size:96
Alignment explanation
Indices: 100317417--100317985 Score: 320
Period size: 96 Copynumber: 6.0 Consensus size: 96
100317407 TTGAAGAAAG
* * * * ** *
100317417 CAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATAGCAAATCTTACCTCTCTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * *
100317482 TTGCAGTAGAGCAT-ATTAAAG-------TTA
66 TTGTAGTGGAAC-TGATTAAAGCTACAAATTA
* * * * * *
100317506 TAAGTCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAATATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
100317571 TTGTAGTGGAA-TAGATT-AAGACTACAAATTA
66 TTGTAGTGGAACT-GATTAAAG-CTACAAATTA
* * * * *
100317602 CAGATCTTATCTCCTTGAAGTTACAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * *
100317667 TTGCAGTGAAACTGATTAAAGCTATAAATTA
66 TTGTAGTGGAACTGATTAAAGCTACAAATTA
* * * * *
100317698 CAAATCTTATCTCCCTAAAGTTGCAATGGAGCATGTC-GAAGTTA-C-AAGTCTTATCTCCTTGA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCA-GACTGAAGATAGCGAA-TCTTATTTCCCTGA
*
100317760 AGTTGTAGTGG-A--G--TAAA-CTGA-AGA-TA
64 AGTTGTAGTGGAACTGATTAAAGCT-ACAAATTA
* * * * * *
100317786 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTATCATGGTGAATCT
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGG---AG--CAGA-CT-GAAG--AT-A--GCGAATCT
* * * *
100317851 TATTTTCCTGAAGTTGGAGTGGAA-TATATTAAAGCTACAAATCA
53 TATTTCCCTGAAGTTGTAGTGGAACT-GATTAAAGCTACAAATTA
* * * * * * * * * *
100317895 CAAATCTTATCTTCATGAAGTTGCAGTGAAGAAGATTGAAGATA-CGAGTCTCATCTCCTTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * *
100317959 TTGCAGTGGAGCAGATTAAAGCTACAA
66 TTGTAGTGGAACTGATTAAAGCTACAA
100317986 GTCTAATCTC
Statistics
Matches: 362, Mismatches: 78, Indels: 74
0.70 0.15 0.14
Matches are distributed among these distances:
87 1 0.00
88 5 0.01
89 94 0.26
90 5 0.01
92 3 0.01
94 5 0.01
95 58 0.16
96 115 0.32
97 6 0.02
98 2 0.01
99 3 0.01
101 3 0.01
102 22 0.06
103 5 0.01
105 2 0.01
107 5 0.01
108 27 0.07
109 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (96 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTGTAGTGGAACTGATTAAAGCTACAAATTA
Found at i:100317975 original size:44 final size:44
Alignment explanation
Indices: 100317910--100318023 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
100317900 CTTATCTTCA
* * * *
100317910 TGAAGTTGCAGTGAAGAAGATTGAAGATACGAGTCTCATCTCCT
1 TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
* * *
100317954 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTAATCTCCC
1 TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
* * * *
100317998 TGAAGTTACAGTAGAGTAGATCGAAG
1 TGAAGTTGCAGTGGAGAAGATTGAAG
100318024 CGCCAATTTC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
Found at i:100318415 original size:16 final size:16
Alignment explanation
Indices: 100318394--100318432 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
100318384 TGCTAGTCGC
100318394 CGCCTCTTCACGCCGT
1 CGCCTCTTCACGCCGT
100318410 CGCCTCTTCACGCCGT
1 CGCCTCTTCACGCCGT
*
100318426 TGCCTCT
1 CGCCTCT
100318433 ACATGTCGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.05, C:0.49, G:0.18, T:0.28
Consensus pattern (16 bp):
CGCCTCTTCACGCCGT
Found at i:100318502 original size:18 final size:18
Alignment explanation
Indices: 100318470--100318516 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
100318460 GCAAGAAAAG
*
100318470 ACAAAAAAATGACAACA-
1 ACAAAAAAATCACAACAC
100318487 ACAAAAAAGATCACAACAGC
1 ACAAAAAA-ATCACAACA-C
100318507 ACAAAAAAAT
1 ACAAAAAAAT
100318517 ATATAGCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 2 0.08
20 8 0.31
