Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 10 of 250
Found at i:2858275 original size:34 final size:33
Alignment explanation
Indices: 2858232--2858316 Score: 104
Period size: 32 Copynumber: 2.6 Consensus size: 33
2858222 GAGTGGGGTT
*
2858232 TATAATATATATATATGCGTGTATGGGTGTTATA
1 TATAATATATATAT-TGCGTGCATGGGTGTTATA
*
2858266 TATAATATATAT-TTGGGTGCATGGGTGTTATA
1 TATAATATATATATTGCGTGCATGGGTGTTATA
*
2858298 TGT-ATA-ATATATCTGCGTG
1 TATAATATATATAT-TGCGTG
2858317 GTTCTGCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 4 0.09
31 4 0.09
32 24 0.53
33 1 0.02
34 12 0.27
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (33 bp):
TATAATATATATATTGCGTGCATGGGTGTTATA
Found at i:2858290 original size:32 final size:35
Alignment explanation
Indices: 2858232--2858309 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
2858222 GAGTGGGGTT
*
2858232 TATAATATATATATATGCGTGTATGGGTGTTATA-
1 TATAATATATATATATGCGTGCATGGGTGTTATAG
*
2858266 TATAATATATAT-T-TGGGTGCATGGGTGTTATATG
1 TATAATATATATATATGCGTGCATGGGTGTTATA-G
2858300 TATAATATAT
1 TATAATATAT
2858310 CTGCGTGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 17 0.43
33 1 0.03
34 22 0.55
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (35 bp):
TATAATATATATATATGCGTGCATGGGTGTTATAG
Found at i:2859442 original size:17 final size:17
Alignment explanation
Indices: 2859352--2859442 Score: 69
Period size: 17 Copynumber: 5.4 Consensus size: 17
2859342 ATGATGAAGC
2859352 ATGAACTGTTA-TTCGGT
1 ATGAACTGTTATTTC-GT
* *
2859369 ATGAACTGATATTTCAT
1 ATGAACTGTTATTTCGT
* * *
2859386 ATGAACTATTATTTTGC
1 ATGAACTGTTATTTCGT
* * *
2859403 ATGAGCTGTCATTTGGT
1 ATGAACTGTTATTTCGT
*
2859420 -TAGAACTGTTATTTCAT
1 AT-GAACTGTTATTTCGT
2859437 ATGAAC
1 ATGAAC
2859443 AGATGTTTGG
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
16 1 0.02
17 50 0.91
18 4 0.07
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (17 bp):
ATGAACTGTTATTTCGT
Found at i:2860921 original size:69 final size:68
Alignment explanation
Indices: 2860790--2860921 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
2860780 TTTAATAGTT
* * * * * **
2860790 TTAATATTAAATTTAATTTACTACCTATCTTAATAGTGTTTTATTAATTTAATATTTTAGTGATT
1 TTAATATTAAATATAATCTAATACCTATCTTAATAGTATTATATTAATTTAATATTAAAGTGATT
2860855 ATC
66 ATC
** *
2860858 TTAATATTAAATATAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGA
1 TTAATATTAAATATAATCTAATACCTATCTTAAT-AGTATTATATTAATTTAATATTAAAGTGA
2860922 GTAAGTTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
68 28 0.53
69 25 0.47
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (68 bp):
TTAATATTAAATATAATCTAATACCTATCTTAATAGTATTATATTAATTTAATATTAAAGTGATT
ATC
Found at i:2863032 original size:51 final size:51
Alignment explanation
Indices: 2862956--2863075 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
2862946 CTCAAACTTA
* *
2862956 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * *
2863007 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
*
2863058 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
2863076 TAACTTAGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:2868779 original size:17 final size:16
Alignment explanation
Indices: 2868759--2868799 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
2868749 TTTTCAAAGG
2868759 CCCAAATTAACCCTAAA
1 CCCAAATTAACCCT-AA
**
2868776 CCCAAACAAACCCTAA
1 CCCAAATTAACCCTAA
2868792 CCCAAATT
1 CCCAAATT
2868800 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCAAATTAACCCTAA
