Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 118 of 349
Found at i:37535036 original size:48 final size:48
Alignment explanation
Indices: 37534936--37535047 Score: 111
Period size: 48 Copynumber: 2.3 Consensus size: 48
37534926 GACACTTTGT
* * **
37534936 AAGACCGTATCAGGGATATGAAATTGGCATCGAAATGAGATCCCATGT
1 AAGACCATATCTGGGATATGAAATTGGCATCGAAATGAGATCCCATAC
* * *
37534984 AAGACCATATCTGGGATATTG-CATTGGCATCGATAA-GAGGTCCCGTAC
1 AAGACCATATCTGGGATA-TGAAATTGGCATCGA-AATGAGATCCCATAC
* *
37535032 AAGACGATGTCTGGGA
1 AAGACCATATCTGGGA
37535048 CATGGCATCA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
48 49 0.92
49 4 0.08
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (48 bp):
AAGACCATATCTGGGATATGAAATTGGCATCGAAATGAGATCCCATAC
Found at i:37537593 original size:16 final size:15
Alignment explanation
Indices: 37537566--37537599 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
37537556 AGAACTAGAA
*
37537566 TATAATTATATTTAT
1 TATAATTATATTAAT
37537581 TATAATATATATTAAT
1 TATAAT-TATATTAAT
37537597 TAT
1 TAT
37537600 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:37540643 original size:15 final size:15
Alignment explanation
Indices: 37540625--37540660 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
37540615 AAATGCTTAT
37540625 GAAAAAAAAAAGAAA
1 GAAAAAAAAAAGAAA
*
37540640 GAAAAGAAAAAGAAA
1 GAAAAAAAAAAGAAA
37540655 -AAAAAA
1 GAAAAAA
37540661 GAGAAGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAGAAA
Found at i:37547844 original size:12 final size:12
Alignment explanation
Indices: 37547827--37547854 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37547817 AAAGTTATTT
37547827 CAAATCATTTTA
1 CAAATCATTTTA
37547839 CAAATCATTTTA
1 CAAATCATTTTA
37547851 CAAA
1 CAAA
37547855 AACCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (12 bp):
CAAATCATTTTA
Found at i:37548617 original size:40 final size:40
Alignment explanation
Indices: 37548570--37548646 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
37548560 ACACACCATG
* *
37548570 TGGGGATAAAATCGACCCA-CCTAGCCCTACACACCAAGTA
1 TGGGGATAAAATCAACCCATCC-AACCCTACACACCAAGTA
*
37548610 TGGGGATAAAATCAACCTATCCAACCCTACACACCAA
1 TGGGGATAAAATCAACCCATCCAACCCTACACACCAA
37548647 ATGGTACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:37549122 original size:17 final size:17
Alignment explanation
Indices: 37549100--37549133 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37549090 ATGTGGTTCA
37549100 CCTGTGTGGCCCACACG
1 CCTGTGTGGCCCACACG
37549117 CCTGTGTGGCCCACACG
1 CCTGTGTGGCCCACACG
37549134 GCCCAATTAG
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:0.12, C:0.41, G:0.29, T:0.18
Consensus pattern (17 bp):
CCTGTGTGGCCCACACG
Found at i:37561625 original size:28 final size:28
Alignment explanation
Indices: 37561585--37561665 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
37561575 TGGGAAGTAG
* *
37561585 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* *
37561613 TTGGGCCTAATGGGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* *
37561641 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
37561666 AAGTGTGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 32 0.73
29 12 0.27
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGAGA
Found at i:37562022 original size:26 final size:27
Alignment explanation
Indices: 37561964--37562044 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
37561954 AAATAAAGAA
* *
37561964 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTG
*
37561991 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTG
* *
37562017 AAATTATCGAAATACCCTCAATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTG
37562044 A
1 A
37562045 TAAACCATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTG
Found at i:37571576 original size:27 final size:27
Alignment explanation
Indices: 37571544--37571703 Score: 230
Period size: 27 Copynumber: 5.9 Consensus size: 27
37571534 CACGCGATCA
* *
37571544 ATTTGTAAAATTATTGAAATACCCCCG
1 ATTTGTAAAATTATCGAAATACCCTCG
* *
37571571 ATTTGTAAAATTATCAAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTCG
* *
37571598 ATTTGTAAAATTACCGAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTCG
*
37571625 ATTTGTAAAATTATCGAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTCG
* * *
37571652 ATTTGTAAAATTACCAAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTCG
37571679 ATTTGTAAAATTATCGAAATACCCT
1 ATTTGTAAAATTATCGAAATACCCT
37571704 TATAGTGTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAATACCCTCG
Found at i:37571603 original size:54 final size:54
Alignment explanation
Indices: 37571541--37571729 Score: 245
Period size: 54 Copynumber: 3.5 Consensus size: 54
37571531 AATCACGCGA
** * * *
37571541 TCAATTTGTAAAATTATTGAAATACCCCCGATTTGTAAAATTATCAAAACACCC
1 TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
* *
37571595 TCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCC
1 TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
* *
37571649 TCAATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAAATACCC
1 TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
* * * *
37571703 T-TATAGTGTAAAATGACCGACATACCC
1 TCAAT-TTGTAAAATTACCGAAATACCC
37571730 CTGTAGGGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.02
54 116 0.98
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
Found at i:37571713 original size:81 final size:81
Alignment explanation
Indices: 37571547--37571730 Score: 235
Period size: 81 Copynumber: 2.3 Consensus size: 81
37571537 GCGATCAATT
* * * *
37571547 TGTAAAATTATTGAAATACCCCCGATTTGTAAAATTATCAAAACACCCTCGATTTGTAAAATTAC
1 TGTAAAATTATCGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTCAATTTGTAAAATTAC
*
37571612 CGAAACACCCTCGATT
66 CGAAACACCCTCGATG
* * *
37571628 TGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTAT
1 TGTAAAATTATCGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTCAATTTGTAAAATTAC
* *
37571693 CGAAATACCCT-TATAG
66 CGAAACACCCTCGAT-G
* * *
37571709 TGTAAAATGACCGACATACCCC
1 TGTAAAATTATCGAAATACCCC
37571731 TGTAGGGTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.02
81 86 0.98
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
TGTAAAATTATCGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTCAATTTGTAAAATTAC
CGAAACACCCTCGATG
Found at i:37571727 original size:27 final size:27
Alignment explanation
Indices: 37571601--37571745 Score: 80
Period size: 27 Copynumber: 5.4 Consensus size: 27
37571591 ACCCTCGATT
* * * *
37571601 TGTAAAATTACCGAAACACCCTCGAT-T
1 TGTAAAATGACCGAAATACCC-CTATAG
* * * *
37571628 TGTAAAATTATCGAAATACCCTCAAT-T
1 TGTAAAATGACCGAAATACCC-CTATAG
* * * *
37571655 TGTAAAATTACCAAAATACCCTCAAT-T
1 TGTAAAATGACCGAAATACCC-CTATAG
* * *
37571682 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCCTATAG
* *
37571709 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCCTATAG
*
37571736 GGTAAAATGA
1 TGTAAAATGA
37571746 TTATTTTGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.02
27 99 0.98
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTATAG
Found at i:37573551 original size:13 final size:13
Alignment explanation
Indices: 37573530--37573572 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
37573520 TCAAGATAGA
37573530 AATTCTATAATTC
1 AATTCTATAATTC
*
37573543 AATTTTATAATTC
1 AATTCTATAATTC
37573556 TATAATTCTATAATTC
1 ---AATTCTATAATTC
37573572 A
1 A
37573573 TAATTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTCTATAATTC
Found at i:37573554 original size:8 final size:8
Alignment explanation
Indices: 37573530--37573584 Score: 64
Period size: 8 Copynumber: 7.2 Consensus size: 8
37573520 TCAAGATAGA
37573530 AATTCTAT
1 AATTCTAT
37573538 AATTC---
1 AATTCTAT
*
37573543 AATTTTAT
1 AATTCTAT
37573551 AATTCTAT
1 AATTCTAT
37573559 AATTCTAT
1 AATTCTAT
37573567 AATTC-AT
1 AATTCTAT
37573574 AATTCATAT
1 AATTC-TAT
37573583 AA
1 AA
37573585 CCACTAGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.10
7 7 0.17
8 25 0.62
9 4 0.10
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (8 bp):
AATTCTAT
Found at i:37581314 original size:24 final size:25
Alignment explanation
Indices: 37581286--37581341 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
37581276 CTAAAACTGT
37581286 AAGCTCCA-AAGAGCTG-AACGGTAA
1 AAGCT-CATAAGAGCTGAAACGGTAA
*
37581310 AAGCTCATTAGAGCTGAAACGGT--
1 AAGCTCATAAGAGCTGAAACGGTAA
37581333 AAGCTCATA
1 AAGCTCATA
37581342 CAAGCTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (25 bp):
AAGCTCATAAGAGCTGAAACGGTAA
Found at i:37581340 original size:23 final size:23
Alignment explanation
Indices: 37581217--37581340 Score: 87
Period size: 23 Copynumber: 5.4 Consensus size: 23
37581207 TGATAAACAA
37581217 TAAGCTCAATT-GAGCTG-AACGG
1 TAAGCTC-ATTAGAGCTGAAACGG
** *
37581239 TAAGCTCCGTAGAGCTGAAACAG
1 TAAGCTCATTAGAGCTGAAACGG
* * * * *
37581262 TAAGCCCCTAAG-GACTAAAACTG
1 TAAGCTCATTAGAG-CTGAAACGG
*
37581285 TAAGCTCCA-AAGAGCTG-AACGG
1 TAAGCT-CATTAGAGCTGAAACGG
37581307 TAAAAGCTCATTAGAGCTGAAACGG
1 T--AAGCTCATTAGAGCTGAAACGG
37581332 TAAGCTCAT
1 TAAGCTCAT
37581341 ACAAGCTTTG
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
21 1 0.01
22 19 0.24
23 40 0.50
24 14 0.17
25 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
TAAGCTCATTAGAGCTGAAACGG
Found at i:37583816 original size:15 final size:17
Alignment explanation
Indices: 37583798--37583829 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
37583788 TAGCCTAATT
37583798 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
37583813 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
37583830 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:37599284 original size:40 final size:43
Alignment explanation