ACGTcount: A:0.68, C:0.19, G:0.06, T:0.06
Consensus pattern (18 bp):
ACAAAAAAATCACAACAC
Found at i:100320184 original size:22 final size:23
Alignment explanation
Indices: 100320142--100320184 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
100320132 CCGAATATCC
* *
100320142 TTTTAAAATCAAAATACATAAGA
1 TTTTAAAATCAAAAAAAATAAGA
100320165 TTTTAAAAT-AAAAAAAATAA
1 TTTTAAAATCAAAAAAAATAA
100320185 AGGCAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTTAAAATCAAAAAAAATAAGA
Found at i:100323696 original size:6 final size:6
Alignment explanation
Indices: 100323685--100323852 Score: 177
Period size: 6 Copynumber: 27.8 Consensus size: 6
100323675 AACCAAAATG
100323685 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
100323733 A-ATATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
100323782 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
*
100323830 AGAATC AAAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
100323853 TAGGTGACAA
Statistics
Matches: 137, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.07
6 117 0.85
7 8 0.06
8 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:100323704 original size:36 final size:34
Alignment explanation
Indices: 100323664--100323836 Score: 132
Period size: 36 Copynumber: 5.1 Consensus size: 34
100323654 AAGAAACATT
* *
100323664 ATCAGAATTGGAACCAAAATGAGAATCAGAATCAGA
1 ATCAGAATT-GAA-CAGAATCAGAATCAGAATCAGA
100323700 ATCAG---T-AACAGAATCAGAATCAGAATCAGA
1 ATCAGAATTGAACAGAATCAGAATCAGAATCAGA
100323730 ATCA-ATATTAGTAACAGAATCAGAATCAGAATCAGA
1 ATCAGA-ATT-G-AACAGAATCAGAATCAGAATCAGA
* *
100323766 ATTAG--GTG-ACAGAATCAGAATCAGAATCAGTA
1 ATCAGAATTGAACAGAATCAGAATCAGAATCAG-A
* * *
100323798 A-CAGAATCAGAATCAGAATCAGTATTAGTAA-CAGA
1 ATCAGAAT-TGAA-CAGAATCAGAATCAG-AATCAGA
100323833 ATCA
1 ATCA
100323837 AAATCAGAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
30 24 0.21
31 26 0.23
32 2 0.02
33 3 0.03
34 2 0.02
35 3 0.03
36 50 0.45
37 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (34 bp):
ATCAGAATTGAACAGAATCAGAATCAGAATCAGA
Found at i:100323833 original size:85 final size:85
Alignment explanation
Indices: 100323690--100323877 Score: 317
Period size: 85 Copynumber: 2.2 Consensus size: 85
100323680 AAATGAGAAT
*
100323690 CAGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGA
1 CAGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAA
100323754 ATCAGAATCAGAATTAGGTGA
65 ATCAGAATCAGAATTAGGTGA
*
100323775 CAGAATCAGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAA
1 CAGAATCAGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAA
100323839 ATCAGAATCAGAATTAGGTGA
65 ATCAGAATCAGAATTAGGTGA
*
100323860 CAAAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
100323878 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
84 2 0.02
85 94 0.96
86 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAA
TCAGAATCAGAATTAGGTGA
Found at i:100324065 original size:27 final size:27
Alignment explanation
Indices: 100323994--100324076 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
100323984 CAGCATGGCT
* *
100323994 ACCAGAA-CAGAT-ATCGTGACAGAGTC
1 ACCAGAATCAGATAAT-GTGGCAGAGCC
*
100324020 ACCAG-ATACAGATATTGTGGCAGAGCC
1 ACCAGAAT-CAGATAATGTGGCAGAGCC
*
100324047 ACCAGAATCAGATAATGTGGCAAAGCC
1 ACCAGAATCAGATAATGTGGCAGAGCC
100324074 ACC
1 ACC
100324077 TAACAGAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 39 0.81
28 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
ACCAGAATCAGATAATGTGGCAGAGCC
Found at i:100324418 original size:27 final size:26
