Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 115 of 344
Found at i:39030604 original size:31 final size:31
Alignment explanation
Indices: 39030569--39030631 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
39030559 TTTAGTTGAA
*
39030569 ATATTACATAATTATATACAATTTGAACACT
1 ATATTACATAATTAAATACAATTTGAACACT
39030600 ATATTACATAATTAAATACAATTTGAACACT
1 ATATTACATAATTAAATACAATTTGAACACT
39030631 A
1 A
39030632 AGTCTTAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.37
Consensus pattern (31 bp):
ATATTACATAATTAAATACAATTTGAACACT
Found at i:39033546 original size:6 final size:6
Alignment explanation
Indices: 39033537--39033610 Score: 103
Period size: 6 Copynumber: 12.3 Consensus size: 6
39033527 TAGTAGTAGG
* * *
39033537 AGGAGT AGGAGT AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGT
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
* *
39033585 AAGAGC AGGAGC AGGAGC AAGAGC AG
1 AGGAGC AGGAGC AGGAGC AGGAGC AG
39033611 CAAGAGTAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.47, T:0.04
Consensus pattern (6 bp):
AGGAGC
Found at i:39033621 original size:21 final size:21
Alignment explanation
Indices: 39033552--39033633 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 21
39033542 TAGGAGTAGG
*
39033552 AGCAGGAGCAGGAGC-AG-G-
1 AGCAAGAGCAGGAGCAAGAGC
* *
39033570 AGCAGGAGCAGGAGTAAGAGC
1 AGCAAGAGCAGGAGCAAGAGC
39033591 AG---GAGCAGGAGCAAGAGC
1 AGCAAGAGCAGGAGCAAGAGC
* * *
39033609 AGCAAGAGTAGGAGTAAGAGT
1 AGCAAGAGCAGGAGCAAGAGC
39033630 AGCA
1 AGCA
39033634 GCAGTAGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
18 31 0.58
19 2 0.04
20 1 0.02
21 19 0.36
ACGTcount: A:0.39, C:0.13, G:0.43, T:0.05
Consensus pattern (21 bp):
AGCAAGAGCAGGAGCAAGAGC
Found at i:39033639 original size:21 final size:20
Alignment explanation
Indices: 39033579--39033654 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 20
39033569 GAGCAGGAGC
* *
39033579 AGGAGTAAGAGCAG--GAGC
1 AGGAGTAAGAGTAGCAGAGT
* *
39033597 AGGAGCAAGAGCAGCAAGAGT
1 AGGAGTAAGAGTAGC-AGAGT
39033618 AGGAGTAAGAGTAGCAGCAGT
1 AGGAGTAAGAGTAGCAG-AGT
*
39033639 AGTAGT-AGCAGTAGCA
1 AGGAGTAAG-AGTAGCA
39033655 ACAATAGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 13 0.27
20 4 0.08
21 31 0.65
ACGTcount: A:0.39, C:0.12, G:0.38, T:0.11
Consensus pattern (20 bp):
AGGAGTAAGAGTAGCAGAGT
Found at i:39033651 original size:9 final size:9
Alignment explanation
Indices: 39033639--39033760 Score: 73
Period size: 9 Copynumber: 12.9 Consensus size: 9
39033629 TAGCAGCAGT
39033639 AGTAGTAGC
1 AGTAGTAGC
* *
39033648 AGTAGCAAC
1 AGTAGTAGC
*
39033657 AATAGTAGC
1 AGTAGTAGC
*
39033666 CGTAGTAGC
1 AGTAGTAGC
* *
39033675 AGCAATAGC
1 AGTAGTAGC
39033684 AAGAGTAGTAGC
1 ---AGTAGTAGC
*
39033696 TGTAGTAGC
1 AGTAGTAGC
39033705 AGTAGTAGC
1 AGTAGTAGC
* *
39033714 AGTAGCAAC
1 AGTAGTAGC
*
39033723 AGTAGCAGTTGC
1 AGT---AGTAGC
*
39033735 TGTAGTAGC
1 AGTAGTAGC
* *
39033744 AATAGTAAC
1 AGTAGTAGC
39033753 AGTAGTAG
1 AGTAGTAG
39033761 TAGCAGCAGT
Statistics
Matches: 81, Mismatches: 26, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
9 69 0.85
12 12 0.15
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (9 bp):
AGTAGTAGC
Found at i:39033673 original size:30 final size:30
Alignment explanation
Indices: 39033637--39033714 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
39033627 AGTAGCAGCA
*
39033637 GTAGTAGTAGCAGTAGCAACAATAGTAGCC
1 GTAGTAGCAGCAGTAGCAACAATAGTAGCC
* * * *
39033667 GTAGTAGCAGCAATAGCAAGAGTAGTAGCT
1 GTAGTAGCAGCAGTAGCAACAATAGTAGCC
*
39033697 GTAGTAGCAGTAGTAGCA
1 GTAGTAGCAGCAGTAGCA
39033715 GTAGCAACAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (30 bp):
GTAGTAGCAGCAGTAGCAACAATAGTAGCC
Found at i:39033717 original size:15 final size:15
Alignment explanation
Indices: 39033699--39033774 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
39033689 TAGTAGCTGT
39033699 AGTAGCAGTAGTAGC
1 AGTAGCAGTAGTAGC
**
39033714 AGTAGCAACAGTAGC
1 AGTAGCAGTAGTAGC
* *
39033729 AGTTGCTGTAGTAGC
1 AGTAGCAGTAGTAGC
* *
39033744 AATAGTAACAGTAGTAGT
1 ---AGTAGCAGTAGTAGC
*
39033762 AGCAGCAGTAGTA
1 AGTAGCAGTAGTA
39033775 ATAGTTCGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
15 35 0.76
18 11 0.24
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (15 bp):
AGTAGCAGTAGTAGC
Found at i:39033763 original size:24 final size:24
Alignment explanation
Indices: 39033687--39033775 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
39033677 CAATAGCAAG
** *
39033687 AGTAGTAGCTGTAGTAGCAGTAGT
1 AGTAGTAGCAATAGTAACAGTAGT
* * * *
39033711 AGCAGTAGCAACAGTAGCAGTTGCT
1 AGTAGTAGCAATAGTAACAGTAG-T
39033736 -GTAGTAGCAATAGTAACAGTAGT
1 AGTAGTAGCAATAGTAACAGTAGT
* *
39033759 AGTAGCAGCAGTAGTAA
1 AGTAGTAGCAATAGTAA
39033776 TAGTTCGAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 1 0.02
24 50 0.96
25 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (24 bp):
AGTAGTAGCAATAGTAACAGTAGT
Found at i:39033772 original size:30 final size:30
Alignment explanation
Indices: 39033667--39033779 Score: 102
Period size: 30 Copynumber: 3.8 Consensus size: 30
39033657 AATAGTAGCC
* * **
39033667 GTAGTAGCAGCAATAGCAAGAGTAGTAGCT-
1 GTAGTAGCAGCAGTAGCAATAGTAACAG-TA
* * *
39033697 GTAGTAGCAGTAGTAGCAGTAGCAACAGTA
1 GTAGTAGCAGCAGTAGCAATAGTAACAGTA
* * * *
39033727 GCAGTTGCTGTAGTAGCAATAGTAACAGTA
1 GTAGTAGCAGCAGTAGCAATAGTAACAGTA
*
39033757 GTAGTAGCAGCAGTAGTAATAGT
1 GTAGTAGCAGCAGTAGCAATAGT
39033780 TCGAAGCCTG
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
29 1 0.02
30 64 0.98
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.23
Consensus pattern (30 bp):
GTAGTAGCAGCAGTAGCAATAGTAACAGTA
Found at i:39033779 original size:21 final size:21
Alignment explanation
Indices: 39033627--39033779 Score: 76
Period size: 21 Copynumber: 7.0 Consensus size: 21
39033617 TAGGAGTAAG
*
39033627 AGTAGCAGCAGTAGTAGTAGC
1 AGTAGCAGCAGTAGTAGTAGT
* * **
39033648 AGTAGCAACAATAGTAGCCGT
1 AGTAGCAGCAGTAGTAGTAGT
* *
39033669 AGTAGCAGCAATAGCAAG-AGT
1 AGTAGCAGCAGTAG-TAGTAGT
* * *
39033690 AGTAGCTGTAGTAGCAGTAGTAGC
1 AGTAGC---AGCAGTAGTAGTAGT
* * *
39033714 AGTAGCAACAGTAGCAGTTGCT
1 AGTAGCAGCAGTAGTAGTAG-T
* *
39033736 -GTAGTAGCAATAGTAACAGTAGT
1 AGTAGCAGCAGTAGT---AGTAGT
*
39033759 AGTAGCAGCAGTAGTAATAGT
1 AGTAGCAGCAGTAGTAGTAGT
39033780 TCGAAGCCTG
Statistics
Matches: 95, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
21 61 0.64
22 2 0.02
23 3 0.03
24 29 0.31
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.22
Consensus pattern (21 bp):
AGTAGCAGCAGTAGTAGTAGT
Found at i:39034124 original size:23 final size:23
Alignment explanation
Indices: 39034096--39034149 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
39034086 ATTTAACATA
39034096 CATAACTCATACATTTATGCATT
1 CATAACTCATACATTTATGCATT
39034119 CATAACTCATACATTTATGCATT
1 CATAACTCATACATTTATGCATT
39034142 CAT-ACTCA
1 CATAACTCA
39034150 AATACCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (23 bp):
CATAACTCATACATTTATGCATT
Found at i:39037468 original size:93 final size:93
Alignment explanation
Indices: 39037340--39037511 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
39037330 GCCCATAAGT
* * *
39037340 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
39037405 CGAGC-TCGGATGCCTAGTTACATCTCTC
66 CGA-CTTCGGATGCCTAGTTACATCTCTC
* * *
39037433 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
39037498 CGACTTCGGATGCC
66 CGACTTCGGATGCC
39037512 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGACTTCGGATGCCTAGTTACATCTCTC
Found at i:39037507 original size:46 final size:46
Alignment explanation
Indices: 39037332--39037500 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
39037322 TGTAACCCGC
* *
39037332 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
39037378 CCATAAGTGAACTCAGACTCAATTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
39037424 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
39037471 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
39037501 CTTCGGATGC
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 60 0.61
47 29 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:39044457 original size:23 final size:23
Alignment explanation
Indices: 39044431--39044479 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
39044421 CAATCTATCC
39044431 AAAGTCAGCAAAAGTGATCTACA
1 AAAGTCAGCAAAAGTGATCTACA
39044454 AAAGTCAGCAAAAGTGATCTACA
1 AAAGTCAGCAAAAGTGATCTACA
39044477 AAA
1 AAA
39044480 TGACACATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAGTCAGCAAAAGTGATCTACA
Found at i:39044658 original size:39 final size:39
Alignment explanation
Indices: 39044615--39044736 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 39
39044605 TAAGTTCAAA
* * **
39044615 TCAGGGGTACCAAAGTACTACAGGGGCACATATGTGCAT
1 TCAGGGGTACCGAAGTACAACAGGGGCATGTATGTGCAT
* * * *
39044654 TCAGGGATTCCGAAGTACAACAAGGGCTTGTATGTGCAT
1 TCAGGGGTACCGAAGTACAACAGGGGCATGTATGTGCAT
* * *
39044693 TCAAGGGTACCGAAGTACAATAGGGGCATGTATGTGCGT
1 TCAGGGGTACCGAAGTACAACAGGGGCATGTATGTGCAT
39044732 TCAGG
1 TCAGG
39044737 TATAATTACA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (39 bp):
TCAGGGGTACCGAAGTACAACAGGGGCATGTATGTGCAT
Found at i:39061859 original size:95 final size:95
Alignment explanation
Indices: 39061642--39061865 Score: 233
Period size: 95 Copynumber: 2.4 Consensus size: 95
39061632 GGGTTAAGTT
* *
39061642 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAGGCTGATGTCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACCATCATCGAGGCTGATGTCATGTCCC
** * * * *
39061707 AGATGGTCTTACACTAGCTCTCGTGTATAA
66 AGAACGTCTTAAACTAGCACTCATATATAA
** * * *
39061737 GTGTTGATG-CATGTCACACACAT-GTCTTACACTGGCTACCATCATTGAGG-TCGATG-CATGT
1 --GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACCATCATCGAGGCT-GATGTCATGT
* *
39061798 CCCAGACACGTCTTAAACTGGCACTCATATCTACA
63 CCCAGA-ACGTCTTAAACTAGCACTCATATATA-A
39061833 -CCGATGCCATGTCCCAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
39061866 TCTCTCACAT
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
93 4 0.04
94 24 0.23
95 57 0.55
96 13 0.13