Indices: 37599228--37599326 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 43
37599218 CAATAGTATT
*
37599228 TGGCACTAAGTGTGCGAT-TTAAGATAGCTTCGGTT-A-TATGA
1 TGGCACTAAGTGTGCGATACTAAGATAGCTTCGGTTAATTA-GA
*
37599269 -GGCACTAAGTGTGCGATACTGAGATAGCTTCGGTTAATTGAGA
1 TGGCACTAAGTGTGCGATACTAAGATAGCTTCGGTTAATT-AGA
37599312 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
37599327 TTATTATAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
40 17 0.33
41 15 0.29
42 1 0.02
43 3 0.06
44 15 0.29
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACTAAGATAGCTTCGGTTAATTAGA
Found at i:37604812 original size:75 final size:75
Alignment explanation
Indices: 37604718--37604880 Score: 281
Period size: 75 Copynumber: 2.2 Consensus size: 75
37604708 ACAGCCTAGT
* *
37604718 ACACAGGTGTGTGACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGCTACA
1 ACACAGGCGTGTGACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAAAGCTACA
*
37604783 TAAGTTAGGG
66 TAAGTTAAGG
* *
37604793 ACACGGGCGTGTGACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAAAGTTACA
1 ACACAGGCGTGTGACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAAAGCTACA
37604858 TAAGTTAAGG
66 TAAGTTAAGG
37604868 ACACAGGCGTGTG
1 ACACAGGCGTGTG
37604881 TAACCACACG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (75 bp):
ACACAGGCGTGTGACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAAAGCTACA
TAAGTTAAGG
Found at i:37606443 original size:26 final size:25
Alignment explanation
Indices: 37606414--37606470 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
37606404 AAAAATGTTG
*
37606414 TACCATACATCATTTCTTGACCTTTT
1 TACCA-ACATCATTTATTGACCTTTT
*
37606440 TACCCCAATATCATTTATTGACCTTTT
1 TA--CCAACATCATTTATTGACCTTTT
37606467 TACC
1 TACC
37606471 CCAATAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 20 0.74
28 3 0.11
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.44
Consensus pattern (25 bp):
TACCAACATCATTTATTGACCTTTT
Found at i:37606452 original size:27 final size:27
Alignment explanation
Indices: 37606422--37606476 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
37606412 TGTACCATAC
*
37606422 ATCATTTCTTGACCTTTTTACCCCAAT
1 ATCATTTATTGACCTTTTTACCCCAAT
37606449 ATCATTTATTGACCTTTTTACCCCAAT
1 ATCATTTATTGACCTTTTTACCCCAAT
37606476 A
1 A
37606477 ATCCAAAAAA
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:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (27 bp):
ATCATTTATTGACCTTTTTACCCCAAT
Found at i:37611688 original size:20 final size:21
Alignment explanation
Indices: 37611643--37611688 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
37611633 GGCGCGACTC
*
37611643 TTTTTTTATATTAAAATATAT
1 TTTTTTTATAATAAAATATAT
*
37611664 ATTTTTTA-AATAAAATAT-T
1 TTTTTTTATAATAAAATATAT
37611683 TTTTTT
1 TTTTTT
37611689 CTATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTTATAATAAAATATAT
Found at i:37612320 original size:21 final size:21
Alignment explanation
Indices: 37612283--37612322 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37612273 TGAGAAATAC
*
37612283 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
37612304 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
37612323 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:37612445 original size:13 final size:15
Alignment explanation
Indices: 37612434--37612463 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37612424 TGTATTTTTT
37612434 TAATGTAATTTTTATA
1 TAATGTAA-TTTTATA
37612450 TAATGTAATTTTAT
1 TAATGTAATTTTAT
37612464 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TAATGTAATTTTATA
Found at i:37612689 original size:19 final size:21
Alignment explanation
Indices: 37612664--37612710 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 21
37612654 CAATTCAAAA
37612664 ATAAAAAATA-ATATTTT-AT
1 ATAAAAAATATATATTTTAAT
*
37612683 -TTAAAAATATATATTTTAAT
1 ATAAAAAATATATATTTTAAT
37612703 ATAAAAAA
1 ATAAAAAA
37612711 AAGTCCCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 2 0.09
21 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAAATATATATTTTAAT
Found at i:37612707 original size:20 final size:19
Alignment explanation
Indices: 37612663--37612709 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
37612653 CCAATTCAAA
37612663 AATA-AAAAATAATATTTT
1 AATATAAAAATAATATTTT
*
37612681 -ATTTAAAAATATATATTTT
1 AATATAAAAATA-ATATTTT
37612700 AATATAAAAA
1 AATATAAAAA
37612710 AAAGTCCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 7 0.29
19 7 0.29
20 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATAAAAATAATATTTT
Found at i:37614352 original size:232 final size:232
Alignment explanation
Indices: 37613943--37614413 Score: 865
Period size: 232 Copynumber: 2.0 Consensus size: 232
37613933 AATACTCGGA
37613943 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
1 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
*
37614008 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCGTTGATGAGATTGCAAATTCTTA
66 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
* *
37614073 TAATCTTCTAAGACTAAGAAACGCCAATGAATTTGTTTGTCTTTGATT-CTACAGATGATTAGTT
131 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCT-CAGATGATTAGTT
*
37614137 GTGAATATATGTATCTGGAATTGCCTTCCATTGAATGG
195 GTGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
37614175 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
1 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
* *
37614240 AAGGTAGTTTAGATGTTTTACATCATTTCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
66 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
37614305 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
131 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
37614370 TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
196 TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
37614407 AC-ATTTA
1 ACAATTTA
37614414 GCATGGATGG
Statistics
Matches: 232, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
231 5 0.02
232 225 0.97
233 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (232 bp):
ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
Found at i:37615876 original size:66 final size:68
Alignment explanation
Indices: 37615799--37615930 Score: 214
Period size: 68 Copynumber: 2.0 Consensus size: 68
37615789 CAAGAGACAC
* * *
37615799 AGGATAAAATCCTAAATGTTTATTATGC-T-TTGTCTTTATATGTTTTGAATATTCCATTTTAAC
1 AGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTAAC
37615862 TAT
66 TAT
*
37615865 AGGATAAAATCCTAAATGTTTCTTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTAAC
1 AGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTAAC
37615930 T
66 T
37615931 TTATCTTCTC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 26 0.43
67 1 0.02
68 33 0.55
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (68 bp):
AGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTAAC
TAT
Found at i:37616456 original size:19 final size:19
Alignment explanation
Indices: 37616409--37616456 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
37616399 GTATATATTT
**
37616409 TAAA-TTTATTTAGTTAGA
1 TAAATTTTATTTAGAAAGA
*
37616427 TAAATTGTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
*
37616446 TAAGTTTTATT
1 TAAATTTTATT
37616457 CATATTCTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:37620293 original size:19 final size:19
Alignment explanation
Indices: 37620246--37620294 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
37620236 GTATATATTT
**
37620246 TAAATTTTATTTAGTTAGA
1 TAAATTTTATTTAGAAAGA
*
37620265 TAAATCTTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
*
37620284 TAAGTTTTATT
1 TAAATTTTATT
37620295 CATAGTCTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:37632971 original size:28 final size:28
Alignment explanation
Indices: 37632939--37633053 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
37632929 TACCTGTATC
* *
37632939 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
37632967 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
37632996 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* *
37633025 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
37633053 T
1 T
37633054 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:37632991 original size:57 final size:58
Alignment explanation
Indices: 37632930--37633040 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
37632920 AAATTCACAT
* * *
37632930 ACCTGTATCTGGCCCATTAAGCC-CAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCTAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
37632987 ACCTGTATATGGCCCATTAGGCCTAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCTAAATCACATTCATATGGCCCATTAGGCCCA
37633041 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCTAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:37649193 original size:42 final size:42
Alignment explanation
Indices: 37649134--37649235 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
37649124 TGTGGATTCT
* * **
37649134 CCACATCTCATGTGAGCAGCATCATGTAGTTTACATTTTGAC
1 CCACAACTCGTGTGAGCAGCATCATGTAGTTTACATTCCGAC
* *
37649176 CCACAACTTGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
1 CCACAACTCGTGTGAGCAGCATCATGTAGTTTACATTCCGAC
*
37649218 CCACAACTCGTGTAAGCA
1 CCACAACTCGTGTGAGCA
37649236 AGCCCATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (42 bp):
CCACAACTCGTGTGAGCAGCATCATGTAGTTTACATTCCGAC
Found at i:37650579 original size:25 final size:25
Alignment explanation
Indices: 37650553--37650648 Score: 122
Period size: 25 Copynumber: 3.9 Consensus size: 25
37650543 CAGCTCTTAT
* * * *
37650553 GAGCTTCCCGATATTTAGCTCGCAT
1 GAGCTTCCCGTTATTCAGCTCGAAG
37650578 GAGCTTCCCGTTATTCAGCTCGAAG
1 GAGCTTCCCGTTATTCAGCTCGAAG
* *
37650603 GAGCTTCCTGTTATTCAGCTCGGAG