Alignment explanation
Indices: 100324379--100324461 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
100324369 TCGATCGGTT
* *
100324379 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
100324405 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
100324432 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
100324459 AAC
1 AAC
100324462 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:100324692 original size:27 final size:27
Alignment explanation
Indices: 100324662--100324731 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
100324652 GGCAAAATGA
*
100324662 TAATTTTACCCCACAAAGGTATCTCGG
1 TAATTTTACCCTACAAAGGTATCTCGG
* ** *
100324689 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTTTACCCTACAAAGGTATCTCGG
100324716 T-ATTTCTACCCTACAA
1 TAATTT-TACCCTACAA
100324732 GAAATTCTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (27 bp):
TAATTTTACCCTACAAAGGTATCTCGG
Found at i:100324772 original size:27 final size:27
Alignment explanation
Indices: 100324734--100324845 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
100324724 CCCTACAAGA
** *
100324734 AATTCTACCCTACGGGGGTATTTCGGT
1 AATTCTACCCTATAGGGGTATTTCAGT
* *
100324761 AATTCTACCCTATAAGGGTATTTTAGT
1 AATTCTACCCTATAGGGGTATTTCAGT
100324788 AATTCTACCCTATAGGGGTATTTC-GAT
1 AATTCTACCCTATAGGGGTATTTCAG-T
*
100324815 AATTCTACCTTATAGGGGTATTTCAGT
1 AATTCTACCCTATAGGGGTATTTCAGT
100324842 AATT
1 AATT
100324846 TCACAATCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 73 0.97
28 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (27 bp):
AATTCTACCCTATAGGGGTATTTCAGT
Found at i:100324834 original size:54 final size:54
Alignment explanation
Indices: 100324734--100324845 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
100324724 CCCTACAAGA
* * *
100324734 AATTCTACCCTACGGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAAGGGTATTTCAGT
* * *
100324788 AATTCTACCCTATAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAAGGGTATTTCAGT
100324842 AATT
1 AATT
100324846 TCACAATCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
AATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAAGGGTATTTCAGT
Found at i:100324880 original size:27 final size:28
Alignment explanation
Indices: 100324850--100325016 Score: 242
Period size: 27 Copynumber: 6.2 Consensus size: 28
100324840 GTAATTTCAC
*
100324850 AATCAAGGGTAAAACGA-TAATTCTGTA
1 AATCGAGGGTAAAACGAGTAATTCTGTA
100324877 AATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGAGTAATTCTGTA
100324904 AA-CTGAGGGTAAAACG-GTAATTCTGTA
1 AATC-GAGGGTAAAACGAGTAATTCTGTA
100324931 AATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGAGTAATTCTGTA
100324958 AA-CTGAGGGTAAAACGA-TAATTCTGTA
1 AATC-GAGGGTAAAACGAGTAATTCTGTA
*
100324985 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGAGTAATTCTGTA
100325012 AATCG
1 AATCG
100325017 GGAGTACTTT
Statistics
Matches: 129, Mismatches: 2, Indels: 18
0.87 0.01 0.12
Matches are distributed among these distances:
26 4 0.03
27 122 0.95
28 3 0.02
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (28 bp):
AATCGAGGGTAAAACGAGTAATTCTGTA
Found at i:100324926 original size:54 final size:54
Alignment explanation
Indices: 100324855--100325013 Score: 300
Period size: 54 Copynumber: 2.9 Consensus size: 54
100324845 TTCACAATCA
100324855 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
*
100324909 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
*
100324963 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA
1 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA
100325014 TCGGGAGTAC
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (54 bp):
AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
Found at i:100326054 original size:49 final size:49
Alignment explanation
Indices: 100325996--100326098 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 49
100325986 TAGGAGTTCA
* * *
100325996 AGTTGTACTTGAACCCATGACTGCATAACCACCATCAATTAGGAGCCCT
1 AGTTATACTTCAACCCATGACTGCATAACCACCATCAATTAGGAGCCCG
* * * *
100326045 AGTTATACTTCAACCCATGACTGTATAACTACCATGAATTGGGAGCCCG
1 AGTTATACTTCAACCCATGACTGCATAACCACCATCAATTAGGAGCCCG
100326094 AGTTA
1 AGTTA
100326099 CAATGCAACA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (49 bp):
AGTTATACTTCAACCCATGACTGCATAACCACCATCAATTAGGAGCCCG
Found at i:100339133 original size:105 final size:105
Alignment explanation
Indices: 100339003--100339209 Score: 308
Period size: 105 Copynumber: 2.0 Consensus size: 105
100338993 TGTTGTTCTA
*
100339003 AAAAAATATTTCCCATACCATAAAAAAGGTTGGGCCATACTAACATATTG-AGTATTTTATAATT
1 AAAAAATATTTCCCATACCATAAAAAAGGTTGGGCCATACTAACATATTGCA-TATCTTATAATT
*
100339067 TCAATTAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
65 TCAATCAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
* *** * *
100339108 AAAAAATATTTCCCATAGCATAAAAAAGGTTGGGTTGTACTGATATATTGCATATCTTATAATTT
1 AAAAAATATTTCCCATACCATAAAAAAGGTTGGGCCATACTAACATATTGCATATCTTATAATTT
* *
100339173 CAATCATAGGTAGAATTGAGATGATCCATACTTTAAA
66 CAATCAAAGGTAGAATTGAGATAATCCATACTTTAAA
100339210 GAGTACATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 90 0.99
106 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (105 bp):
AAAAAATATTTCCCATACCATAAAAAAGGTTGGGCCATACTAACATATTGCATATCTTATAATTT
CAATCAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
Found at i:100342372 original size:42 final size:44
Alignment explanation
Indices: 100342279--100342461 Score: 176
Period size: 42 Copynumber: 4.4 Consensus size: 44
100342269 CGACTATGTT
** * *
100342279 TGGCACTTAGTGTGCGTTTC-GAGATAGCTTTGGCTAT-ATAGA
1 TGGCACTTAGTGTGCGAGTCAGAGATAGCTTCGGCTATGATATA
100342321 --GCACTTAGTGTGCGAGTCAGA-ATAGCTTCGGCTAT-ATATA
1 TGGCACTTAGTGTGCGAGTCAGAGATAGCTTCGGCTATGATATA
*
100342361 TGGCACTTAGTGTGCGAGGT-TGAGATAGCTTCGGCTATGA-A-A
1 TGGCACTTAGTGTGCGA-GTCAGAGATAGCTTCGGCTATGATATA
* * *
100342403 -GGCACTTAGTGTGCGAGATTATA-ATAGCTTCGGCTATGCT-T-
1 TGGCACTTAGTGTGCGAG-TCAGAGATAGCTTCGGCTATGATATA
*
100342444 TAGCACTTAGTGTGCGAG
1 TGGCACTTAGTGTGCGAG
100342462 GTATCGAGTA
Statistics
Matches: 121, Mismatches: 9, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
40 34 0.28
41 34 0.28
42 35 0.29
43 17 0.14
44 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (44 bp):
TGGCACTTAGTGTGCGAGTCAGAGATAGCTTCGGCTATGATATA
Found at i:100342417 original size:83 final size:84
Alignment explanation
Indices: 100342272--100342469 Score: 248
Period size: 83 Copynumber: 2.4 Consensus size: 84
100342262 TACAAATCGA
* * *
100342272 CTATG-TTTGGCACTTAGTGTGC--GTTTCGAGATAGCTTTGGCTATATAGAGCACTTAGTGTGC
1 CTATGATTTGGCACTTAGTGTGCGAGGTTCGAGATAGCTTCGGCTATAAAGAGCACTTAGTGTGC
100342334 GAG-TCAGAATAGCTTCGG
66 GAGATCAGAATAGCTTCGG
100342352 CTAT-ATATATGGCACTTAGTGTGCGAGGTT-GAGATAGCTTCGGCTATGAAAG-GCACTTAGTG
1 CTATGAT-T-TGGCACTTAGTGTGCGAGGTTCGAGATAGCTTCGGCTAT-AAAGAGCACTTAGTG
* *
100342414 TGCGAGATTATAATAGCTTCGG
63 TGCGAGATCAGAATAGCTTCGG
* *
100342436 CTATGCTTTAGCACTTAGTGTGCGAGGTATCGAG
1 CTATGATTTGGCACTTAGTGTGCGAGGT-TCGAG
100342470 TATTCGACAG
Statistics
Matches: 101, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