97 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACCATCATCGAGGCTGATGTCATGTCCC
AGAACGTCTTAAACTAGCACTCATATATAA
Found at i:39063504 original size:145 final size:145
Alignment explanation
Indices: 39063306--39063579 Score: 503
Period size: 145 Copynumber: 1.9 Consensus size: 145
39063296 AACTCAAGGT
* * *
39063306 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
39063371 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
39063436 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
39063451 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
39063516 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
39063580 TACTTTAAAC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 124 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:39063625 original size:29 final size:29
Alignment explanation
Indices: 39063562--39063629 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
39063552 TAATCAACCA
*
39063562 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
39063591 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
39063620 CGCACACTTA
1 CGCACACTTA
39063630 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:39063709 original size:174 final size:174
Alignment explanation
Indices: 39063419--39063778 Score: 702
Period size: 174 Copynumber: 2.1 Consensus size: 174
39063409 ATCAACCGCG
39063419 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
39063484 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
39063549 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
*
39063593 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
39063658 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
*
39063723 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCG
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
39063767 CACACTTAGTGC
1 CACACTTAGTGC
39063779 TGTACAATTT
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 184 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
Found at i:39063770 original size:29 final size:30
Alignment explanation
Indices: 39063731--39063809 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
39063721 CTTAATAATC
39063731 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
39063761 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
39063790 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39063810 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:39069626 original size:29 final size:28
Alignment explanation
Indices: 39069590--39069661 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
39069580 TCATGAGATT
*
39069590 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
39069620 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
39069647 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
39069662 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:39069885 original size:174 final size:174
Alignment explanation
Indices: 39069620--39069947 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
39069610 AAATTGTACA
* *
39069620 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
*
39069685 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
39069750 TTTTGGACAGCGGGAAAGGTAAGTGTACGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTACGAACTTGAAATGCATG
* * *
39069794 GCACTAAGTGTGTAAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
*
39069859 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
39069924 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
39069948 ACCTTGAGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTACGAACTTGAAATGCATG
Found at i:39073902 original size:46 final size:46
Alignment explanation
Indices: 39073823--39074026 Score: 148
Period size: 46 Copynumber: 4.4 Consensus size: 46
39073813 CAATGCCATA
*
39073823 TCCCAGATATGGTCTTACATTGACTATCATCTCGTA-GCTGATGCATG
1 TCCCAGACAT-GTCTTACATTGACTATCATCTCG-AGGCTGATGCATG
* *
39073870 TCCCAGACATGTCTTACATTGGCT-TACGTCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACATTGACTAT-CATCTCGAGGCTGATGCATG
* * * ** *
39073916 TCCCGGACATGTCTTACACTAAC-ACTTGTCTCGATGC-GATGCCATG
1 TCCCAGACATGTCTTACATTGACTA-TCATCTCGAGGCTGATG-CATG
* * * * * * *
39073962 TCCCAAACATGGTCTTACATAGGCTTTCATAAT-GTGGCCGATGCATG
1 TCCCAGACAT-GTCTTACATTGACTATCAT-CTCGAGGCTGATGCATG
* *
39074009 TCCCAGGCACGTCTTACA
1 TCCCAGACATGTCTTACA
39074027 CTAGCCCATA
Statistics
Matches: 124, Mismatches: 24, Indels: 19
0.74 0.14 0.11
Matches are distributed among these distances:
45 6 0.05
46 78 0.63
47 35 0.28
48 5 0.04
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
TCCCAGACATGTCTTACATTGACTATCATCTCGAGGCTGATGCATG
Found at i:39093698 original size:34 final size:34
Alignment explanation
Indices: 39093627--39093705 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
39093617 TATGTTAATA
* ** *
39093627 GGCTTAGGCCCAGACTACTACTGTTACTGGAACG
1 GGCTAAGGCCCAGACTACTACTGTTACTAAAAAG
* * * *
39093661 GGCTCAGGCCCAGATTGCTGCTGTTACTAAAAAG
1 GGCTAAGGCCCAGACTACTACTGTTACTAAAAAG
39093695 GGCTAAGGCCC
1 GGCTAAGGCCC
39093706 TAGCTGTTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.22
Consensus pattern (34 bp):
GGCTAAGGCCCAGACTACTACTGTTACTAAAAAG
Found at i:39103758 original size:47 final size:46
Alignment explanation
Indices: 39103684--39104001 Score: 182
Period size: 47 Copynumber: 6.7 Consensus size: 46
39103674 TTAAGTTGCC
* *
39103684 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAGGCT
1 GATG-CATGTCCCAG--ATGGTCTTACACTGGCTATCATCATCAAGGCT
* * * * *
39103733 GATGTCATGTCCCAGATGGTCTTACACTAGCTCTCGTGTAT-AAGTGTT
1 GATG-CATGTCCCAGATGGTCTTACACTGGCTATCAT-CATCAAG-GCT
* * **
39103781 GATGCATGTCACACACAT-GTCTTACACTGGCTACCATCATTGAGG-T
1 GATGCATGTC-C-CAGATGGTCTTACACTGGCTATCATCATCAAGGCT
** * * ** *
39103827 CGATGCATGTCCCAGACACGTCTTAAACTGGC-ACTCAT-ATCTACACC
1 -GATGCATGTCCCAGA-TGGTCTTACACTGGCTA-TCATCATCAAGGCT
* *
39103874 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-ATGGCT
1 GATG-CATGTCCCAG--ATGGTCTTACACTGGCTATCATCATCAAGGCT
** * ** * *
39103922 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTC-TCAATGCT
1 GATGCATGTCCCAGA-TGGTCTTACACTGGCTATCATCATCAAGGCT
39103968 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAG--ATGGTCTTACACTGGCT
39104002 CTCACATAAC
Statistics
Matches: 205, Mismatches: 44, Indels: 41
0.71 0.15 0.14
Matches are distributed among these distances:
45 5 0.02
46 33 0.16
47 85 0.41
48 59 0.29
49 23 0.11
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGATGGTCTTACACTGGCTATCATCATCAAGGCT
Found at i:39103893 original size:94 final size:94
Alignment explanation
Indices: 39103682--39104001 Score: 330
Period size: 94 Copynumber: 3.4 Consensus size: 94
39103672 GGTTAAGTTG
* *
39103682 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAGG-CTGATGTCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATTGAGGTC-GATG-CATGTCCC
** * * *
39103746 AGA-TGGTCTTACACTAGCTCTCGTGTATAA
64 AGACACGTCTTACACTAGCACTCGTATCTAA
** * * *
39103776 GTGTTGATG-CATGTCACACACAT-GTCTTACACTGGCTACCATCATTGAGGTCGATGCATGTCC
1 ---CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATTGAGGTCGATGCATGTCC
* * *
39103839 CAGACACGTCTTAAACTGGCACTCATATCTACA
63 CAGACACGTCTTACACTAGCACTCGTATCTA-A
* *
39103872 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATG-GCT-GATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCAT-TGAGGTCGATGCATGTCCCA
* *
39103935 GACACGTCTTACACTAGCCCTCGTCTC-AA
65 GACACGTCTTACACTAGCACTCGTATCTAA
*
39103964 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 --CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
39104002 CTCACATAAC
Statistics
Matches: 187, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
92 1 0.01
93 5 0.03
94 93 0.50
95 68 0.36
96 16 0.09
97 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATTGAGGTCGATGCATGTCCCAG
ACACGTCTTACACTAGCACTCGTATCTAA
Found at i:39105146 original size:29 final size:28
Alignment explanation
Indices: 39105110--39105187 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
39105100 TCATGAGATT
39105110 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
39105140 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
39105167 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
39105188 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:39105405 original size:174 final size:175
Alignment explanation
Indices: 39105140--39105502 Score: 674
Period size: 174 Copynumber: 2.1 Consensus size: 175
39105130 AAATTGTACA
39105140 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
39105205 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
39105270 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAA-TGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAAGTGCATG
*
39105314 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
39105379 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
* * *
39105444 TTTTGGACAGCGGAAAAGGTAAGTGTGCTAAGTTTAAAGTGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAAGTGCATG
39105489 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39105503 CGGTTGATTA
Statistics
Matches: 182, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
174 163 0.90
175 19 0.10
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAAGTGCATG
Found at i:39105593 original size:146 final size:145
Alignment explanation
Indices: 39105318--39105613 Score: 520
Period size: 146 Copynumber: 2.0 Consensus size: 145
39105308 TGCATGGCAC
* *
39105318 TAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTG
1 TAAGTGTGTAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTG
* * *
39105383 CGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATTTT
66 CGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTT
39105448 GGACAGCGGAAAAGG
131 GGACAGCGGAAAAGG
*
39105463 TAAGTGTGCTAAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
1 TAAGTGTG-TAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
*
39105528 GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTT
65 GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTT
39105593 TGGACAGCGGAAAAGG
130 TGGACAGCGGAAAAGG
39105609 TAAGT
1 TAAGT
39105614 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