1 GAGCTTCCCGTTATTCAGCTCGAAG
*
37650628 GAGCTTCCCGTT-TGCAGCTCG
1 GAGCTTCCCGTTATTCAGCTCG
37650649 TATGAGCATA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 8 0.13
25 55 0.87
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGTTATTCAGCTCGAAG
Found at i:37657631 original size:25 final size:25
Alignment explanation
Indices: 37657570--37657631 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
37657560 CACAACTCTT
* * *
37657570 ATGAGCTTCCCAATATTTAGCTCAT
1 ATGAGCTTCCCGATACTTAGCTCAC
37657595 ATGAGCTTCCCGATACTTAGCT-AGC
1 ATGAGCTTCCCGATACTTAGCTCA-C
37657620 ATGAGCTTCCCG
1 ATGAGCTTCCCG
37657632 TTATTCAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGATACTTAGCTCAC
Found at i:37657650 original size:25 final size:25
Alignment explanation
Indices: 37657597--37657653 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
37657587 TAGCTCATAT
*
37657597 GAGCTTCCCGATACTTAGCTAGCAT
1 GAGCTTCCCGATACTTAGCTAGCAG
*
37657622 GAGCTTCCCGTTA-TTCAGCTTAG-AG
1 GAGCTTCCCGATACTT-AGC-TAGCAG
37657647 GAGCTTC
1 GAGCTTC
37657654 TAGTTTACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 23 0.82
26 3 0.11
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATACTTAGCTAGCAG
Found at i:37658308 original size:22 final size:23
Alignment explanation
Indices: 37658273--37658319 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
37658263 GGCTTCAATA
*
37658273 TTCAAATTGGTACTTGAGT-TTT
1 TTCAAATTGATACTTGAGTATTT
*
37658295 TTCAATTTGATACTTGAGTATTT
1 TTCAAATTGATACTTGAGTATTT
37658318 TT
1 TT
37658320 TGTTCCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (23 bp):
TTCAAATTGATACTTGAGTATTT
Found at i:37659382 original size:3 final size:3
Alignment explanation
Indices: 37659376--37659428 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
37659366 CACTCTTGCC
* * *
37659376 TCT TCT TCT TCT TCT TCT TCT TCT AT-A TCT TCT TCT TGT TCT TCA
1 TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT
37659421 TCT TCT TC
1 TCT TCT TC
37659429 CTGTTCTTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:37659433 original size:18 final size:18
Alignment explanation
Indices: 37659378--37659437 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
37659368 CTCTTGCCTC
* *
37659378 TTCTTCTTCTTCTTCTTC
1 TTCTTCATCTTCTTCTTG
37659396 TTCTAT-ATCTTCTTCTTG
1 TTCT-TCATCTTCTTCTTG
*
37659414 TTCTTCATCTTCTTCCTG
1 TTCTTCATCTTCTTCTTG
37659432 TTCTTC
1 TTCTTC
37659438 CTCTCCCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 35 0.95
19 1 0.03
ACGTcount: A:0.05, C:0.30, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTTCATCTTCTTCTTG
Found at i:37659873 original size:84 final size:85
Alignment explanation
Indices: 37659779--37659941 Score: 240
Period size: 84 Copynumber: 1.9 Consensus size: 85
37659769 ATCTGCTTCT
* * * *
37659779 GTTTTACTGTCTTAGAATAATTTTGTTTGGTCCGC-CAAAATAAGACCTGTCCATTAATGTTATA
1 GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCTC-AAATAAAACCTGTACATTAATGTTATA
37659843 GAACTAAG-TCAAATGCTTTA
65 GAACTAAGCTCAAATGCTTTA
* * *
37659863 GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCTCAAGTAAAACCTTTACATTAATGTTTTAG
1 GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCTCAAATAAAACCTGTACATTAATGTTATAG
37659928 AACTAAGCTCAAAT
66 AACTAAGCTCAAAT
37659942 ACTTGGAGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 63 0.90
85 7 0.10
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (85 bp):
GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCTCAAATAAAACCTGTACATTAATGTTATAG
AACTAAGCTCAAATGCTTTA
Found at i:37668089 original size:16 final size:17
Alignment explanation
Indices: 37668054--37668087 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
37668044 TATATAAATA
37668054 TAAAAAAATTAATAATT
1 TAAAAAAATTAATAATT
37668071 TAAAAAACA-TAATAATT
1 TAAAAAA-ATTAATAATT
37668088 AATTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAAATTAATAATT
Found at i:37668275 original size:7 final size:7
Alignment explanation
Indices: 37668265--37668301 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
37668255 AGGATTGAGG
37668265 ATTGAAA
1 ATTGAAA
37668272 ATTGAAA
1 ATTGAAA
37668279 ATTGAAA
1 ATTGAAA
*
37668286 ATTGAAG
1 ATTGAAA
37668293 ATTGAAA
1 ATTGAAA
37668300 AT
1 AT
37668302 ATAGGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (7 bp):
ATTGAAA
Found at i:37668275 original size:14 final size:14
Alignment explanation
Indices: 37668258--37668301 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
37668248 ATAATTGAGG
*
37668258 ATTGAGGATTGAAA
1 ATTGAAGATTGAAA
*
37668272 ATTGAAAATTGAAA
1 ATTGAAGATTGAAA
37668286 ATTGAAGATTGAAA
1 ATTGAAGATTGAAA
37668300 AT
1 AT
37668302 ATAGGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (14 bp):
ATTGAAGATTGAAA
Found at i:37670571 original size:19 final size:19
Alignment explanation
Indices: 37670547--37670589 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
37670537 ATATTTTTCC
37670547 ATAAAAATGATTAAATATT
1 ATAAAAATGATTAAATATT
*
37670566 ATAAAAATTATTAAATATT
1 ATAAAAATGATTAAATATT
37670585 A-AAAA
1 ATAAAA
37670590 TACTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATGATTAAATATT
Found at i:37676156 original size:16 final size:16
Alignment explanation
Indices: 37676137--37676167 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37676127 CTTCTTCACT
37676137 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
37676153 TACTTACTTACTTAA
1 TACTCACTTACTTAA
37676168 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:37676173 original size:20 final size:20
Alignment explanation
Indices: 37676134--37676173 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37676124 AAACTTCTTC
* *
37676134 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
37676154 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
37676174 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:37676549 original size:55 final size:53
Alignment explanation
Indices: 37676359--37676613 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 53
37676349 ACACGGGTAC
* * ** *
37676359 CTTACCATTGCCATGACTTTTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
37676408 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
37676461 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATC-CTTGCCTTAT-G-AA
* *
37676516 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
37676569 CCTTACCAATTGTCAT-CCTTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTC-TTGACATGGTCTTACATGGGATCCTT
37676614 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 1 0.01
53 48 0.28
54 11 0.06
55 73 0.42
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:37676550 original size:108 final size:110
Alignment explanation
Indices: 37676406--37676606 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
37676396 ATCCTTTTGA
*
37676406 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
37676469 -TGCCATGCC-TTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
65 TTGCCAT-CCTTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
* * *
37676514 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
*
37676579 TGTCATCCTTTGGCATGGTCTTACATGG
66 TGCCATCCTTTGGCATGGTCTTACATGG
37676607 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 1 0.01
108 50 0.60
109 9 0.11
110 24 0.29
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATCCTTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
Found at i:37681059 original size:53 final size:53
Alignment explanation
Indices: 37680966--37681139 Score: 180
Period size: 53 Copynumber: 3.3 Consensus size: 53
37680956 ATGTAAGACC
* * * *
37680966 GACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAA
1 GACATGGCAATGGTAAGTT-C-ATAAGGC-AAGGATACCATGTAAGACCATGACAA
* * * *
37681021 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAA
1 GACATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAA
*
37681074 GACATGGCAATGGTAAGTT--TCAA---AAGGATACCACGTAAGACCATGACAA
1 GACATGGCAATGGTAAGTTCAT-AAGGCAAGGATACCATGTAAGACCATGACAA
*
37681123 GTCATGGCAATGGTAAG
1 GACATGGCAATGGTAAG
37681140 GTACCCGTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
49 40 0.38
51 1 0.01
52 6 0.06
53 42 0.40
54 1 0.01
55 16 0.15
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GACATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAA
Found at i:37682885 original size:20 final size:21
Alignment explanation
Indices: 37682862--37682903 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37682852 TATGTATGAG
37682862 TTTTGAA-GCTTCTTAATAGA
1 TTTTGAATGCTTCTTAATAGA
* *
37682882 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTCTTAATAGA
37682903 T
1 T
37682904 ATACAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (21 bp):
TTTTGAATGCTTCTTAATAGA
Found at i:37688266 original size:10 final size:9
Alignment explanation
Indices: 37688248--37688314 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
37688238 TTTTAGAATT
37688248 TTTTAATAA
1 TTTTAATAA
*
37688257 GTTTATATAA
1 TTTTA-ATAA
37688267 TTTTAATAA
1 TTTTAATAA
37688276 TTTTAAT-A
1 TTTTAATAA
*
37688284 TTTT-CTAA
1 TTTTAATAA
*
37688292 TATTTAATAT
1 T-TTTAATAA
*
37688302 TTTTTATAA
1 TTTTAATAA
37688311 TTTT
1 TTTT
37688315 TCAAATTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
7 1 0.02
8 7 0.15
9 28 0.60
10 11 0.23
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:37688297 original size:17 final size:16
Alignment explanation
Indices: 37688273--37688304 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37688263 ATAATTTTAA
37688273 TAATTTTAATATTTTC
1 TAATTTTAATATTTTC
37688289 TAATATTTAATATTTT
1 TAAT-TTTAATATTTT
37688305 TTATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTAATATTTTC
Found at i:37688311 original size:19 final size:18