80 5 0.05
81 1 0.01
82 15 0.15
83 51 0.50
84 25 0.25
85 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (84 bp):
CTATGATTTGGCACTTAGTGTGCGAGGTTCGAGATAGCTTCGGCTATAAAGAGCACTTAGTGTGC
GAGATCAGAATAGCTTCGG
Found at i:100342418 original size:41 final size:40
Alignment explanation
Indices: 100342280--100342439 Score: 159
Period size: 41 Copynumber: 3.9 Consensus size: 40
100342270 GACTATGTTT
* * *
100342280 GGCACTTAGTGTGC--GTTTCGAGATAGCTTTGGCTATATA
1 GGCACTTAGTGTGCGAGGTT-GAGATAGCTTCGGCTATAAA
*
100342319 GAGCACTTAGTGTGCGA-G-TCAGAATAGCTTCGGCTATATATA
1 G-GCACTTAGTGTGCGAGGTTGAG-ATAGCTTCGGCTATA-A-A
100342361 TGGCACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTATGAAA
1 -GGCACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTAT-AAA
* *
100342403 GGCACTTAGTGTGCGAGATT-ATAATAGCTTCGGCTAT
1 GGCACTTAGTGTGCGAGGTTGA-GATAGCTTCGGCTAT
100342440 GCTTTAGCAC
Statistics
Matches: 103, Mismatches: 7, Indels: 20
0.79 0.05 0.15
Matches are distributed among these distances:
39 3 0.03
40 29 0.28
41 33 0.32
42 17 0.17
43 17 0.17
44 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTATAAA
Found at i:100345220 original size:24 final size:24
Alignment explanation
Indices: 100345182--100345247 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
100345172 GGCTGGTTGG
* *
100345182 TAGGCA-AGGACTGAGTGTTTCGC
1 TAGGCAGAAGACTGAGTGTTTAGC
* *
100345205 TGGGCAGAAGATTGAGTGTTTAGC
1 TAGGCAGAAGACTGAGTGTTTAGC
*
100345229 TAGGCAGAGGACTGAGTGT
1 TAGGCAGAAGACTGAGTGT
100345248 GAGTGTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (24 bp):
TAGGCAGAAGACTGAGTGTTTAGC
Found at i:100350045 original size:40 final size:40
Alignment explanation
Indices: 100349998--100350173 Score: 307
Period size: 40 Copynumber: 4.4 Consensus size: 40
100349988 TATATAATAT
*
100349998 AAATATATCCGGGTTAAATCCCACAGGCTTTGTGCTGGTA
1 AAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
* *
100350038 AATTATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTA
1 AAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
* *
100350078 AATTATATCAGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
1 AAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
100350118 AAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
1 AAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
100350158 AAATATATCCGGGTTA
1 AAATATATCCGGGTTA
100350174 TAAACCTAGT
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
AAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
Found at i:100355263 original size:2 final size:2
Alignment explanation
Indices: 100355250--100355311 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
100355240 CACTAAGTGT
* *
100355250 CA CA CT CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
100355292 CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA
100355312 TATATATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:100355316 original size:2 final size:2
Alignment explanation
Indices: 100355311--100355338 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
100355301 ACACACACAC
100355311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100355339 CGCCGAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100357885 original size:8 final size:8
Alignment explanation
Indices: 100357874--100357898 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100357864 TTTAATAAGA
100357874 TATTTTAT
1 TATTTTAT
100357882 TATTTTAT
1 TATTTTAT
100357890 TATTTTAT
1 TATTTTAT
100357898 T
1 T