145 8 0.06
146 135 0.94
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (145 bp):
TAAGTGTGTAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTG
CGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTT
GGACAGCGGAAAAGG
Found at i:39109127 original size:39 final size:40
Alignment explanation
Indices: 39108970--39109194 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
39108960 GCTCCTCGTT
* *
39108970 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
39109010 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
39109050 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
39109090 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
39109129 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39109170 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39109195 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 114 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39109182 original size:119 final size:120
Alignment explanation
Indices: 39108972--39109194 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
39108962 TCCTCGTTCA
*
39108972 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
39109037 TTAGTAACTCACACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTCACACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
39109092 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * * *
39109154 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTCA-CACAAATGCCATCGGGACTTAACCCGGA
39109195 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.75
120 18 0.20
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTCACACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:39118888 original size:29 final size:28
Alignment explanation
Indices: 39118852--39118924 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 28
39118842 TCATGAGATT
39118852 GGCACTAAGTGTGCG-GCTTTAAATTGTACA
1 GGCACTAAGTGTGCGAG-TTTAAA--GTACA
39118882 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
39118909 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
39118925 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.12
29 34 0.85
30 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:39119147 original size:174 final size:174
Alignment explanation
Indices: 39118882--39119209 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
39118872 AAATTGTACA
* *
39118882 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
39118947 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
39119012 TTTTGGACAGCGGGAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
39119056 GCACTAAGTGTGTAAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
39119121 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
39119186 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
39119210 ACCTTGAGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:39123140 original size:46 final size:46
Alignment explanation
Indices: 39123063--39123266 Score: 157
Period size: 46 Copynumber: 4.4 Consensus size: 46
39123053 CAATGCCATA
*
39123063 TCCCAGATATGGTCTTACATTGACTATCATCTCGTA-GCTGATGCATG
1 TCCCAGACAT-GTCTTACATTGACTATCATCTCG-AGGCTGATGCATG
*
39123110 TCCCAGACATGTCTTACATTGGCT-TACATCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACATTGACTAT-CATCTCGAGGCTGATGCATG
* * * ** *
39123156 TCCCGGACATGTCTTACACTAAC-ACTTGTCTCGATGC-GATGCCATG
1 TCCCAGACATGTCTTACATTGACTA-TCATCTCGAGGCTGATG-CATG
* * * * * * *
39123202 TCCCAAACATGGTCTTACATAGGCTTTCATAAT-GTGGCCGATGCATG
1 TCCCAGACAT-GTCTTACATTGACTATCAT-CTCGAGGCTGATGCATG
* *
39123249 TCCCAGGCACGTCTTACA
1 TCCCAGACATGTCTTACA
39123267 CTAGCCCATA
Statistics
Matches: 124, Mismatches: 24, Indels: 19
0.74 0.14 0.11
Matches are distributed among these distances:
45 6 0.05
46 78 0.63
47 35 0.28
48 5 0.04
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
TCCCAGACATGTCTTACATTGACTATCATCTCGAGGCTGATGCATG
Found at i:39123263 original size:93 final size:91
Alignment explanation
Indices: 39123102--39123269 Score: 223
Period size: 93 Copynumber: 1.8 Consensus size: 91
39123092 TCTCGTAGCT
* * * * *
39123102 GATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCGAGGCTGATGCATGTCCCGGACATG
1 GATGCATGTCCCAAACATGTCTTACATAGGCTTACATATCGAGGCCGATGCATGTCCCGGACACG
39123167 TCTTACACTAACACTTGTCTCGATGC
66 TCTTACACTAACACTTGTCTCGATGC
* *
39123193 GATGCCATGTCCCAAACATGGTCTTACATAGGCTTTCATAAT-GTGGCCGATGCATGTCCCAGG-
1 GATG-CATGTCCCAAACAT-GTCTTACATAGGCTTACAT-ATCGAGGCCGATGCATGTCCC-GGA
39123256 CACGTCTTACACTA
62 CACGTCTTACACTA
39123270 GCCCATAGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
91 4 0.06
92 13 0.20
93 46 0.70
94 3 0.05
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (91 bp):
GATGCATGTCCCAAACATGTCTTACATAGGCTTACATATCGAGGCCGATGCATGTCCCGGACACG
TCTTACACTAACACTTGTCTCGATGC
Found at i:39143653 original size:27 final size:27
Alignment explanation
Indices: 39143623--39143800 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
39143613 ATATTGAGTC
* *
39143623 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39143650 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39143677 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39143705 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39143732 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
39143759 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39143786 CGCATACTTAGTGCT
1 CGCACACTTAGTGCT
39143801 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39143762 original size:82 final size:81
Alignment explanation
Indices: 39143644--39143799 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39143634 TGCTATATAA
* *
39143644 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39143709 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39143726 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
39143790 TACTTAGTGC
65 CACTTAGTGC
39143800 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39143783 original size:54 final size:54
Alignment explanation
Indices: 39143623--39143799 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
39143613 ATATTGAGTC
* * * *
39143623 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
39143677 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
39143732 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
39143786 CGCATACTTAGTGC
1 CGCACACTTAGTGC
39143800 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:39148608 original size:34 final size:34
Alignment explanation
Indices: 39148537--39148615 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
39148527 TATGTTAATA
* ** *
39148537 GGCTTAGGCCCAGACTACTACTGTTACTGGAACG
1 GGCTAAGGCCCAGACTACTACTGTTACTAAAAAG
* * * *
39148571 GGCTCAGGCCCAGATTGCTGCTGTTACTAAAAAG
1 GGCTAAGGCCCAGACTACTACTGTTACTAAAAAG
39148605 GGCTAAGGCCC
1 GGCTAAGGCCC
39148616 TAGCTGTTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.22
Consensus pattern (34 bp):
GGCTAAGGCCCAGACTACTACTGTTACTAAAAAG
Found at i:39156207 original size:34 final size:34
Alignment explanation
Indices: 39156169--39156251 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
39156159 CTGATATGTT
* *
39156169 AATGGGCTTAGGCCCAGACTGCTACTGTTACTGA
1 AATGGGCTAAGGCCCAGACTGCTACAGTTACTGA
* *
39156203 AATGGGCTCAGGCCCAGATTGCTACAGTTACTGA
1 AATGGGCTAAGGCCCAGACTGCTACAGTTACTGA
*
39156237 AAAGGGCTAAGGCCC
1 AATGGGCTAAGGCCC
39156252 TAGCTGTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (34 bp):
AATGGGCTAAGGCCCAGACTGCTACAGTTACTGA
Found at i:39162609 original size:27 final size:26
Alignment explanation
Indices: 39162565--39162694 Score: 134
Period size: 27 Copynumber: 4.9 Consensus size: 26
39162555 AGGAAGCGTC
* * *
39162565 CTGGTGGCTATGCGACATTTATCTAAT
1 CTGGTGGCTCTGCCACA-TTATCTATT
* * *
39162592 CTGGTGGCTTTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
39162619 CTGGTGGCTCTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* * *
39162646 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTATT
* *
39162672 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
39162695 GTTTTGGAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 33 0.37
27 55 0.61
28 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:39162649 original size:54 final size:53
Alignment explanation
Indices: 39162565--39162694 Score: 154
Period size: 54 Copynumber: 2.5 Consensus size: 53
39162555 AGGAAGCGTC
* * * * * *
39162565 CTGGTGGCTATGCGACATTTATCTAATCTGGTGGCTTTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTAATCTGGTGACTCTGCCACAT-TATCTGTT
* *
39162619 CTGGTGGCTCTGCCACAATTATCTATTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTAATCTGGTGACTCTGCCACATTATCTGTT
* *
39162672 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
39162695 GTTTTGGAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
52 7 0.11
53 21 0.32
54 38 0.58
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (53 bp):
CTGGTGGCTCTGCCACAATTATCTAATCTGGTGACTCTGCCACATTATCTGTT
Found at i:39176249 original size:55 final size:54
Alignment explanation
Indices: 39176170--39176409 Score: 226
Period size: 55 Copynumber: 4.5 Consensus size: 54
39176160 CATTAGGGTT
*
39176170 TAAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGATAAGGTTTC-TAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGAC-ATTGATAA-GTTTCATAAGG
* *
39176225 TAAGGATATCATGTAAGACCATGCCAAGATATGACATTGATAAGTTTCTATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTTC-ATAAGG
* * * * * * *
39176280 CAAAGG-TCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 -TAAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTTCATAAGG
* * * * * *
39176333 CAAGAATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC--AA--
1 TAAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTTCATAAGG
* *
39176383 -AAGGATACCACGTAAGACCATGACAAG
1 TAAGGATACCATGTAAGACCATGCCAAG
39176410 TCATCGCAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 24 0.15
52 5 0.03
53 43 0.27
54 14 0.09
55 67 0.43
56 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTTCATAAGG
Found at i:39176377 original size:108 final size:110
Alignment explanation