Alignment explanation
Indices: 37688208--37688334 Score: 73
Period size: 19 Copynumber: 6.8 Consensus size: 18
37688198 TCTAATTAGT
*
37688208 TTTTTTTTAATTTTAAATA
1 TTTTTTATAATTTT-AATA
** *
37688227 AGTTTTATTAGTTTTAGA-A
1 TTTTTTA-TAATTTTA-ATA
*
37688246 TTTTTTAATAAGTTTATATA
1 TTTTTT-ATAATTTTA-ATA
* *
37688266 ATTTTAATAATTTTAATA
1 TTTTTTATAATTTTAATA
*
37688284 --TTTTCTAATATTTAATA
1 TTTTTTATAAT-TTTAATA
37688301 TTTTTTATAATTTTTCAA-A
1 TTTTTTATAA-TTTT-AATA
37688320 TTGTTTTATAATTTT
1 TT-TTTTATAATTTT
37688335 TTTATAATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
16 7 0.08
17 7 0.08
18 3 0.04
19 42 0.51
20 24 0.29
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTTTATAATTTTAATA
Found at i:37688315 original size:10 final size:10
Alignment explanation
Indices: 37688238--37688347 Score: 63
Period size: 10 Copynumber: 11.4 Consensus size: 10
37688228 GTTTTATTAG
*
37688238 TTTTAGAATT
1 TTTTATAATT
*
37688248 TTTTAATAAGT
1 TTTT-ATAATT
*
37688259 TTATATAA-T
1 TTTTATAATT
*
37688268 TTTAATAA--
1 TTTTATAATT
*
37688276 -TTT-TAATA
1 TTTTATAATT
* *
37688284 TTTTCTAATA
1 TTTTATAATT
*
37688294 TTTAAT-ATT
1 TTTTATAATT
37688303 TTTTATAATT
1 TTTTATAATT
*
37688313 TTTCA-AATT
1 TTTTATAATT
37688322 GTTTTATAATTT
1 -TTTTATAA-TT
37688334 TTTTATAATT
1 TTTTATAATT
37688344 TTTT
1 TTTT
37688348 TTATAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
6 3 0.04
7 2 0.03
9 21 0.27
10 34 0.43
11 17 0.22
12 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:37688345 original size:9 final size:9
Alignment explanation
Indices: 37688209--37688346 Score: 57
Period size: 9 Copynumber: 14.6 Consensus size: 9
37688199 CTAATTAGTT
*
37688209 TTTTTTTAA
1 TTTTTATAA
*
37688218 TTTTAAATAA
1 TTTT-TATAA
* *
37688228 GTTTTATTA
1 TTTTTATAA
* *
37688237 GTTTTAGAA
1 TTTTTATAA
37688246 TTTTTTAATAA
1 -TTTTT-ATAA
*
37688257 GTTTATATAA
1 -TTTTTATAA
*
37688267 TTTTAATAA
1 TTTTTATAA
*
37688276 TTTTAAT-A
1 TTTTTATAA
*
37688284 -TTTTCTAA
1 TTTTTATAA
* *
37688292 TATTTAATAT
1 T-TTTTATAA
37688302 TTTTTATAA
1 TTTTTATAA
37688311 TTTTTCA-AA
1 TTTTT-ATAA
37688320 TTGTTTTATAA
1 -T-TTTTATAA
37688331 TTTTTTTATAA
1 --TTTTTATAA
37688342 TTTTT
1 TTTTT
37688347 TTTATAAAAA
Statistics
Matches: 98, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 46 0.47
10 23 0.23
11 21 0.21
12 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:37688348 original size:12 final size:11
Alignment explanation
Indices: 37688296--37688353 Score: 66
Period size: 12 Copynumber: 5.3 Consensus size: 11
37688286 TTCTAATATT
37688296 TAATATTTTTTA
1 TAAT-TTTTTTA
*
37688308 TAA-TTTTTCA
1 TAATTTTTTTA
*
37688318 -AATTGTTTTA
1 TAATTTTTTTA
37688328 TAATTTTTTTA
1 TAATTTTTTTA
37688339 TAATTTTTTTTA
1 TAA-TTTTTTTA
37688351 TAA
1 TAA
37688354 AAAAAAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.05
10 11 0.28
11 12 0.31
12 14 0.36
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:37694821 original size:14 final size:14
Alignment explanation
Indices: 37694802--37694835 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37694792 GCATTGGAGG
*
37694802 AATGGGCAAATTGA
1 AATGGGCAAATTAA
*
37694816 AATGGGCATATTAA
1 AATGGGCAAATTAA
37694830 AATGGG
1 AATGGG
37694836 AATTCAAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (14 bp):
AATGGGCAAATTAA
Found at i:37695219 original size:9 final size:9
Alignment explanation
Indices: 37695205--37695280 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
37695195 ATAAGTATAA
37695205 AATTAACCG
1 AATTAACCG
*
37695214 AATTAATCG
1 AATTAACCG
37695223 AATTAACCG
1 AATTAACCG
37695232 AATT-ACTCG
1 AATTAAC-CG
* *
37695241 AATTACCCA
1 AATTAACCG
**
37695250 AATTGCCCG
1 AATTAACCG
* *
37695259 AATTACCCT
1 AATTAACCG
*
37695268 AATTAATCG
1 AATTAACCG
37695277 AATT
1 AATT
37695281 CTTTATATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 2 0.04
9 51 0.94
10 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:37695228 original size:18 final size:18
Alignment explanation
Indices: 37695205--37695280 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 18
37695195 ATAAGTATAA
37695205 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
*
37695223 AATTAACCGAATTACTCG
1 AATTAACCGAATTAATCG
* * ***
37695241 AATTACCCAAATTGCCCG
1 AATTAACCGAATTAATCG
* *
37695259 AATTACCCTAATTAATCG
1 AATTAACCGAATTAATCG
37695277 AATT
1 AATT
37695281 CTTTATATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:37695235 original size:27 final size:27
Alignment explanation
Indices: 37695205--37695280 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
37695195 ATAAGTATAA
37695205 AATTAACCGAATTAATCGAATTAACCG
1 AATTAACCGAATTAATCGAATTAACCG
** * **
37695232 AATT-ACTCGAATTACCCAAATTGCCCG
1 AATTAAC-CGAATTAATCGAATTAACCG
* *
37695259 AATTACCCTAATTAATCGAATT
1 AATTAACCGAATTAATCGAATT
37695281 CTTTATATAA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
26 2 0.05
27 34 0.92
28 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTAACCGAATTAATCGAATTAACCG
Found at i:37695318 original size:12 final size:12
Alignment explanation
Indices: 37695301--37695341 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
37695291 AATTATATGG
37695301 TTTTTAGTTTTA
1 TTTTTAGTTTTA
37695313 TTTTTAGTTTTAGA
1 TTTTTAGTTTT--A
*
37695327 TTTTTATTTTTA
1 TTTTTAGTTTTA
37695339 TTT
1 TTT
37695342 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTAGTTTTA
Found at i:37702094 original size:46 final size:46
Alignment explanation
Indices: 37702019--37702239 Score: 241
Period size: 46 Copynumber: 4.7 Consensus size: 46
37702009 GTAAGGAGCT
* * *
37702019 GATGCCATGTGCCAGACATGGTCTTACACTAACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTAGCC
* * *
37702067 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTA-GCC
* * **
37702113 GATGCATGTCCCAAACATGTCTTACACTAGCTCTTATCTCAAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGCC
* * *
37702159 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGTAGCC
37702207 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
37702240 ACACACAAAT
Statistics
Matches: 149, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.01
46 77 0.52
47 41 0.28
48 28 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGCC
Found at i:37702208 original size:94 final size:92
Alignment explanation
Indices: 37702019--37702239 Score: 275
Period size: 94 Copynumber: 2.4 Consensus size: 92
37702009 GTAAGGAGCT
* * * **
37702019 GATGCCATGTGCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAAACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAAAGCCGATGCATGTCCCAAACA
* *
37702084 TGTCTTACACTGGCTTACGTCTCGAGGCC
64 TGTCTTACACTGGCTTACATATCGAGGCC
* * *
37702113 GATGCATGTCCCAAACATGTCTTACACTAGCTCTTATCTCAAAGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCCGATG-CATGTCCCAAACAT
*
37702178 GGTCTTACACTGGCTCT-CATAAT-GTGGCC
65 -GTCTTACACTGGCT-TACAT-ATCGAGGCC
37702207 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
37702240 ACACACAAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
92 27 0.24
93 25 0.23
94 57 0.51
95 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCCGATGCATGTCCCAAACATG
TCTTACACTGGCTTACATATCGAGGCC
Found at i:37705519 original size:12 final size:12
Alignment explanation
Indices: 37705502--37705527 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37705492 ATTCTCAAGA
37705502 GCTCGCAGAGAT
1 GCTCGCAGAGAT
37705514 GCTCGCAGAGAT
1 GCTCGCAGAGAT
37705526 GC
1 GC
37705528 AGCTTGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.15
Consensus pattern (12 bp):
GCTCGCAGAGAT
Found at i:37706655 original size:21 final size:21
Alignment explanation
Indices: 37706617--37706657 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37706607 CCCAATGTGA
**
37706617 GGATTCTCATTGTTATCATTT
1 GGATTCTCATTGAGATCATTT
*
37706638 GGATTGTCATTGAGATCATT
1 GGATTCTCATTGAGATCATT
37706658 CTTTTTTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (21 bp):
GGATTCTCATTGAGATCATTT
Found at i:37708433 original size:8 final size:8
Alignment explanation
Indices: 37708420--37708447 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
37708410 GGTTTATGAT
37708420 ATGATTTC
1 ATGATTTC
37708428 ATGATTTC
1 ATGATTTC
37708436 ATGATTTC
1 ATGATTTC
37708444 ATGA
1 ATGA
37708448 AAATTTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (8 bp):
ATGATTTC
Found at i:37709748 original size:66 final size:67
Alignment explanation
Indices: 37709619--37709748 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
37709609 GGGATGTATC
*
37709619 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
37709684 AGGACA
62 AGGACA
* *
37709690 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
37709749 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:37714202 original size:43 final size:43
Alignment explanation
Indices: 37714135--37714298 Score: 203
Period size: 42 Copynumber: 3.9 Consensus size: 43
37714125 TAAGATGCCA
* *
37714135 ATGCCATATCCCAGA-TATGGTCTTACATGGGATCACATATCG
1 ATGCCATATCCCAGACTATGGTCTTACACGAGATCACATATCG
* *
37714177 ATGCCGATAACCCA-ACTATGGTCTTACACGATG-TCTCATATCG
1 ATGCC-ATATCCCAGACTATGGTCTTACACGA-GATCACATATCG
* *
37714220 ATGCCATGTCCCAGAC-ATGGTCTTACACGAAATCACATATCG
1 ATGCCATATCCCAGACTATGGTCTTACACGAGATCACATATCG
* *
37714262 ATGCCATATCTCAGA-TATGGTCTTACACGAAATCACA
1 ATGCCATATCCCAGACTATGGTCTTACACGAGATCACA
37714299 CATAACCCTG
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
42 69 0.65
43 36 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCATATCCCAGACTATGGTCTTACACGAGATCACATATCG
Found at i:37714244 original size:85 final size:84
Alignment explanation
Indices: 37714135--37714291 Score: 226
Period size: 85 Copynumber: 1.9 Consensus size: 84
37714125 TAAGATGCCA
* * **