Found at i:2870664 original size:17 final size:18
Alignment explanation
Indices: 2870624--2870664 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2870614 TTGTAATTTA
2870624 TTTGTATAATATTTCATC
1 TTTGTATAATATTTCATC
* *
2870642 TATGTATAA-ATTTCATG
1 TTTGTATAATATTTCATC
2870659 TTTGTA
1 TTTGTA
2870665 ACTTTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (18 bp):
TTTGTATAATATTTCATC
Found at i:2873349 original size:23 final size:23
Alignment explanation
Indices: 2873315--2873396 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
2873305 TGGCTATCCA
* *
2873315 GAGCTTCCCGATAGGCTCTTTGC
1 GAGCTTCTCGATAGGCTCTTTGT
* *
2873338 GAGCTTTTCGATAGGCTTTTTGT
1 GAGCTTCTCGATAGGCTCTTTGT
* * *
2873361 AAGCTTCCCGATAGGCTCTTCGT
1 GAGCTTCTCGATAGGCTCTTTGT
2873384 GAGCTTCTCGATA
1 GAGCTTCTCGATA
2873397 TGATTCCTTG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
GAGCTTCTCGATAGGCTCTTTGT
Found at i:2875945 original size:21 final size:22
Alignment explanation
Indices: 2875921--2875961 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
2875911 TCCCTTCAGT
2875921 GGTATCGCGATATCC-CCTCTA
1 GGTATCGCGATATCCACCTCTA
2875942 GGTATCGCGATATCCACCTC
1 GGTATCGCGATATCCACCTC
2875962 CCAAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (22 bp):
GGTATCGCGATATCCACCTCTA
Found at i:2876223 original size:11 final size:11
Alignment explanation
Indices: 2876209--2876271 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
2876199 TTTTAGGTTA
2876209 GTTTTCTTTAG
1 GTTTTCTTTAG
2876220 GTTTTCTTTAG
1 GTTTTCTTTAG
* * *
2876231 TTTTTCTGTAC
1 GTTTTCTTTAG
* *
2876242 ATTTT-TCTAG
1 GTTTTCTTTAG
*
2876252 G-GTTCTTTAG
1 GTTTTCTTTAG
2876262 GTTTTCTTTA
1 GTTTTCTTTA
2876272 CTTATTGTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
9 2 0.05
10 8 0.20
11 30 0.75
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.62
Consensus pattern (11 bp):
GTTTTCTTTAG
Found at i:2878112 original size:16 final size:19
Alignment explanation
Indices: 2878080--2878117 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
2878070 GTAATTATAA
2878080 TTAAGTTGAGAAAATT-AT
1 TTAAGTTGAGAAAATTAAT
2878098 TTAA-TTGAG-AAATTAAT
1 TTAAGTTGAGAAAATTAAT
2878115 TTA
1 TTA
2878118 GTTAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 10 0.53
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
TTAAGTTGAGAAAATTAAT
Found at i:2878124 original size:9 final size:9
Alignment explanation
Indices: 2878108--2878148 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
2878098 TTAATTGAGA
2878108 AATTAATTT
1 AATTAATTT
*
2878117 AGTTAATTT
1 AATTAATTT
2878126 AATTAATTT
1 AATTAATTT
2878135 AATTAATTT
1 AATTAATTT
2878144 -ATTAA
1 AATTAA
2878149 ATGATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 5 0.17
9 25 0.83
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
AATTAATTT
Found at i:2878751 original size:44 final size:44
Alignment explanation
Indices: 2878703--2878804 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
2878693 GTTTATTTAA
*
2878703 AAAAATGCCACTAAAAGTCGGGACCATTAGCGGCACTTTTCTCG
1 AAAAACGCCACTAAAAGTCGGGACCATTAGCGGCACTTTTCTCG
* * * * *
2878747 AAAAACGCCGCTAAAGGTCTGGACCATTAGCGGCGCTTTTCCCG
1 AAAAACGCCACTAAAAGTCGGGACCATTAGCGGCACTTTTCTCG
* *
2878791 -CAAACGCCGCTAAA
1 AAAAACGCCACTAAA
2878805 GGTCATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 13 0.25
44 38 0.75
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (44 bp):
AAAAACGCCACTAAAAGTCGGGACCATTAGCGGCACTTTTCTCG
Found at i:2878992 original size:16 final size:16