Indices: 39176178--39176380 Score: 268
Period size: 108 Copynumber: 1.9 Consensus size: 110
39176168 TTTAAGGATA
* * * *
39176178 CCATGTAAGACCATGCCAAGGCATGACAATTGATAAGGTTTCTAAGGTAAGGATATCATGTAAGA
1 CCATGTAAAACCATGCCAAGGCATGACAATTGATAAGGTTTCTAAGGCAAGAATACCATGTAAGA
* *
39176243 CCATGCCAAGATATGACATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGCCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
* * *
39176288 CCATGTAAAACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGAATACCATGTAAG
1 CCATGTAAAACCATGCCAAGGCATGACAATTGATAAGGTTTC-TAAGGCAAGAATACCATGTAAG
* * *
39176350 ACCATGTCAAGACATGGCAATGGTAAGTTTC
65 ACCATGCCAAGACATGACAATGATAAGTTTC
39176381 AAAAGGATAC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 6 0.08
110 25 0.31
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (110 bp):
CCATGTAAAACCATGCCAAGGCATGACAATTGATAAGGTTTCTAAGGCAAGAATACCATGTAAGA
CCATGCCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:39176567 original size:42 final size:37
Alignment explanation
Indices: 39176468--39176578 Score: 213
Period size: 37 Copynumber: 3.0 Consensus size: 37
39176458 CAATGGGAAG
*
39176468 GTTTAAAGAGAATATCAAGGTAAGGTAAGGCAAGACA
1 GTTTAAAGAGAATAGCAAGGTAAGGTAAGGCAAGACA
39176505 GTTTAAAGAGAATAGCAAGGTAAGGTAAGGCAAGACA
1 GTTTAAAGAGAATAGCAAGGTAAGGTAAGGCAAGACA
39176542 GTTTAAAGAGAATAGCAAGGTAAGGTAAGGCAAGACA
1 GTTTAAAGAGAATAGCAAGGTAAGGTAAGGCAAGACA
39176579 AGTTATACTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.46, C:0.08, G:0.29, T:0.17
Consensus pattern (37 bp):
GTTTAAAGAGAATAGCAAGGTAAGGTAAGGCAAGACA
Found at i:39180299 original size:27 final size:27
Alignment explanation
Indices: 39180268--39180445 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39180258 TAAATTGTAC
39180268 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39180295 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39180321 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39180349 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39180377 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39180404 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39180431 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39180446 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39180382 original size:82 final size:81
Alignment explanation
Indices: 39180269--39180424 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39180259 AAATTGTACA
* *
39180269 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39180333 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39180350 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39180415 TGCGAGTTGA
65 TGCGAATTGA
39180425 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39180436 original size:82 final size:81
Alignment explanation
Indices: 39180265--39180445 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39180255 GATTAAATTG
* *
39180265 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39180330 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39180346 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39180410 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39180428 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39180446 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39185993 original size:27 final size:27
Alignment explanation
Indices: 39185954--39186158 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
39185944 ATTTTTAGTC
* * *
39185954 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
39185981 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
39186008 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
39186035 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
39186063 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
39186090 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
39186117 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
39186144 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39186159 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:39191606 original size:27 final size:27
Alignment explanation
Indices: 39191575--39191752 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39191565 TAAATTGTAC
39191575 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39191602 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39191628 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39191656 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39191684 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39191711 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39191738 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39191753 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39191689 original size:82 final size:81
Alignment explanation
Indices: 39191576--39191731 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39191566 AAATTGTACA
* *
39191576 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39191640 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39191657 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39191722 TGCGAGTTGA
65 TGCGAATTGA
39191732 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39191743 original size:82 final size:81
Alignment explanation
Indices: 39191572--39191752 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39191562 GATTAAATTG
* *
39191572 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39191637 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39191653 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39191717 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39191735 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39191753 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39194113 original size:40 final size:40
Alignment explanation
Indices: 39194039--39194221 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
39194029 AACCCAAGTA
*
39194039 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
39194078 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
39194118 CCTTTGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
39194158 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AAATG
39194199 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
39194222 CATCCGAATA
Statistics
Matches: 133, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 93 0.70
41 27 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:39197494 original size:43 final size:43
Alignment explanation
Indices: 39197347--39197476 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
39197337 CTATCGTACA
* * * * **
39197347 ATGCCAACGTCCCAAACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AGAAAACATATCG
* * * *
39197390 ATGCCACTATCCCGGACAGGGTCTTACACGAGAAAACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAGAAAACATATCG
*
39197433 ATGCCAATGTCCCAGACATGGTCTTACACGAGAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAGAAAACATATCG
39197476 A
1 A
39197477 AATCCTATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAGAAAACATATCG
Found at i:39206032 original size:40 final size:40
Alignment explanation
Indices: 39205977--39206157 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
39205967 TATTCGGATG
* *
39205977 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
39206017 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
39206057 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
39206097 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
39206137 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39206158 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 114 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:39211273 original size:40 final size:40
Alignment explanation
Indices: 39211199--39211361 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
39211189 GATAATCAGA
* * * *
39211199 CTAAGATCCGAAGGCATTCGTGCGGGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * * *
39211239 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
*
39211279 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
39211319 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
39211358 CTAA
1 CTAA
39211362 ATCCTAAAGA
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.07
40 97 0.91
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:39213290 original size:18 final size:18
Alignment explanation
Indices: 39213267--39213302 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
39213257 CACCCGATGA
39213267 ATGCCTAAAGTGTACTAT
1 ATGCCTAAAGTGTACTAT
39213285 ATGCCTAAAGTGTACTAT
1 ATGCCTAAAGTGTACTAT
39213303 CTCCTTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
ATGCCTAAAGTGTACTAT
Found at i:39219294 original size:40 final size:40
Alignment explanation
Indices: 39219220--39219391 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
39219210 GATAACCGAA
* ** * **
39219220 CTAAGATCCGAAGGCATTCGTGCGGGTTACTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
* * **
39219260 CTATGTCCCGAAGGCATTTATGCTTG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTG-TTATATCCGGG
*
39219300 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
* *
39219340 CTAAGACCTGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
39219379 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
39219392 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 97 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
Found at i:39222452 original size:12 final size:12
Alignment explanation
Indices: 39222435--39222466 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
39222425 AAATAGGCTA
39222435 AATAGGCTTTGG
1 AATAGGCTTTGG
39222447 AATAGGCTTTGG
1 AATAGGCTTTGG
39222459 AATAGGCT
1 AATAGGCT
39222467 AAATAGGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.31
Consensus pattern (12 bp):
AATAGGCTTTGG
Found at i:39224314 original size:43 final size:42
Alignment explanation
Indices: 39224222--39224363 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 42
39224212 GATGTGAATA
* *
39224222 CATGTAAGACCATGTCTGGGACATTGGCATTGTGTTGA-GATTAT
1 CATGTAAGACCATGTCTGGGACATTGGCA-T-CGTTAATGATT-T