37714135 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCGATAACCCA-ACTATGGT
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCC-ATAACCCAGA-TATGGT
37714199 CTTACACGATGTCTCATATCG
64 CTTACACGATGTCTCATATCG
* * *
37714220 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCATATCTCAGATATGGTCT
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCCATAACCCAGATATGGTCT
37714285 TACACGA
66 TACACGA
37714292 AATCACACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
84 21 0.33
85 43 0.67
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCCATAACCCAGATATGGTCT
TACACGATGTCTCATATCG
Found at i:37716825 original size:21 final size:21
Alignment explanation
Indices: 37716801--37716840 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37716791 CACTTAACAC
37716801 AGGGAAACACGCCCGTGTGGA
1 AGGGAAACACGCCCGTGTGGA
* *
37716822 AGGGTAACATGCCCGTGTG
1 AGGGAAACACGCCCGTGTG
37716841 ACCATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.15
Consensus pattern (21 bp):
AGGGAAACACGCCCGTGTGGA
Found at i:37718111 original size:46 final size:47
Alignment explanation
Indices: 37718029--37718241 Score: 199
Period size: 46 Copynumber: 4.6 Consensus size: 47
37718019 AGTAGATATG
* * *
37718029 ATGTCCCAGACATGGTCTTACACTAAC-TATCATCTCGTA-GCCGGTGC
1 ATGTCCCAGACATGGTCTTACACTAGCTTA-CGTCTCG-AGGCCGATGC
* *
37718076 ATGTCCCAGACAT-ATCTTACACTGGCTTACGTCTCGAGGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGAGGCCGATGC
* * *
37718122 ATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCT-TACGTCTCGAGGCCGATG-C
* * * *
37718169 ATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTAGCT-TACGT-CTCGAGGCCGATGC
*
37718216 ATGTCCCAGACCT-GTCTTACACTAGC
1 ATGTCCCAGACATGGTCTTACACTAGC
37718242 CTACAAACAA
Statistics
Matches: 141, Mismatches: 19, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 73 0.52
47 42 0.30
48 24 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGAGGCCGATGC
Found at i:37725702 original size:47 final size:48
Alignment explanation
Indices: 37725629--37725853 Score: 203
Period size: 47 Copynumber: 4.8 Consensus size: 48
37725619 TGGGTAAGGT
**
37725629 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTTCTCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
* * * * * **
37725676 GTCTATGCCATGTCCCAGACATGGTCTTATACTGACTATCACCT-TGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCACGTCTCAAG
* * * * *
37725724 GCCAAT-TCATGTCCCAGAC-TTGTCTTACACTAGCTTACGTCTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
* * * *
37725770 GACGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
* *
37725816 GCCGATGCCATATCCCAGACATGATCTTACACTGGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
37725854 TCATAATGTG
Statistics
Matches: 142, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
44 4 0.03
45 2 0.01
46 55 0.39
47 58 0.41
48 19 0.13
49 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
Found at i:37725782 original size:46 final size:47
Alignment explanation
Indices: 37725631--37725897 Score: 183
Period size: 47 Copynumber: 5.7 Consensus size: 47
37725621 GGTAAGGTGC
* * *
37725631 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-TTCTCAA-GT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAAGGA
* * * ** ** *
37725678 CTATGCCATGTCCCAGACATGGTCTTATACT-GACTATCACCTTGTA-GC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTC-TCAAGGA
* * *
37725726 CAAT-TCATGTCCCAGACTTGTCTTACACTAGCT-TACGTCTCAAGGA
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAGGA
* *
37725772 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGGA
* * * * ** *
37725818 CGATGCCATATCCCAGACATGATCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCGT-CTCAAGGA
*
37725866 CGATG-AATGTCCCAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC
37725898 CCATAAACAA
Statistics
Matches: 178, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 71 0.40
47 74 0.42
48 29 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGGA
Found at i:37725879 original size:47 final size:45
Alignment explanation
Indices: 37725731--37725897 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
37725721 GTAGCCAATT
* * * *
37725731 CATGTCCCAGACTTGTCTTACACTAGCT-TACGTCTCAAGGACGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CG-ATCAATGCCGATG
*
37725777 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGCCGATG
* *
37725823 CCATATCCCAGACATGATCTTACACTGGCTCTC-AT-AATGTGGCCGATG
1 -CATGTCCCAGACATG-TCTTACACTAGCTCTCGATCAA--T-GCCGATG
*
37725871 AATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
37725898 CCATAAACAA
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
45 2 0.02
46 53 0.50
47 29 0.27
48 22 0.21
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGCCGATG
Found at i:37725889 original size:140 final size:141
Alignment explanation
Indices: 37725631--37725897 Score: 342
Period size: 140 Copynumber: 1.9 Consensus size: 141
37725621 GGTAAGGTGC
* * * * *
37725631 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTTCTCAAGTCTATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGCCGATGCCATATCCCAGAC
* * ** ** *
37725696 ATGGTCTTATACTGACTATCACCTTGTAGCCAATTCATGTCCCAGACTTGTCTTACACTAGCTTA
66 ATGATCTTACACTGACTATCACAATGTAGCCAATGAATGTCCCAGACATGTCTTACACTAGCTTA
37725761 CGTCTCAAGGA
131 CGTCTCAAGGA
37725772 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATATCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-GTCTCAA-GCCGATGCCATATCCCAG
* * * * *
37725834 ACATGATCTTACACTGGCTCTCATAATGTGGCCGATGAATGTCCCAGACATGTCTTACACTAGC
64 ACATGATCTTACACTGACTATCACAATGTAGCCAATGAATGTCCCAGACATGTCTTACACTAGC
37725898 CCATAAACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 81 0.76
141 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGCCGATGCCATATCCCAGAC
ATGATCTTACACTGACTATCACAATGTAGCCAATGAATGTCCCAGACATGTCTTACACTAGCTTA
CGTCTCAAGGA
Found at i:37727477 original size:42 final size:42
Alignment explanation
Indices: 37727429--37727542 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 42
37727419 TCGATGCCTC
* * *
37727429 TGTCCCAGACAGGGTCTTACACGAA-ATCAGATATGATGCC-GA
1 TGTCCCAGACATGGTCTTACACGAATATCA-AT-CGAGGCCTGA
* *
37727471 TGTCCCAGACATGGTCTTATACGTAAATATCAATCGAGGCCTGG
1 TGTCCCAGACATGGTCTTACACG--AATATCAATCGAGGCCTGA
37727515 TGTCCCAGACATGGTCTTACACG-ATATC
1 TGTCCCAGACATGGTCTTACACGAATATC
37727543 TCAGATAGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
41 5 0.08
42 21 0.34
43 5 0.08
44 27 0.44
45 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAATATCAATCGAGGCCTGA
Found at i:37729851 original size:29 final size:29
Alignment explanation
Indices: 37729818--37729909 Score: 134
Period size: 29 Copynumber: 3.2 Consensus size: 29
37729808 TAATAGAATA
37729818 AAATTGATACCTTTATGAAAATAGGCACC
1 AAATTGATACCTTTATGAAAATAGGCACC
* *
37729847 AAATTGATACCTTTATGAAAATTGACACC
1 AAATTGATACCTTTATGAAAATAGGCACC
*
37729876 AAATTGATACC-TTATGAAAATCA-GTACC
1 AAATTGATACCTTTATGAAAAT-AGGCACC
37729904 AAATTG
1 AAATTG
37729910 CTTTATTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 19 0.33
29 38 0.67
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (29 bp):
AAATTGATACCTTTATGAAAATAGGCACC
Found at i:37744525 original size:13 final size:13
Alignment explanation
Indices: 37744507--37744532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37744497 AAAAAAATAC
37744507 AATCTGATTCCTA
1 AATCTGATTCCTA
37744520 AATCTGATTCCTA
1 AATCTGATTCCTA
37744533 TTATATTTTT
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:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AATCTGATTCCTA
Found at i:37747335 original size:201 final size:201
Alignment explanation
Indices: 37746990--37747390 Score: 802
Period size: 201 Copynumber: 2.0 Consensus size: 201
37746980 ATTCTGGTAA
37746990 TCCAGCTTTTCTATATTCGAACAGTTTCTTGCTCCGTATACCAAAGGGGAAAACGTCACCTTTTC
1 TCCAGCTTTTCTATATTCGAACAGTTTCTTGCTCCGTATACCAAAGGGGAAAACGTCACCTTTTC
37747055 CCGTTTCTGGAATCAAATTGCACTTTGCAAGCACATCAGGAACCTTTTTACCATCCCAAGAATCA
66 CCGTTTCTGGAATCAAATTGCACTTTGCAAGCACATCAGGAACCTTTTTACCATCCCAAGAATCA
37747120 ATTTCGAAAGATCTATTTTCCAAGTGCAGAATCCCACTAGCCAATACAGTAGGAATGTACTTTTT
131 ATTTCGAAAGATCTATTTTCCAAGTGCAGAATCCCACTAGCCAATACAGTAGGAATGTACTTTTT
37747185 CAGAGT
196 CAGAGT
37747191 TCCAGCTTTTCTATATTCGAACAGTTTCTTGCTCCGTATACCAAAGGGGAAAACGTCACCTTTTC
1 TCCAGCTTTTCTATATTCGAACAGTTTCTTGCTCCGTATACCAAAGGGGAAAACGTCACCTTTTC
37747256 CCGTTTCTGGAATCAAATTGCACTTTGCAAGCACATCAGGAACCTTTTTACCATCCCAAGAATCA
66 CCGTTTCTGGAATCAAATTGCACTTTGCAAGCACATCAGGAACCTTTTTACCATCCCAAGAATCA
37747321 ATTTCGAAAGATCTATTTTCCAAGTGCAGAATCCCACTAGCCAATACAGTAGGAATGTACTTTTT
131 ATTTCGAAAGATCTATTTTCCAAGTGCAGAATCCCACTAGCCAATACAGTAGGAATGTACTTTTT
37747386 CAGAG
196 CAGAG
37747391 GGGAATCAAC
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (201 bp):
TCCAGCTTTTCTATATTCGAACAGTTTCTTGCTCCGTATACCAAAGGGGAAAACGTCACCTTTTC
CCGTTTCTGGAATCAAATTGCACTTTGCAAGCACATCAGGAACCTTTTTACCATCCCAAGAATCA
ATTTCGAAAGATCTATTTTCCAAGTGCAGAATCCCACTAGCCAATACAGTAGGAATGTACTTTTT
CAGAGT
Found at i:37754231 original size:16 final size:16
Alignment explanation
Indices: 37754210--37754241 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37754200 AGTGTTTGGG
37754210 AGACCAATAATTAATC
1 AGACCAATAATTAATC
37754226 AGACCAATAATTAATC
1 AGACCAATAATTAATC
37754242 CTACAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AGACCAATAATTAATC
Found at i:37755807 original size:27 final size:26
Alignment explanation
Indices: 37755740--37755846 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 26
37755730 AATACTATAT
* *
37755740 ATGTGGAAGTCCGT-AAGGACTATTTGAA
1 ATGTGAAAGTCCGTCAA-GACTATCT--A
*
37755768 ATGTGGAAAGTCCATCAAGACTATCTA
1 ATGT-GAAAGTCCGTCAAGACTATCTA
* * *
37755795 ATGTGAAAGGTCCGCCAAGGCTATCTT
1 ATGTGAAA-GTCCGTCAAGACTATCTA
* *