100357899 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:100361447 original size:52 final size:52
Alignment explanation
Indices: 100361328--100361483 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 52
100361318 ATTACATATC
* * * * *
100361328 ATACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACGTTATCACATT
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAAGCAC-ATATCACATT
* *
100361381 ACACTGATGCCATAGCCCAGCTATGGTCTTATAATGGAA-CACATATCACATT
1 ATACCGATGCCATAGCCCAGCTATGGTCTTAT-ATGGAAGCACATATCACATT
* * *
100361433 GTACCAATGCCATAGCCCAACTATGGTCTTATATGGAAGCACATATCACAT
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAAGCACATATCACAT
100361484 CTTTTCCGTC
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 6 0.07
52 48 0.53
53 31 0.34
54 5 0.06
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (52 bp):
ATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAAGCACATATCACATT
Found at i:100363234 original size:128 final size:128
Alignment explanation
Indices: 100363006--100363263 Score: 498
Period size: 128 Copynumber: 2.0 Consensus size: 128
100362996 TCAAACATAC
*
100363006 AAATTCTCTTTCATAGCCTGTCACAGTCATTCGACCCTACTTCAACTCTAGAAACTCTTTATGTT
1 AAATTCTCTTTCATAGCCTATCACAGTCATTCGACCCTACTTCAACTCTAGAAACTCTTTATGTT
100363071 TCTGATGGAGAAATCTTAGGCTTATGTACTTCATTCCAAATTCGATTAAAAGAACTCCCAGCT
66 TCTGATGGAGAAATCTTAGGCTTATGTACTTCATTCCAAATTCGATTAAAAGAACTCCCAGCT
*
100363134 AAATTCTCTTTCATAGCCTATCATAGTCATTCGACCCTACTTCAACTCTAGAAACTCTTTATGTT
1 AAATTCTCTTTCATAGCCTATCACAGTCATTCGACCCTACTTCAACTCTAGAAACTCTTTATGTT
100363199 TCTGATGGAGAAATCTTAGGCTTATGTACTTCATTCCAAATTCGATTAAAAGAACTCCCAGCT
66 TCTGATGGAGAAATCTTAGGCTTATGTACTTCATTCCAAATTCGATTAAAAGAACTCCCAGCT
100363262 AA
1 AA
100363264 CTCATTCTTT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (128 bp):
AAATTCTCTTTCATAGCCTATCACAGTCATTCGACCCTACTTCAACTCTAGAAACTCTTTATGTT
TCTGATGGAGAAATCTTAGGCTTATGTACTTCATTCCAAATTCGATTAAAAGAACTCCCAGCT
Found at i:100365353 original size:41 final size:40
Alignment explanation
Indices: 100365242--100365423 Score: 136
Period size: 41 Copynumber: 4.4 Consensus size: 40
100365232 TCGATATCTT
* * * * *
100365242 GCACACTAAGTGCCAAAGCATAGCTGAAGTTAT-TATAATCTC
1 GCACACTAAGTGCCACA-TATAACTGAAGCTATCTCTAA--TC
** * * **
100365284 GCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTCGTTCTC
1 GCACACTAAGTGCCACAT-ATAACTGAAGCTATCTC-TAATC
100365325 GCACACTAAGTGCCACATATAACTGAAGCTAT-TCTGAATC
1 GCACACTAAGTGCCACATATAACTGAAGCTATCTCT-AATC
* *
100365365 ACACACTAAGTGCCACATATATCTAGCTGAAGCTATCTCAAATC
1 GCACACTAAGTGCCACATATA---A-CTGAAGCTATCTCTAATC
100365409 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
100365424 AACATAGTCA
Statistics
Matches: 113, Mismatches: 17, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 24 0.21
41 40 0.35
42 16 0.14
43 2 0.02
44 28 0.25
45 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
GCACACTAAGTGCCACATATAACTGAAGCTATCTCTAATC
Found at i:100365414 original size:44 final size:40
Alignment explanation
Indices: 100365323--100365423 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 40
100365313 TATCTCGTTC
*
100365323 TCGCACACTAAGTGCCACATATAACTGAAGCTATTCTGAA
1 TCGCACACTAAGTGCCACATATAACTGAAGCTATTCTAAA
*
100365363 TCACACACTAAGTGCCACATATATCTAGCTGAAGCTA-TCTCAAA
1 TCGCACACTAAGTGCCACATATA---A-CTGAAGCTATTCT-AAA
100365407 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
100365424 AACATAGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 22 0.42
43 4 0.08
44 27 0.51
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCACATATAACTGAAGCTATTCTAAA
Done.