* *
39224266 -GTGTAAGACCATGTCTGGAACATTGGCATCGTTAATCGATTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-GATTT
* * * * **
39224308 CATGTAAGACCCTATTTGGGACATTGGCATCGATATATGATAA
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTTA-ATGATTT
39224351 CATGTAAGACCAT
1 CATGTAAGACCAT
39224364 ATATAGGATA
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
41 4 0.05
42 2 0.02
43 73 0.90
44 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTTAATGATTT
Found at i:39229657 original size:48 final size:48
Alignment explanation
Indices: 39229369--39229671 Score: 154
Period size: 47 Copynumber: 6.4 Consensus size: 48
39229359 ATAAGTTACT
* **
39229369 GATGCAATG-CCCTAGACATGGTCTTACACTAGCTA-TCATCATC-GGGGCC
1 GATGC-ATGTCCC-AGACATGGTCTTACACTGGC-ACTCAT-ATCTATGGCC
**** * * * *
39229418 GATGCCATGTCCC-GCACATGGTCTTACACTATTTCTCGTATATACGTGCT
1 GATG-CATGTCCCAG-ACATGGTCTTACACTGGCACTCATATCTATG-GCC
*
39229468 GATGCATGTCCCAGACAT-GTCTTACACTAGCA--CA-ACTCTCA--GCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATA-TCT-ATGGCC
* * * * *
39229512 GATGGATGTCCTAGACA-CGTCTTACACTGGCTA-TCATCGTCGA-GGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC-ACTCAT-ATCTATGGCC
* * * * * *
39229559 AATGCATGTCTCGGACAT-GTCTTACACTGGCACTTATCTCTAT-GCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATATCTATGGCC
39229605 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-T-TGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACTCAT-ATCTATGGCC
*
39229653 GATGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATG
39229672 TTGTCCCAGA
Statistics
Matches: 197, Mismatches: 35, Indels: 46
0.71 0.13 0.17
Matches are distributed among these distances:
44 29 0.15
45 2 0.01
46 15 0.08
47 61 0.31
48 39 0.20
49 40 0.20
50 11 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATATCTATGGCC
Found at i:39229661 original size:47 final size:46
Alignment explanation
Indices: 39229468--39229672 Score: 170
Period size: 47 Copynumber: 4.4 Consensus size: 46
39229458 TATACGTGCT
* **
39229468 GATGCATGTCCCAGACATGTCTTACACTAGCA-CA-ACTCTCAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATACTCTTGGCC
* * * **
39229512 GATGGATGTCCTAGACACGTCTTACACTGGCTATCAT-CGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCATAC-TCTTGGCC
* * * * *
39229559 AATGCATGTCTCGGACATGTCTTACACTGGCA-CTTATCTCTAT-GCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATA-CTCT-TGGCC
*
39229605 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-TTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCATACTCTTGGCC
*
39229653 GATGCATGTCCCAAACATGT
1 GATGCATGTCCCAGACATGT
39229673 TGTCCCAGAC
Statistics
Matches: 125, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
44 27 0.22
45 3 0.02
46 13 0.10
47 57 0.46
48 21 0.17
49 1 0.01
50 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCATACTCTTGGCC
Found at i:39229707 original size:61 final size:61
Alignment explanation
Indices: 39229612--39229733 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
39229602 GCTGATGCCA
39229612 TGTCCCAGACATGGTCTTACACTGGCACTCATAATTTGGCCGATGCATGTCCCAAACATGT
1 TGTCCCAGACATGGTCTTACACTGGCACTCATAATTTGGCCGATGCATGTCCCAAACATGT
39229673 TGTCCCAGACATGGTCTTACACTGGCACTCATAATTTGGCCGATGCATGTCCCAAACATGT
1 TGTCCCAGACATGGTCTTACACTGGCACTCATAATTTGGCCGATGCATGTCCCAAACATGT
39229734 CTTACACTGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (61 bp):
TGTCCCAGACATGGTCTTACACTGGCACTCATAATTTGGCCGATGCATGTCCCAAACATGT
Found at i:39230476 original size:12 final size:12
Alignment explanation
Indices: 39230459--39230483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39230449 CAAAAATGTA
39230459 AAAATCATCAAG
1 AAAATCATCAAG
39230471 AAAATCATCAAG
1 AAAATCATCAAG
39230483 A
1 A
39230484 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:39234209 original size:13 final size:13
Alignment explanation
Indices: 39234193--39234218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39234183 TGGACACACA
39234193 CCCGTGTCCTTTC
1 CCCGTGTCCTTTC
39234206 CCCGTGTCCTTTC
1 CCCGTGTCCTTTC
39234219 ACACGGGCTC
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:0.00, C:0.46, G:0.15, T:0.38
Consensus pattern (13 bp):
CCCGTGTCCTTTC
Found at i:39235204 original size:49 final size:49
Alignment explanation
Indices: 39235132--39235357 Score: 231
Period size: 49 Copynumber: 4.7 Consensus size: 49
39235122 ATAAGTTGTT
* *
39235132 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCATCGGGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATCATCGTGCTC
* * *
39235181 GATGCCATGTCCCACACATGGTCTTACACTAGCTCTCGTAT-ATACGTGCT-
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTC--ATCAT-CGTGCTC
* *
39235231 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATC-TC-TACAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGTGCTC
* *
39235276 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATAAT-GTGAC-C
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGTG-CTC
*
39235325 GATG-CATGTCCCAGACAT-GTCTTACACGGGCAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC
39235358 ATAAGTAATG
Statistics
Matches: 150, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 21 0.14
47 26 0.17
48 38 0.25
49 49 0.33
50 7 0.05
51 6 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGTGCTC
Found at i:39235348 original size:94 final size:96
Alignment explanation
Indices: 39235132--39235357 Score: 273
Period size: 96 Copynumber: 2.3 Consensus size: 96
39235122 ATAAGTTGTT
**** *
39235132 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCATCGGGGTCGATGCCATGTCCCAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCATCACACTCGATGCCATGTCCCAA
* *
39235196 ACATGGTCTTACACTAGCTCTCGTATATACGTGCT
63 ACATGGTCTTACACTAGCACTCG-ATATACGTGCC
39235231 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCTACACT-GATGCCATGTCCCAAAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATC-ACACTCGATGCCATGTCCCAAAC
* *
39235294 ATGGTCTTACACTGGCACTC-ATA-ATGTGACC
65 ATGGTCTTACACTAGCACTCGATATACGTG-CC
*
39235325 GATGCATGTCCCAGACATGTCTTACACGGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
39235358 ATAAGTAATG
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
93 4 0.04
94 36 0.32
96 37 0.32
97 19 0.17
98 14 0.12
99 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCACACTCGATGCCATGTCCCAAACA
TGGTCTTACACTAGCACTCGATATACGTGCC
Found at i:39240200 original size:39 final size:39
Alignment explanation
Indices: 39240136--39240293 Score: 217
Period size: 39 Copynumber: 4.1 Consensus size: 39
39240126 TGTGAATATT
* **
39240136 TATACGCGAGAATTATATCCAGACTTCAGGTCCATAGGC
1 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
* *
39240175 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
* ** *
39240214 TATATGCGAGAATTCTATCTGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
* *
39240253 TATATGCGAGAATTATATCCAGACTTTAGGTCTGCAGGC
1 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
39240292 TA
1 TA
39240294 CGTGCTGGAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
Found at i:39253267 original size:51 final size:50
Alignment explanation
Indices: 39253141--39253277 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 50
39253131 TATTGTGAGG
* * * ** *
39253141 TCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAATTGGA
* *
39253191 TGCA--TGTGTAGTACTAAGTGCAGGCTACCATGCGTACCCAATAACTTTGA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAA-TTGGA
39253241 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTA
39253278 GTAGATAACC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
49 36 0.49
50 5 0.07
51 33 0.45
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAATTGGA
Found at i:39253286 original size:51 final size:51
Alignment explanation
Indices: 39253141--39253286 Score: 165
Period size: 51 Copynumber: 2.9 Consensus size: 51
39253131 TATTGTGAGG
* * * * *
39253141 TCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTGGA
* *
39253191 TGCA--TGTGTAGTACTAAGTGCAGGCTACCATGCGTACCCA-ATAACTTTGA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAACTTGGA
**
39253241 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAGTAGATAAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAAC
39253287 CTTGTCTACA
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
49 34 0.43
50 8 0.10
51 38 0.47
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTGGA
Found at i:39255663 original size:43 final size:43
Alignment explanation
Indices: 39255615--39255702 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
39255605 GAAAAGTGTA
*
39255615 AATCAAAATTTATTCAAAACTGTTCTTCTTTAGTGAAAGGTCT
1 AATCAAAATTTATTCAAAACTGTTCTTATTTAGTGAAAGGTCT
*
39255658 AATCAAAATTTATTCAGAACTGTTCTTATTTAGTGAAAGGTCT
1 AATCAAAATTTATTCAAAACTGTTCTTATTTAGTGAAAGGTCT
39255701 AA
1 AA
39255703 CATTAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (43 bp):
AATCAAAATTTATTCAAAACTGTTCTTATTTAGTGAAAGGTCT
Found at i:39260937 original size:27 final size:27
Alignment explanation
Indices: 39260896--39260949 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
39260886 GTCATGTGAA
*
39260896 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTGTTACATG
**
39260923 AATTGAATGTTAAATTACTGTTACATG
1 AATTGAATGGCAAATTACTGTTACATG
39260950 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTGTTACATG
Found at i:39261314 original size:51 final size:49
Alignment explanation
Indices: 39261201--39261433 Score: 259
Period size: 49 Copynumber: 4.7 Consensus size: 49
39261191 GTGAGGTCAC
* *
39261201 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTA
* * * * *
39261250 GTACTAAGTGCAGGCTGCTATGCGTACCCGATAACTTCGATCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACGTGTGTA
* * **
39261301 GTACCAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTA
* * ** *
39261351 GTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTTGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTA
* * * *
39261400 GTACTAAGTGCAGGATACTATGCGTAGCAGATAA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAA
39261434 CCTTGTCTAC
Statistics
Matches: 150, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 68 0.45