37755822 TTGTGGAAGTCCGTCAAGACTATCT
1 ATGTGAAAGTCCGTCAAGACTATCT
37755847 TTTATGGAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 19 0.29
27 25 0.38
28 4 0.06
29 15 0.23
30 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (26 bp):
ATGTGAAAGTCCGTCAAGACTATCTA
Found at i:37755844 original size:26 final size:26
Alignment explanation
Indices: 37755769--37755858 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 26
37755759 CTATTTGAAA
* **
37755769 TGTGGAAAGTCCATCAAGACTATCTAA
1 TGTGG-AAGTCCGTCAAGACTATCTTT
* * *
37755796 TGTGAAAGGTCCGCCAAGGCTATCTTT
1 TGTGGAA-GTCCGTCAAGACTATCTTT
37755823 TGTGGAAGTCCGTCAAGACTATCTTT
1 TGTGGAAGTCCGTCAAGACTATCTTT
*
37755849 TATGGAAGTC
1 TGTGGAAGTC
37755859 TGTTAGGACT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 28 0.54
27 24 0.46
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
TGTGGAAGTCCGTCAAGACTATCTTT
Found at i:37755912 original size:27 final size:26
Alignment explanation
Indices: 37755768--37755914 Score: 84
Period size: 27 Copynumber: 5.5 Consensus size: 26
37755758 ACTATTTGAA
* * *
37755768 ATGTGGAAAGTCCATCAAGACTATCTA
1 ATGTGGAAGGT-CGTCAAGACTATCTT
* * *
37755795 ATGTGAAAGGTCCGCCAAGGCTATCTT
1 ATGTGGAAGGT-CGTCAAGACTATCTT
*
37755822 TTGTGGAA-GTCCGTCAAGACTATCTT
1 ATGTGGAAGGT-CGTCAAGACTATCTT
* * * *
37755848 TTATGGAA-GTCTGTTAGGACTAT-TT
1 ATGTGGAAGGTC-GTCAAGACTATCTT
**
37755873 GAAATACGGAAGGTCGATCAAGACTATCTT
1 ---ATGTGGAAGGTCG-TCAAGACTATCTT
37755903 ATGTGGAAGGTC
1 ATGTGGAAGGTC
37755915 TACCAGGACT
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
25 3 0.03
26 34 0.36
27 37 0.39
28 7 0.07
29 11 0.12
30 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (26 bp):
ATGTGGAAGGTCGTCAAGACTATCTT
Found at i:37755924 original size:27 final size:27
Alignment explanation
Indices: 37755880--37755938 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
37755870 TTTGAAATAC
* *
37755880 GGAAGGTCGATCAAGACTATCTTATGT
1 GGAAGGTCGACCAAGACTATCTTATAT
* * *
37755907 GGAAGGTCTACCAGGACTATCTTTTAT
1 GGAAGGTCGACCAAGACTATCTTATAT
37755934 GGAAG
1 GGAAG
37755939 ACCATGAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (27 bp):
GGAAGGTCGACCAAGACTATCTTATAT
Found at i:37755937 original size:108 final size:108
Alignment explanation
Indices: 37755743--37755938 Score: 277
Period size: 108 Copynumber: 1.8 Consensus size: 108
37755733 ACTATATATG
**
37755743 TGGAAGTCCGTAAGGACTATTTGAAATGTGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
1 TGGAAGTCCGTAAGGACTATTTGAAATACGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
* *
37755808 GCCAAGGCTATCTTTTGTGGAAGTCCGTCAAGACTATCTTTTA
66 ACCAAGGCTATCTTTTATGGAAGTCCGTCAAGACTATCTTTTA
* * * * * * *
37755851 TGGAAGTCTGTTAGGACTATTTGAAATACGGAAGGTCGATCAAGACTATCTTATGTGGAAGGTCT
1 TGGAAGTCCGTAAGGACTATTTGAAATACGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
37755916 ACC-AGGACTATCTTTTATGGAAG
66 ACCAAGG-CTATCTTTTATGGAAG
37755939 ACCATGAGGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
107 3 0.04
108 73 0.96
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (108 bp):
TGGAAGTCCGTAAGGACTATTTGAAATACGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
ACCAAGGCTATCTTTTATGGAAGTCCGTCAAGACTATCTTTTA
Found at i:37755961 original size:108 final size:108
Alignment explanation
Indices: 37755743--37755961 Score: 260
Period size: 108 Copynumber: 2.0 Consensus size: 108
37755733 ACTATATATG
**
37755743 TGGAAGTCCGTAAGGACTATTTGAAATGTGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
1 TGGAAGTCCGTAAGGACTATTTGAAATACGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
* * * * **
37755808 GCCAAGGCTATCTTTTGTGGAAGTCCGTCAAGACTATCTTTTA
66 ACCAAGGCTATCTTTTATGGAAGACCATCAAGACTATCTAATA
* * * * * * *
37755851 TGGAAGTCTGTTAGGACTATTTGAAATACGGAAGGTCGATCAAGACTATCTTATGTGGAAGGTCT
1 TGGAAGTCCGTAAGGACTATTTGAAATACGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
* * *
37755916 ACC-AGGACTATCTTTTATGGAAGACCATGAGGATTATCTAATA
66 ACCAAGG-CTATCTTTTATGGAAGACCATCAAGACTATCTAATA
37755959 TGG
1 TGG
37755962 GGAAAGTCCA
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 3 0.03
108 89 0.97
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (108 bp):
TGGAAGTCCGTAAGGACTATTTGAAATACGGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
ACCAAGGCTATCTTTTATGGAAGACCATCAAGACTATCTAATA
Found at i:37760770 original size:22 final size:22
Alignment explanation
Indices: 37760745--37760797 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
37760735 AATCTTGCAG
*
37760745 GCACATAGCCCGAATAACACCA
1 GCACAAAGCCCGAATAACACCA
37760767 GCACAAAGCCCGAATAACACC-
1 GCACAAAGCCCGAATAACACCA
37760788 GACACAAAGC
1 G-CACAAAGC
37760798 TTGCTAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.43, C:0.36, G:0.15, T:0.06
Consensus pattern (22 bp):
GCACAAAGCCCGAATAACACCA
Found at i:37761094 original size:187 final size:187
Alignment explanation
Indices: 37760779--37761132 Score: 512
Period size: 187 Copynumber: 1.9 Consensus size: 187
37760769 ACAAAGCCCG
* *
37760779 AATAACACCGACACAAAGCTTGCTAGGCACAGAGCCCGAATATCACCAGCACAAAGCCTGCTAGG
1 AATAACACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATATCACCAGCACAAAGCCTGCTAGG
* * * * *
37760844 CATAGAGCCCGAATAACACCAGCACAAAGCCTGCTAAGCATAGAGCCCAAATATCACTGGCACAC
66 CACAAAGCCCGAATAACACCAGCACAAAGCCTGCTAAGCACAGAGCCCAAATAACACTGGCACAA
* ** *
37760909 AGCCTGGTAGGCAAAGAGCCTGAATATCACCGGCACAAAACCTACTCATAAAGGCCA
131 ACCCTGCAAGGCAAAGAGCCCGAATATCACCGGCACAAAACCTACTCATAAAGGCCA
* *
37760966 AATAACACCTG-CACAAAGCCTGCTAGGCACAGAGCCCAAATATCACCGGCACATAGCCTGCTAG
1 AATAACACC-GACACAAAGCCTGCTAGGCACAGAGCCCAAATATCACCAGCACAAAGCCTGCTAG
* * * * **
37761030 GCACAAAGCCCTAATATCACCTGCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACTGGCACA
65 GCACAAAGCCCGAATAACACCAGCACAAAGCCTGCTAAGCACAGAGCCCAAATAACACTGGCACA
*
37761095 AACCCTGCAAGGCATAGAGCCCGAATATCACCGGCACA
130 AACCCTGCAAGGCAAAGAGCCCGAATATCACCGGCACA
37761133 CAGCTTGTTA
Statistics
Matches: 146, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
187 145 0.99
188 1 0.01
ACGTcount: A:0.36, C:0.32, G:0.19, T:0.13
Consensus pattern (187 bp):
AATAACACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATATCACCAGCACAAAGCCTGCTAGG
CACAAAGCCCGAATAACACCAGCACAAAGCCTGCTAAGCACAGAGCCCAAATAACACTGGCACAA
ACCCTGCAAGGCAAAGAGCCCGAATATCACCGGCACAAAACCTACTCATAAAGGCCA
Found at i:37761197 original size:38 final size:38
Alignment explanation
Indices: 37760767--37761186 Score: 450
Period size: 38 Copynumber: 11.1 Consensus size: 38
37760757 AATAACACCA
* * * *
37760767 GCACAAAGCCCGAATAACACCGACACAAAGCTTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
*
37760805 GCACAGAGCCCGAATATCACCAGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
37760843 GCATAGAGCCCGAATAACACCAGCACAAAGCCTGCTAA
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * * *
37760881 GCATAGAGCCCAAATATCACTGGCACACAGCCTGGTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
37760919 GCAAAGAGCCTGAATATCACCGGCACAAAACCTACT--
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * * * *
37760955 -CATAAAGGCCAAATAACACCTGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* *
37760992 GCACAGAGCCCAAATATCACCGGCACATAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * *
37761030 GCACAAAGCCCTAATATCACCTGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * * *
37761068 GCACAGAGCCTGAATAACACTGGCACAAACCCTGCAAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
37761106 GCATAGAGCCCGAATATCACCGGCACACAGCTTGTTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* **
37761144 GCATAGAGCCTAAATATCACCGGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
37761182 GCACA
1 GCACA
37761187 TGGCCCAAAT
Statistics
Matches: 314, Mismatches: 65, Indels: 6
0.82 0.17 0.02
Matches are distributed among these distances:
35 26 0.08
38 288 0.92
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.13
Consensus pattern (38 bp):
GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
Found at i:37763545 original size:42 final size:42
Alignment explanation
Indices: 37763448--37763612 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 42
37763438 ATATGTGTTA
* * ** * * *
37763448 TCGTGTAAGATCATGTCTTGGATGTTGGTATTGATTTGTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATTG-TATATGATT
*
37763491 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGATT
* * *
37763534 TCGTGTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATTG-TATATGATT
* * * * *
37763577 ACATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
37763613 GAGCTTATGA
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 32 0.32
43 43 0.43
44 26 0.26
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGATT
Found at i:37768004 original size:68 final size:67
Alignment explanation
Indices: 37767932--37768081 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
37767922 CATCATGTGT
* * * *
37767932 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
37767994 ATGTAG
62 ATGTAG
** * *
37768000 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
37768065 AG
66 AG
37768067 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
37768082 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:37768037 original size:64 final size:64
Alignment explanation
Indices: 37767956--37768138 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
37767946 AGACATTATG
* *
37767956 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
37768020 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
37768085 AA
63 AA
* * * *
37768087 ACTG--GCTAGGTCACAT-GGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
37768139 CAACTATATG
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 19 0.20
63 1 0.01
64 24 0.25
65 6 0.06
66 13 0.13
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:37770451 original size:43 final size:43