50 46 0.31
51 36 0.24
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTA
Found at i:39261384 original size:101 final size:98
Alignment explanation
Indices: 39261201--39261433 Score: 270
Period size: 101 Copynumber: 2.3 Consensus size: 98
39261191 GTGAGGTCAC
*
39261201 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCT
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGGCT
* **
39261266 GCTATGCGTACCCGATAACTTCGAT-CACGTGTGTA
66 ACTACACGTACCCGATAA-TTCGATGCA--TGTGTA
* * ** *
39261301 GTACCAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGC
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAGTGCAGGC
* * * *
39261366 TACTACATGTACCGGATAATTGGTTGCATGTGTA
65 TACTACACGTACCCGATAATTCGATGCATGTGTA
* * * *
39261400 GTACTAAGTGCAGGATACTATGCGTAGCAGATAA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAA
39261434 CCTTGTCTAC
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
99 33 0.30
100 36 0.32
101 42 0.38
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (98 bp):
GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGGCT
ACTACACGTACCCGATAATTCGATGCATGTGTA
Found at i:39264093 original size:43 final size:43
Alignment explanation
Indices: 39264032--39264119 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
39264022 AAAATCATAA
39264032 AGATCACTTACATTATGAGAGGAATAAGTAGCTACAAATTTTC
1 AGATCACTTACATTATGAGAGGAATAAGTAGCTACAAATTTTC
*
39264075 AGATCACTTACATTATGAGAGGAATAAGTAGCTGCAAATTTTC
1 AGATCACTTACATTATGAGAGGAATAAGTAGCTACAAATTTTC
39264118 AG
1 AG
39264120 CTTTCAAACC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (43 bp):
AGATCACTTACATTATGAGAGGAATAAGTAGCTACAAATTTTC
Found at i:39270900 original size:47 final size:46
Alignment explanation
Indices: 39270654--39270917 Score: 173
Period size: 47 Copynumber: 5.6 Consensus size: 46
39270644 AGTAAGTTGT
* *
39270654 CGATGCCATGTCCCATACATGGTCTTACACTGGCTATCATC-ATTGGGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGC-ATCATCTA-T-AGGC
* * * *
39270703 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATACGTGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGC-ATCATCTATA-G-GC
* * * * * *
39270753 TGACGAATGTCCCGGACAT-GTCTTACACTAGCA-CAACTATCA-GC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCATCATCTAT-AGGC
* * * * *
39270797 AGATGCATGTCTCAAACA-CGTCTTACACTGGCTATCGTCGTCA-AGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC-ATCATC-T-ATAGGC
* *
39270844 CGATGCATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCA-TCATCTATAGGC
*
39270890 CAATGCCATGTCCCAGACATGGTCTTAC
1 CGATG-CATGTCCCAGACATGGTCTTAC
39270918 TCTGACACAT
Statistics
Matches: 171, Mismatches: 29, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
44 26 0.15
45 1 0.01
46 17 0.10
47 50 0.29
48 21 0.12
49 50 0.29
50 6 0.04
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCATCATCTATAGGC
Found at i:39272454 original size:24 final size:24
Alignment explanation
Indices: 39272421--39272467 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
39272411 GGCAATGTGA
39272421 TAAGTGAAATAAGTCCATGGCATC
1 TAAGTGAAATAAGTCCATGGCATC
*
39272445 TAAGTTAAATAAGTCCATGGCAT
1 TAAGTGAAATAAGTCCATGGCAT
39272468 TTTACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAGTGAAATAAGTCCATGGCATC
Found at i:39272559 original size:51 final size:51
Alignment explanation
Indices: 39272503--39272649 Score: 242
Period size: 51 Copynumber: 2.9 Consensus size: 51
39272493 TGAACCTTAG
*
39272503 GAATAAAATAGCTTTGGACATAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
39272554 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTCAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
39272605 AAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCA
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCA
39272650 TCATGTATCC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:39277069 original size:42 final size:41
Alignment explanation
Indices: 39276967--39277086 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 41
39276957 GTTTGAGACA
* *
39276967 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGATT-AGATT
* * *
39277009 TACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-TATT
1 T-CGTGTAAGACCATGTCTGGGACATAGGCATCG-AT-TAGATT
* * *
39277052 TCGTGTAAGACCCTGTCTGGGACAAAGACATCGAT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGAT
39277087 ATTGAGTTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.43
43 32 0.49
44 2 0.03
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATAGGCATCGATTAGATT
Found at i:39277125 original size:85 final size:84
Alignment explanation
Indices: 39276967--39277125 Score: 185
Period size: 85 Copynumber: 1.9 Consensus size: 84
39276957 GTTTGAGACA
* * * * * * *
39276967 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACAAAGACATCGATTGAGA-TTACATATAAGACCACGTCCGGGA
*
39277032 CATTGGCATCGTATCTTATT
65 CATCGGCATCGTATCTTATT
*
39277052 TCGTGTAAGACCCTGTCTGGGACAAAGACATCGATATTGAG-TTACATGTAAGACCACGTCCGGG
1 TCGTGTAAGACCCTGTCTGGGACAAAGACATCG--ATTGAGATTACATATAAGACCACGTCCGGG
**
39277116 ATGTCGGCAT
64 ACATCGGCAT
39277126 TGTACTTGTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
85 55 0.90
87 6 0.10
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
TCGTGTAAGACCCTGTCTGGGACAAAGACATCGATTGAGATTACATATAAGACCACGTCCGGGAC
ATCGGCATCGTATCTTATT
Found at i:39280796 original size:46 final size:45
Alignment explanation
Indices: 39280727--39280901 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
39280717 GTAACCCGCC
* * * *
39280727 CCTAAGTTAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
*
39280772 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCACAT
* * * *
39280822 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
*
39280865 CCGTAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39280902 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 57 0.53
47 28 0.26
48 2 0.02
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:39280843 original size:93 final size:93
Alignment explanation
Indices: 39280735--39280904 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
39280725 CCCCTAAGTT
** *
39280735 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
39280800 GAGTTCAGATGCCTAGTTACATCTCATG
66 GAGTTCAGATGCCTAGTTACATCTCATG
* * * * *
39280828 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
1 AACTCAGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
*
39280893 GAGTTCGGATGC
66 GAGTTCAGATGC
39280905 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATCTCATG
Found at i:39285311 original size:40 final size:40
Alignment explanation
Indices: 39285189--39285412 Score: 364
Period size: 40 Copynumber: 5.6 Consensus size: 40
39285179 TATTCCGATG
39285189 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
*
39285230 ATATCCGGGCTAAGTCCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
*
39285271 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
39285311 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
39285351 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
39285391 ATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
39285413 TACTTGGGTT
Statistics
Matches: 178, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 96 0.54
41 67 0.38
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:39288007 original size:47 final size:47
Alignment explanation
Indices: 39287945--39288113 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 47
39287935 AAGCTTAGCC
* * *
39287945 GATGTATGTCTCAGACACGCCTTACACTGGCTACCATAATTGAGGCT
1 GATGCATGTCCCAGACACGTCTTACACTGGCTACCATAATTGAGGCT
* *
39287992 GATGCATGTCCCAGACACGTCTTACACTGGC-ACTCAT-ATCT-ACGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAC-CATAAT-TGAGGCT
* * * * *
39288038 AATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAA-TGTGGCT
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTACCATAATTGAGGCT
* *
39288086 GATGCATGTCCCAGACATGTCATACACT
1 GATGCATGTCCCAGACACGTCTTACACT
39288114 AGCCCTCATC
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
46 19 0.19
47 59 0.59
48 20 0.20
49 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTACCATAATTGAGGCT
Found at i:39288070 original size:48 final size:48
Alignment explanation
Indices: 39287996--39288161 Score: 171
Period size: 47 Copynumber: 3.5 Consensus size: 48
39287986 GAGGCTGATG
* *
39287996 CATGTCCCAGACA-CGTCTTACACTGGCACTCATATCTACGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCATATCTACGCTAATGC
* * * *
39288043 CATGTCCCAGACATGGTCTTACACTGGCTA-TCGTAATGT-GGCTGATG-
1 CATGTCCCAGACATGGTCTTACACTGGC-ACTCAT-ATCTACGCTAATGC
* * * * * *
39288090 CATGTCCCAGACAT-GTCATACACTAGCCCTCATCTCAATGCTAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCATATCTACGCTAATGC
39288137 CATGTCCCAGACATGGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
39288162 CGCTCTCACA
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 20 0.21
47 41 0.43
48 30 0.31
49 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCATATCTACGCTAATGC
Found at i:39288088 original size:94 final size:93
Alignment explanation
Indices: 39287856--39288161 Score: 309
Period size: 94 Copynumber: 3.3 Consensus size: 93
39287846 TTGCCGATGT
* * * *
39287856 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTTTAA-GT-GCTGATGGATGTCCCAAACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTATC--G--TAATGTGGCTGATGCATGTCCCAGACAT
* * *
39287919 GTCTTACACTAGCA--CAAAGCTTAGCCGATG-
62 GTCTTACACTAGCACTCATATC-TAGCCAATGC
* * * * * * * *
39287949 TATGTCTCAGACA-CGCCTTACACTGGCTACCATAATTGAGGCTGATGCATGTCCCAGACACGTC
1 CATGTCCCAGACATGGTCTTACACTGGCTATCGTAA-TGTGGCTGATGCATGTCCCAGACATGTC
*
39288013 TTACACTGGCACTCATATCTACGCCAATGC
65 TTACACTAGCACTCATATCTA-GCCAATGC
*
39288043 CATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCAGACATGTCA
1 CATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCAGACATGTCT
* * * *
39288108 TACACTAGCCCTCATCTCAATGCTAATGC
66 TACACTAGCACTCATATCTA-GCCAATGC
39288137 CATGTCCCAGACATGGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
39288162 CGCTCTCACA
Statistics
Matches: 174, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
88 3 0.02
90 1 0.01
91 31 0.18
92 15 0.09
93 21 0.12
94 85 0.49
95 18 0.10
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCAGACATGTCT
TACACTAGCACTCATATCTAGCCAATGC
Found at i:39292366 original size:46 final size:47
Alignment explanation
Indices: 39292311--39292486 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 47
39292301 TGTTTGGGCA
* *
39292311 TCCGAA-CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
39292357 TCCGGA-CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
39292404 TCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
39292450 CCCG-AGCTCATTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39292487 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
46 67 0.68
47 32 0.32
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:39292466 original size:93 final size:93
Alignment explanation
Indices: 39292307--39292478 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
39292297 AGGATGTTTG
* * *
39292307 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGGACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGGACTCATTGAG
*
39292372 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
*
39292400 GGCATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC-GAGCTCATTG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGGA-CTCATTG
39292463 AGTTGAGTCCAAGTTC
64 AGTTGAGTCCAAGTTC
39292479 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGGACTCATTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:39297003 original size:14 final size:14
Alignment explanation
Indices: 39296984--39297010 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39296974 TATCATAATA
39296984 ATAATTAAGAACAC
1 ATAATTAAGAACAC
39296998 ATAATTAAGAACA
1 ATAATTAAGAACA
39297011 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:39297389 original size:13 final size:13
Alignment explanation
Indices: 39297371--39297396 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39297361 GCTCGGCAGG
39297371 GACACGCCCGTGT
1 GACACGCCCGTGT
39297384 GACACGCCCGTGT
1 GACACGCCCGTGT
39297397 ATGATTACTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:39307707 original size:21 final size:21
Alignment explanation
Indices: 39307681--39307735 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
39307671 CCGTGTGACA
39307681 CACACGGCCGTGTCACTAGAT
1 CACACGGCCGTGTCACTAGAT
* * * *
39307702 CACACGACCATGTCGCTAGGT
1 CACACGGCCGTGTCACTAGAT
*
39307723 TACACGGCCGTGT
1 CACACGGCCGTGT
39307736 TGGGAGCCCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (21 bp):
CACACGGCCGTGTCACTAGAT
Found at i:39308644 original size:18 final size:18
Alignment explanation
Indices: 39308621--39308700 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
39308611 TACCAATATC
39308621 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
39308639 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
*
39308657 ATTCAGTAATAATCAATT
1 ATTCAGTAACAATCAATT
* * * *
39308675 ACTCAGTAACAGTCAGTC
1 ATTCAGTAACAATCAATT
39308693 ATTCAGTA
1 ATTCAGTA
39308701 TCTTTACTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:39308662 original size:36 final size:36
Alignment explanation
Indices: 39308619--39308700 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
39308609 TTTACCAATA
* *
39308619 TCATTCAGTAACAATCAATTATTCAGTAGCAATCAG
1 TCATTCAGTAACAATCAATTACTCAGTAACAATCAG
* * *
39308655 TTATTCAGTAATAATCAATTACTCAGTAACAGTCAG
1 TCATTCAGTAACAATCAATTACTCAGTAACAATCAG
39308691 TCATTCAGTA
1 TCATTCAGTA
39308701 TCTTTACTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATTACTCAGTAACAATCAG
Found at i:39310386 original size:15 final size:17
Alignment explanation
Indices: 39310357--39310388 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
39310347 TACTCAAATG
39310357 CATATATTACAATTGTT
1 CATATATTACAATTGTT
39310374 CATATA-TAC-ATTGTT
1 CATATATTACAATTGTT
39310389 ACATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATATATTACAATTGTT
Found at i:39310511 original size:20 final size:20
Alignment explanation
Indices: 39310482--39310521 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39310472 AACTAATTTA
39310482 ATATAATTTATTAC-TAATAT
1 ATATAATTTA-TACTTAATAT
*
39310502 ATATATTTTATACTTAATAT
1 ATATAATTTATACTTAATAT
39310522 CTAAGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATAATTTATACTTAATAT
Found at i:39319727 original size:17 final size:17
Alignment explanation
Indices: 39319702--39319735 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
39319692 TGTTGGTGCA
*
39319702 TATTTTCATTGCATTTT
1 TATTATCATTGCATTTT
39319719 TATTATCATTGCATTTT
1 TATTATCATTGCATTTT
39319736 AATGTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTATCATTGCATTTT
Found at i:39322817 original size:93 final size:93
Alignment explanation
Indices: 39322653--39322823 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
39322643 GGATGGTTGA
* * *
39322653 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGCTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
39322718 TCAGTCCGAGTTCGTGAGATGTAACTAG
66 TCAGTCCGAGTTCGTGAGATGTAACTAG
* * *
39322746 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGCTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
39322811 TGAGTCCGAGTTC
66 TCAGTCCGAGTTC
39322824 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGCTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TCAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39322826 original size:46 final size:46
Alignment explanation
Indices: 39322657--39322828 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
39322647 GGTTGAGCAT
* * * *
39322657 CCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
39322703 CCGAACTCGTTGAGTTCAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
39322748 ATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
39322796 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39322829 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.56
47 26 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:39331277 original size:40 final size:40
Alignment explanation
Indices: 39331248--39331378 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
39331238 GGACTAAGAT
* *
39331248 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
39331288 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
39331328 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
39331368 CCGAAGGCATT
1 CCGAAGGCATT
39331379 TGAACGAGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:39331344 original size:80 final size:80
Alignment explanation
Indices: 39331196--39331378 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
39331186 TTGAATGCTG
* * *
39331196 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAATCCGGACTAAGATCCGAAGGCATTC
39331260 GTGCGAGATACTAAA
66 GTGCGAGATACTAAA
* * * * **
39331275 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAAT-AATCCGGACTAAGAT-CCGAAGGCAT
* **
39331338 TCGTGCGAGTTGTTAAA
64 TCGTGCGAGATACTAAA
*
39331355 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39331379 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 26 0.30
80 61 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACTAAA
Found at i:39339126 original size:40 final size:40
Alignment explanation
Indices: 39339096--39339226 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
39339086 GGACTAAGAT
* *
39339096 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
39339136 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
39339176 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
39339216 CCGAAGGCATT
1 CCGAAGGCATT
39339227 TGAACGAGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:39339180 original size:80 final size:81
Alignment explanation
Indices: 39339043--39339226 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
39339033 TTGAATGCTG
* * *
39339043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
*
39339107 TGTGCGAGATACTAAA
66 CGTGCGAGATACTAAA
* * * * **
39339123 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* **
39339186 TCGTGCGAGTTGTTAAA
65 TCGTGCGAGATACTAAA
*
39339203 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39339227 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 80 0.92
81 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAA
Found at i:39341206 original size:93 final size:93
Alignment explanation
Indices: 39341047--39341217 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
39341037 GGAAGGTTGA
* * * *
39341047 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTGTGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
39341112 TGAGT-TCGAGTTCGTGAGATGTAACTAG
66 TGAGTCT-GAGTTCGTGAGATGTAACTAG
* * * *
39341140 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
39341205 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
39341218 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:39341210 original size:46 final size:46
Alignment explanation
Indices: 39341051--39341222 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
39341041 GGTTGAGCAT
* * * * * *
39341051 CCGAACTCATTGAGTTGAGTCCGAGTTCACCTGTGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * * *
39341097 CTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
39341142 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
39341190 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39341223 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 1 0.01
46 56 0.55
47 26 0.26
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:39356991 original size:14 final size:15
Alignment explanation
Indices: 39356964--39356992 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39356954 GAACTTTTAA
39356964 GTGGTTGAGTTGTGG
1 GTGGTTGAGTTGTGG
39356979 GTGGTTG-GTTGTGG
1 GTGGTTGAGTTGTGG
39356993 CTGAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.03, C:0.00, G:0.55, T:0.41
Consensus pattern (15 bp):
GTGGTTGAGTTGTGG
Found at i:39358529 original size:18 final size:18
Alignment explanation
Indices: 39358506--39358545 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