Alignment explanation
Indices: 37770373--37770527 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
37770363 AGCTCGTACA
* *
37770373 ATGCCAATGTCCTAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCTAGACAG-GGTCTTACACGAAATCAAATATCG
* * *
37770416 ATGCCACTGTCCTAGACAGGGTCCTACACGAAATCAAATA-CA
1 ATGCCAATGTCCTAGACAGGGTCTTACACGAAATCAAATATCG
* * *
37770458 ACG-CAGATGTCCTAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCA-ATGTCCTAGACAGGGTCTTACACG-AAATCA-AATATCG
* *
37770502 ATGCCAACGTCCCAGAC-GTGGTCTTA
1 ATGCCAATGTCCTAGACAG-GGTCTTA
37770528 AATGAAAACA
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.02
42 24 0.27
43 40 0.44
44 22 0.24
45 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:37784709 original size:42 final size:42
Alignment explanation
Indices: 37784618--37784768 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
37784608 CAATGCCAAA
* * * *
37784618 GTCCCAGACGTGGTCTTAAATGT-AATCAAATATCGATGCCACT
1 GTCCTAGACATGGTCTTACACGTAAATCAAATA-CGATGCCA-T
* * *
37784661 GTCCTAGACAGGGTCTTTCATG-AAATCAAATACGATGCCGAT
1 GTCCTAGACATGGTCTTACACGTAAATCAAATACGATGCC-AT
*
37784703 GTCCTAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAAC
1 GTCCTAGACATGGTCTTACACGTAAATCA-AA-TACGATGCC-AT
* *
37784747 GTCCCAGACATGGTCTTGCACG
1 GTCCTAGACATGGTCTTACACG
37784769 AAAACACATA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.30
43 33 0.36
44 30 0.33
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (42 bp):
GTCCTAGACATGGTCTTACACGTAAATCAAATACGATGCCAT
Found at i:37788654 original size:17 final size:18
Alignment explanation
Indices: 37788632--37788667 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37788622 GGTTTACCCG
37788632 TGTGGGGCCCACA-GGCC
1 TGTGGGGCCCACACGGCC
*
37788649 TGTGGGTCCCACACGGCC
1 TGTGGGGCCCACACGGCC
37788667 T
1 T
37788668 ATTTCGGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.11, C:0.36, G:0.36, T:0.17
Consensus pattern (18 bp):
TGTGGGGCCCACACGGCC
Found at i:37806158 original size:23 final size:23
Alignment explanation
Indices: 37806132--37806284 Score: 175
Period size: 23 Copynumber: 6.7 Consensus size: 23
37806122 CAAAGTGCCA
* * *
37806132 CACTGTAATATAGCCGCAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
37806155 CACTGTAACGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
37806178 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
37806201 CACTG-AGATGTAGCCGAAGTTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
*
37806224 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
37806247 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
37806270 CACTATATTGTAGCC
1 CACTGTAATGTAGCC
37806285 TATAGATTCC
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.02
23 106 0.96
24 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:37806192 original size:46 final size:46
Alignment explanation
Indices: 37806132--37806284 Score: 218
Period size: 46 Copynumber: 3.3 Consensus size: 46
37806122 CAAAGTGCCA
* * * * *
37806132 CACTGTAATATAGCCGCAGCTATCACTGTA-ACGTAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTG-AGATGTAGCCAAAGCTAC
* *
37806178 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGTTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTAC
37806224 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTAC
*
37806270 CACTATATTGTAGCC
1 CACTGTATTGTAGCC
37806285 TATAGATTCC
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 95 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTAC
Found at i:37814631 original size:11 final size:11
Alignment explanation
Indices: 37814615--37814642 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37814605 GGAATTAGTA
37814615 TGTTTTAAGTG
1 TGTTTTAAGTG
37814626 TGTTTTAAGTG
1 TGTTTTAAGTG
37814637 TGTTTT
1 TGTTTT
37814643 GGCCATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.25, T:0.61
Consensus pattern (11 bp):
TGTTTTAAGTG
Found at i:37821077 original size:53 final size:54
Alignment explanation
Indices: 37820930--37821066 Score: 231
Period size: 54 Copynumber: 2.6 Consensus size: 54
37820920 AATAGTCATC
* *
37820930 TTACCATATAAGGGTAAAATAGTCATTTTACCATATAAGGGCAAAACAATCATT
1 TTACCACATAAGGGTAAAATAGTCATTTTACCATATAAGGGCAAAACAATAATT
* *
37820984 TTACCACATAAGGGCAAATTAGTCATTTTACCATATAAGGGCAAAA-AATAATT
1 TTACCACATAAGGGTAAAATAGTCATTTTACCATATAAGGGCAAAACAATAATT
37821037 TTACCACATAAGGGTAAAATAGTCATTTTA
1 TTACCACATAAGGGTAAAATAGTCATTTTA
37821067 TCGATTAAGG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 34 0.44
54 43 0.56
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (54 bp):
TTACCACATAAGGGTAAAATAGTCATTTTACCATATAAGGGCAAAACAATAATT
Found at i:37821078 original size:27 final size:27
Alignment explanation
Indices: 37820918--37821066 Score: 201
Period size: 27 Copynumber: 5.6 Consensus size: 27
37820908 CACTAGGGGA
* *
37820918 AAAATAGTCATCTTACCATATAAGGGT
1 AAAATAGTCATTTTACCATATAAGGGC
37820945 AAAATAGTCATTTTACCATATAAGGGC
1 AAAATAGTCATTTTACCATATAAGGGC
* * *
37820972 AAAACAATCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCATATAAGGGC
*
37820999 AAATTAGTCATTTTACCATATAAGGGC
1 AAAATAGTCATTTTACCATATAAGGGC
* * * *
37821026 AAAA-AATAATTTTACCACATAAGGGT
1 AAAATAGTCATTTTACCATATAAGGGC
37821052 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
37821067 TCGATTAAGG
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.21
27 83 0.79
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (27 bp):
AAAATAGTCATTTTACCATATAAGGGC
Found at i:37824378 original size:74 final size:74
Alignment explanation
Indices: 37824248--37824386 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
37824238 AGCTCAGATG
* * * *
37824248 AAATCTCCGCACGAAGTTATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
37824313 ACCCGGACA
66 ACCCGGACA
* * * * * * *
37824322 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
37824387 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
ACCCGGACA
Found at i:37824379 original size:37 final size:37
Alignment explanation
Indices: 37824248--37824358 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
37824238 AGCTCAGATG
* * * *
37824248 AAATCTCCGCACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
37824285 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
37824322 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
37824359 TAGTCACCAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:37824385 original size:37 final size:37
Alignment explanation
Indices: 37824266--37824386 Score: 152
Period size: 37 Copynumber: 3.3 Consensus size: 37
37824256 GCACGAAGTT
* * *
37824266 ATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
* *
37824303 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
* * * *
37824340 ATCGGGTCTTACCCGGACATAGTCACCACATATGGTC
1 ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
*
37824377 ATCTGGTCTT
1 ATCGGGTCTT
37824387 TAATCCCAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
Found at i:37824593 original size:46 final size:48
Alignment explanation
Indices: 37824531--37824726 Score: 138
Period size: 47 Copynumber: 4.2 Consensus size: 48
37824521 GCCACAATAT
* * *
37824531 ACATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ACATATACACATCTCATACACATCTCACATTAGCCATTCGGCCTTACC
* * *
37824579 ACATAT-C-CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACC
1 ACATATACACATCTCATACACATCTCACATTAGCCATTCGGCCTTACC
* * * * *
37824625 ACATATATACATGT--T-CACATTCATCACATTGGCCATTCAGCCTTATC
1 ACATATACACATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTACC
* ** * * *
37824672 TCATATATGCATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATC
1 ACATATACACATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTACC
*
37824719 ACACATAC
1 ACATATAC
37824727 GCATGTTGCC
Statistics
Matches: 124, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
45 3 0.02
46 41 0.33
47 70 0.56
48 10 0.08
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
ACATATACACATCTCATACACATCTCACATTAGCCATTCGGCCTTACC
Found at i:37824741 original size:70 final size:70
Alignment explanation
Indices: 37824664--37824803 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
37824654 TGGCCATTCA
* * * *
37824664 GCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
1 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
37824729 ATGTT
66 ATGTT
37824734 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
37824799 ATGTT
66 ATGTT
37824804 CACATTCATC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (70 bp):
GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
ATGTT
Found at i:37824747 original size:47 final size:47
Alignment explanation
Indices: 37824604--37824733 Score: 197
Period size: 47 Copynumber: 2.8 Consensus size: 47
37824594 ACACGTTTCG
* * *
37824604 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
37824651 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
37824698 CATTGGCCATTCGGCCTTATCACACATACGCATGTT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTT
37824734 GCCTTATCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:37824769 original size:25 final size:23
Alignment explanation
Indices: 37824711--37824756 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37824701 TGGCCATTCG
37824711 GCCTTATCACACATACGCATGTT
1 GCCTTATCACACATACGCATGTT
37824734 GCCTTATCACACATACGCATGTT
1 GCCTTATCACACATACGCATGTT
37824757 CACATTCATC
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:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (23 bp):
GCCTTATCACACATACGCATGTT
Found at i:37824785 original size:47 final size:47
Alignment explanation
Indices: 37824734--37825007 Score: 365
Period size: 47 Copynumber: 5.8 Consensus size: 47
37824724 TACGCATGTT