39358496 CATTATTTAT
39358506 TGCACTGTTTACTATTAC
1 TGCACTGTTTACTATTAC
* *
39358524 TGCACTGTTTAGTGTTAC
1 TGCACTGTTTACTATTAC
39358542 TGCA
1 TGCA
39358546 ATGGCCAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (18 bp):
TGCACTGTTTACTATTAC
Found at i:39361917 original size:13 final size:13
Alignment explanation
Indices: 39361899--39361926 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39361889 ACTGTTTGGC
39361899 AAACTCTTATGTT
1 AAACTCTTATGTT
39361912 AAACTCTTATGTT
1 AAACTCTTATGTT
39361925 AA
1 AA
39361927 GTGAACACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (13 bp):
AAACTCTTATGTT
Found at i:39363221 original size:16 final size:16
Alignment explanation
Indices: 39363200--39363231 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39363190 ATACCAAATA
39363200 CATAAAGCTTAGTAAG
1 CATAAAGCTTAGTAAG
39363216 CATAAAGCTTAGTAAG
1 CATAAAGCTTAGTAAG
39363232 TTTCATATAA
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:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
CATAAAGCTTAGTAAG
Found at i:39363567 original size:47 final size:48
Alignment explanation
Indices: 39363498--39363717 Score: 208
Period size: 46 Copynumber: 4.7 Consensus size: 48
39363488 TAAGGTACCA
* * ** *
39363498 ATGCCATGTCCCAAACACGGTCTTACACTAGCTTATATCTC-ATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGATGCCG
* * * *
39363545 ATGCCATGTCCTAGACATGGTCTTACACT-GAC-TATCCTATC-ATAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-CGTCTCGAT-GCCG
* * *
39363593 ATG-CATGTCCCAGAAAT-GTCTTACACTTGCTTACGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGATGCCG
39363639 ATG-CATGTCCCAGACAT-GTCTTACACTAGAAC-T-CGTCTCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG--CTTACGTCTCGATGCCG
*
39363685 ATGCCATGTCCCAAACATGGTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
39363718 CTCATAATGT
Statistics
Matches: 144, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
46 64 0.44
47 62 0.43
48 18 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGATGCCG
Found at i:39363693 original size:93 final size:93
Alignment explanation
Indices: 39363498--39363717 Score: 236
Period size: 93 Copynumber: 2.3 Consensus size: 93
39363488 TAAGGTACCA
* * * * *
39363498 ATGCCATGTCCCAAACACGGTCTTACACTAGCTTATATCTCATGTCGATGCCATGTCCTAGACAT
1 ATGCCATGTCCCAAACA-TGTCTTACACTAGCTTACATCTCAGGCCGATGCCATGTCCCAGACAT
*
39363563 GGTCTTACACTGACTATCCTATCATAGCTG
65 GGTCTTACACTGAC-ATCCTATCATAGCCG
* *
39363593 ATG-CATGTCCCAGAA-ATGTCTTACACTTGCTTACGTCTCGAGGCCGATG-CATGTCCCAGACA
1 ATGCCATGTCCCA-AACATGTCTTACACTAGCTTACATCTC-AGGCCGATGCCATGTCCCAGACA
* *
39363655 T-GTCTTACACTAGA-ACTCGTCTCGAT-GCCG
64 TGGTCTTACACT-GACA-TCCTATC-ATAGCCG
39363685 ATGCCATGTCCCAAACATGGTCTTACACTAGCT
1 ATGCCATGTCCCAAACAT-GTCTTACACTAGCT
39363718 CTCATAATGT
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
91 1 0.01
92 23 0.22
93 47 0.44
94 30 0.28
95 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
ATGCCATGTCCCAAACATGTCTTACACTAGCTTACATCTCAGGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACATCCTATCATAGCCG
Found at i:39363740 original size:47 final size:46
Alignment explanation
Indices: 39363502--39363741 Score: 154
Period size: 47 Copynumber: 5.1 Consensus size: 46
39363492 GTACCAATGC
* * * *
39363502 CATGTCCCAAACACGGTCTTACACTAGCTTATATCTCAT-GTCGATG
1 CATGTCCCAAACATGGTCTTACACTAGCTT-CATCTCGTGGCCGATG
* * * * * * *
39363548 CCATGTCCTAGACATGGTCTTACACT-GACTATCCTATCATAGCTGATG
1 -CATGTCCCAAACATGGTCTTACACTAG-CT-TCATCTCGTGGCCGATG
* * *
39363596 CATGTCCCAGAA-AT-GTCTTACACTTGCTTACGTCTCGAGGCCGATG
1 CATGTCCCA-AACATGGTCTTACACTAGCTT-CATCTCGTGGCCGATG
* *
39363642 CATGTCCCAGACAT-GTCTTACACTAGAAC-TCGTCTCGAT-GCCGATG
1 CATGTCCCAAACATGGTCTTACACTAG--CTTCATCTCG-TGGCCGATG
* *
39363688 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATAAT-GTGGCTGATG
1 -CATGTCCCAAACATGGTCTTACACTAGCT-TCAT-CTCGTGGCCGATG
39363736 CATGTC
1 CATGTC
39363742 ATAGACATGT
Statistics
Matches: 154, Mismatches: 23, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
45 2 0.01
46 60 0.39
47 61 0.40
48 30 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAAACATGGTCTTACACTAGCTTCATCTCGTGGCCGATG
Found at i:39371254 original size:57 final size:57
Alignment explanation
Indices: 39371160--39371300 Score: 183
Period size: 57 Copynumber: 2.5 Consensus size: 57
39371150 TATCATATAA
* * * *
39371160 TAGGAGTACCAGTTCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGTGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTCAAT
* * * *
39371217 TAGGATTACTAGTCCAGGCTAAATCCTTTCTCTAACATATGCTCAGAAGAGCTCAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTCAAT
* * *
39371274 TAGAATTGCCAGTCCAAGCTAAATCCT
1 TAGGATTACCAGTCCAGGCTAAATCCT
39371301 ATCTATAATG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (57 bp):
TAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTCAAT
Found at i:39374611 original size:39 final size:40
Alignment explanation
Indices: 39374568--39374697 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 40
39374558 TCCTCGTTCA
* *
39374568 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCAC-CC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACC
* ** * *
39374607 AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACC
* * ** *
39374647 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGTACA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACC
39374687 AATGCCTTCGG
1 AATGCCTTCGG
39374698 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 31 0.41
40 45 0.59
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACC
Found at i:39382493 original size:39 final size:40
Alignment explanation
Indices: 39382448--39382579 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
39382438 GCTCCTCGTT
* * *
39382448 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCAC-
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * **
39382487 CCAATGCCTTCGGGACATAACCCAGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
39382527 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
39382567 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39382580 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 32 0.41
40 46 0.59
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39382641 original size:41 final size:41
Alignment explanation
Indices: 39382564--39382641 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39382554 TTAGTATCTC
* * *
39382564 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39382605 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39382642 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39387452 original size:13 final size:13
Alignment explanation
Indices: 39387434--39387458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39387424 GATATAAATT
39387434 CACAAAAAATAAA
1 CACAAAAAATAAA
39387447 CACAAAAAATAA
1 CACAAAAAATAA
39387459 TTTTAAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:39390515 original size:101 final size:99
Alignment explanation
Indices: 39390332--39390515 Score: 233
Period size: 101 Copynumber: 1.8 Consensus size: 99
39390322 CTGGTACGCA
* * * * *
39390332 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTCCACGTAGTAGCCTACACTTA
1 TAGTAGCCTCCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTACACTTA
* *
39390397 GTACTGCACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGCGACCTAACCATTTGATACACG
* * * * *
39390431 TAGTAGCCTCCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTCCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTACACT
*
39390496 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
39390516 CACAATAGAT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
99 27 0.39
100 3 0.04
101 40 0.57
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTCCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATTTGATACACG
Found at i:39396176 original size:50 final size:49
Alignment explanation
Indices: 39396058--39396180 Score: 156
Period size: 50 Copynumber: 2.5 Consensus size: 49
39396048 CTGGTACGCA
* * ** * *
39396058 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTCCACG
1 TAGTAGCCTGCACTTAGTACTACAAAAGCGACCAACCATCCGATACACG
* **
39396107 TAGTAGCCTGCACTTAGTACTACAAAAGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACAAAAGCGACC-AACCATCCGATACACG
39396157 TAGTAGCCTGCACTTAGTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
39396181 CACGTGATCG
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
49 30 0.47
50 34 0.53
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACAAAAGCGACCAACCATCCGATACACG
Found at i:39396241 original size:101 final size:98
Alignment explanation
Indices: 39396058--39396241 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 98
39396048 CTGGTACGCA
* * *
39396058 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTCCACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGT-CACGTAGTACCCTGCACTTA
*
39396123 GTACTACAAAAGTGACCTAACCATTTGATACACG
65 GTACTACAAAAGCGACCTAACCATTTGATACACG
* *
39396157 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGT-ACGTATAGTACCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTCACG--TAGTACCCTGCAC
* *
39396221 TTAGTACTACACATGCGACCT
62 TTAGTACTACAAAAGCGACCT
39396242 CACAATAGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
99 32 0.44
100 3 0.04
101 38 0.52
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTCACGTAGTACCCTGCACTTAG
TACTACAAAAGCGACCTAACCATTTGATACACG
Found at i:39401865 original size:50 final size:48
Alignment explanation
Indices: 39401752--39401927 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 48
39401742 CTGGTACGCA
* * *
39401752 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGA-TACACG
* **
39401801 TAGTAGCCTCCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GATACACG
* * * *
39401851 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATC-GATACACG
*
39401902 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
39401928 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 30 0.28
50 43 0.40
51 35 0.32
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGATACACG
Done.