*
37824734 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
1 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
*
37824781 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCGAAT--
1 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCC-ATTCG
37824827 G-CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
1 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
* *
37824873 GCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCG
1 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
* * * *
37824920 GCCTTATCATGCATATATATACAGGTTCACATTCATCACATTTGCCATTCG
1 GCCTTATCA--C--ACATACACATGTTCACATTCATCACATTGGCCATTCG
* * * **
37824971 GCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCTTATCACACATACACATGTTCACATTCATCACAT
37825008 AAAATCCTAA
Statistics
Matches: 205, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
44 2 0.01
45 40 0.20
46 2 0.01
47 118 0.58
48 2 0.01
49 2 0.01
51 39 0.19
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (47 bp):
GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
Found at i:37824832 original size:92 final size:93
Alignment explanation
Indices: 37824734--37825007 Score: 363
Period size: 92 Copynumber: 2.9 Consensus size: 93
37824724 TACGCATGTT
*
37824734 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
37824799 ATGTTCACATTCATCACATTGGCCGAAT-
66 ATGTTCACATTCATCACATTGGCC-AATC
*
37824827 G-CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
1 GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
* *
37824891 GTGTTCACATTCATCACATTGGCCATTC
66 ATGTTCACATTCATCACATTGGCCAATC
* * * * * *
37824919 GGCCTTATCATGCATATATATACAGGTTCACATTCATCACATTTGCCATTCGGCCTTATCTCATA
1 -GCCTTATCA--C--ACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
* **
37824984 TATACACATTCACATTCATCACAT
61 TACACATGTTCACATTCATCACAT
37825008 AAAATCCTAA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.01
92 84 0.53
93 2 0.01
94 7 0.04
96 1 0.01
98 63 0.40
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (93 bp):
GCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
ATGTTCACATTCATCACATTGGCCAATC
Found at i:37824861 original size:117 final size:116
Alignment explanation
Indices: 37824634--37824848 Score: 335
Period size: 117 Copynumber: 1.9 Consensus size: 116
37824624 CACATATATA
* * **
37824634 CATGTTCACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACACATGTTCACATTCATCAC
* *
37824699 ATTGGCCATTCGGCCTTATCACACATACGCATGTTGCCTTATCACACATACG
66 ATTGGCCAATC-GCCTTATCACACATACACATGTTGCCTTATCACACATACG
*
37824751 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACACATGTTCACATTCATCAC
37824816 ATTGGCCGAAT-G-CTTATCACACATACACATGTT
66 ATTGGCC-AATCGCCTTATCACACATACACATGTT
37824849 CACATTCATC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
115 20 0.22
116 1 0.01
117 67 0.74
118 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (116 bp):
CATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACACATGTTCACATTCATCAC
ATTGGCCAATCGCCTTATCACACATACACATGTTGCCTTATCACACATACG
Found at i:37824929 original size:25 final size:25
Alignment explanation
Indices: 37824854--37824929 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
37824844 ATGTTCACAT
37824854 TCATCACATTGGCCATTCGGCCTTA
1 TCATCACATTGGCCATTCGGCCTTA
** ** * *
37824879 TCA-CACATACGCGTGTTC--ACAT-
1 TCATCACATTGGC-CATTCGGCCTTA
37824901 TCATCACATTGGCCATTCGGCCTTA
1 TCATCACATTGGCCATTCGGCCTTA
37824926 TCAT
1 TCAT
37824930 GCATATATAT
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
22 6 0.18
23 9 0.26
24 9 0.26
25 10 0.29
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (25 bp):
TCATCACATTGGCCATTCGGCCTTA
Found at i:37830151 original size:40 final size:39
Alignment explanation
Indices: 37830046--37830266 Score: 237
Period size: 40 Copynumber: 5.5 Consensus size: 39
37830036 CGAGCCTACA
* * * *
37830046 GGTCTTT-AACCCGAATTCCATTCCAGCACGAAGCCTGCG
1 GGTCTTTAAACCCGGATACAATTCCAGCA-TAAGCCTGCG
* *
37830085 GGTCTTTTTAAACCCGGATACAATTCCAGCATATAGCTTGTG
1 GGTC--TTTAAACCCGGATACAATTCCAGCATA-AGCCTGCG
* **
37830127 GGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGTA
1 GGTCTTTAAACCCGGATACAATTCCAGCAT-AAGCCTGCG
* *
37830167 GGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCA
1 GGTCTTTAAACCCGGATACAATTCCAGCAT-AAGCCTGCG
* *
37830207 GGTCTTTAAGCCTGGATACAATTCCAGCATATAGCCTGCG
1 GGTCTTTAAACCCGGATACAATTCCAGCATA-AGCCTGCG
**
37830247 GGTCTTTAAATACGGATACA
1 GGTCTTTAAACCCGGATACA
37830267 CACATCAAAT
Statistics
Matches: 158, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 120 0.76
41 5 0.03
42 28 0.18
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
GGTCTTTAAACCCGGATACAATTCCAGCATAAGCCTGCG
Found at i:37830213 original size:80 final size:80
Alignment explanation
Indices: 37830038--37830266 Score: 266
Period size: 80 Copynumber: 2.9 Consensus size: 80
37830028 TTCTAACACG
* * * *
37830038 AGCCTACAGGTCTTT-AACCCGAATTCCATTCCAGCACGAAGCCTGCGGGTCTTTTTAAACCCGG
1 AGCCTGCAGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCGGGTC--TTTAAACCCGG
37830102 ATACAATTCCAGCATAT
64 ATACAATTCCAGCATAT
* ** ** *
37830119 AGCTTGTGGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGTAGGTCTTTAAGCCCGGAT
1 AGCCTGCAGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCGGGTCTTTAAACCCGGAT
37830184 ACAATTCCAGCATGA-
66 ACAATTCCAGCAT-AT
* * * **
37830199 AGCCTGCAGGTCTTTAAGCCTGGATACAATTCCAGCAT-ATAGCCTGCGGGTCTTTAAATACGGA
1 AGCCTGCAGGTCTTTAAACCCGGATACCATTCCAGCATGA-AGCCTGCGGGTCTTTAAACCCGGA
37830263 TACA
65 TACA
37830267 CACATCAAAT
Statistics
Matches: 124, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 80 0.65
81 12 0.10
82 31 0.25
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
AGCCTGCAGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCGGGTCTTTAAACCCGGAT
ACAATTCCAGCATAT
Found at i:37830239 original size:120 final size:120
Alignment explanation
Indices: 37830045--37830265 Score: 318
Period size: 120 Copynumber: 1.8 Consensus size: 120
37830035 ACGAGCCTAC
* * *
37830045 AGGTCTTTAACCCGAATTCCATTCCAGCACGAAGCCTGCGGGTCTTTTTAAACCCGGATACAATT
1 AGGTCTTTAACCCGAATACAATTCCAGCACGAAGCCTGCAGGTC-TTTTAAACCCGGATACAATT
* * *
37830110 CCAGCATATAGCTTGTGGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGT
65 CCAGCATATAGCCTGCGGGTCTTTAAACACGGATACCATTCCAGCATGAAGCCTGT
* * * *
37830166 AGGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCAGGTC-TTTAAGCCTGGATACAATT
1 AGGTCTTTAA-CCCGAATACAATTCCAGCACGAAGCCTGCAGGTCTTTTAAACCCGGATACAATT
*
37830230 CCAGCATATAGCCTGCGGGTCTTTAAATACGGATAC
65 CCAGCATATAGCCTGCGGGTCTTTAAACACGGATAC
37830266 ACACATCAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
120 49 0.56
121 10 0.11
122 29 0.33
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (120 bp):
AGGTCTTTAACCCGAATACAATTCCAGCACGAAGCCTGCAGGTCTTTTAAACCCGGATACAATTC
CAGCATATAGCCTGCGGGTCTTTAAACACGGATACCATTCCAGCATGAAGCCTGT
Found at i:37833512 original size:38 final size:38
Alignment explanation
Indices: 37833461--37833544 Score: 168
Period size: 38 Copynumber: 2.2 Consensus size: 38
37833451 TGGGTTTTAG
37833461 GTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGAT
1 GTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGAT
37833499 GTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGAT
1 GTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGAT
37833537 GTTTTCTT
1 GTTTTCTT
37833545 CTATAATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.14, C:0.11, G:0.13, T:0.62
Consensus pattern (38 bp):
GTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGAT
Found at i:37843409 original size:22 final size:22
Alignment explanation
Indices: 37843378--37843429 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
37843368 TCTGAGATGA
37843378 TAAACAGTAAGCTCCGAAGAGC
1 TAAACAGTAAGCTCCGAAGAGC
* *
37843400 TAAACGGTAAGCTCCGTAGAGC
1 TAAACAGTAAGCTCCGAAGAGC
37843422 TGAAACAG
1 T-AAACAG
37843430 AAATGGTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (22 bp):
TAAACAGTAAGCTCCGAAGAGC
Found at i:37845241 original size:17 final size:18
Alignment explanation
Indices: 37845211--37845247 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
37845201 CTTGGCCCAT
37845211 TACAGTAACAGTAAA-AG
1 TACAGTAACAGTAAACAG
37845228 TACAGTAA-ACGTAAACAG
1 TACAGTAACA-GTAAACAG
37845246 TA
1 TA
37845248 TGCAAGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 13 0.72
18 4 0.22
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (18 bp):
TACAGTAACAGTAAACAG
Found at i:37858396 original size:18 final size:19
Alignment explanation
Indices: 37858374--37858415 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
37858364 TATCTCATGT
37858374 ATCATAAT-ATCCATGTAA
1 ATCATAATAATCCATGTAA
* *
37858392 TTCAT-ATAATTCATGTAA
1 ATCATAATAATCCATGTAA
37858410 ATCATA
1 ATCATA
37858416 TAGCTCTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (19 bp):
ATCATAATAATCCATGTAA
Found at i:37858632 original size:22 final size:22
Alignment explanation
Indices: 37858590--37858634 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37858580 TCTGAGCTGA
*
37858590 TAAATGGTAAGCTCTGAAGAGC
1 TAAATGGTAAGCTCCGAAGAGC
*
37858612 TAAATGGTAAGCTCCGTAGAGC
1 TAAATGGTAAGCTCCGAAGAGC
37858634 T
1 T
37858635 GAAACAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (22 bp):
TAAATGGTAAGCTCCGAAGAGC
Found at i:37858651 original size:29 final size:30
Alignment explanation
Indices: 37858618--37858675 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
37858608 GAGCTAAATG
* *
37858618 GTAAGCTCCGTAGAGCTGAAACAG-AAGCA
1 GTAAGCCCCGAAGAGCTGAAACAGTAAGCA
*
37858647 GTAAGCCCCGAATAGCTGAAACAGTAAGC
1 GTAAGCCCCGAAGAGCTGAAACAGTAAGC
37858676 TCATACGAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (30 bp):
GTAAGCCCCGAAGAGCTGAAACAGTAAGCA
Done.