Alignment explanation
Indices: 2878967--2878997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2878957 ACTACACCAG
*
2878967 AAATATAACAAAATAC
1 AAATAGAACAAAATAC
2878983 AAATAGAACAAAATA
1 AAATAGAACAAAATA
2878998 ATGATAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.03, T:0.16
Consensus pattern (16 bp):
AAATAGAACAAAATAC
Found at i:2882890 original size:13 final size:13
Alignment explanation
Indices: 2882872--2882896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2882862 TTTCAAAGTG
2882872 AAAAAAAAAACAA
1 AAAAAAAAAACAA
2882885 AAAAAAAAAACA
1 AAAAAAAAAACA
2882897 GCAGACTTCA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:2885240 original size:15 final size:15
Alignment explanation
Indices: 2885193--2885241 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
2885183 CCCCTATCAC
*
2885193 CACCTCTTCCACCAC
1 CACCTCTTCCACCAT
* *
2885208 CTCCTCTTCC-TC-T
1 CACCTCTTCCACCAT
2885221 C-CCTCTTCCACCAT
1 CACCTCTTCCACCAT
2885235 CACCTCT
1 CACCTCT
2885242 GCCCCTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 3 0.11
15 14 0.52
ACGTcount: A:0.12, C:0.57, G:0.00, T:0.31
Consensus pattern (15 bp):
CACCTCTTCCACCAT
Found at i:2886529 original size:21 final size:21
Alignment explanation
Indices: 2886503--2886588 Score: 91
Period size: 21 Copynumber: 3.9 Consensus size: 21
2886493 ACTCCTAAAC
2886503 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
* * *
2886524 CTTAAACCATTAGTTAACTCATAAAC
1 CTTAAACC-CTA---AAC-CATATAT
2886550 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
*
2886571 CTTAAACCATAAACCATA
1 CTTAAACCCTAAACCATA
2886589 AACTATAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 30 0.57
22 5 0.09
25 5 0.09
26 13 0.25
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCCTAAACCATATAT
Found at i:2886541 original size:47 final size:47
Alignment explanation
Indices: 2886487--2886580 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
2886477 CTTCAAACAC
*
2886487 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCAT
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCAT
2886534 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCAT
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCAT
2886581 AAACCATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (47 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCAT
Found at i:2886553 original size:26 final size:26
Alignment explanation
Indices: 2886469--2886557 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 26
2886459 CCATAATTCA
2886469 TCATAAACCTTCAAA-CACTAGTTAAC
1 TCATAAACCTT-AAACCACTAGTTAAC
*
2886495 TCCTAAACCTTAAACC-CTA---AAC
1 TCATAAACCTTAAACCACTAGTTAAC
* * *
2886517 -CATATATCTTAAACCATTAGTTAAC
1 TCATAAACCTTAAACCACTAGTTAAC
2886542 TCATAAACCTTAAACC
1 TCATAAACCTTAAACC
2886558 CTAAACCATA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
21 12 0.24
22 5 0.10
25 9 0.18
26 24 0.48
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (26 bp):
TCATAAACCTTAAACCACTAGTTAAC
Found at i:2886557 original size:7 final size:7
Alignment explanation
Indices: 2886543--2886596 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
2886533 TTAGTTAACT
2886543 CATAAAC
1 CATAAAC
*
2886550 CTTAAAC
1 CATAAAC
*
2886557 CCTAAAC
1 CATAAAC
* *
2886564 CATATAT
1 CATAAAC
*
2886571 CTTAAAC
1 CATAAAC
2886578 CATAAAC
1 CATAAAC
2886585 CATAAAC
1 CATAAAC
*
2886592 TATAA
1 CATAA
2886597 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:2886806 original size:24 final size:24
Alignment explanation
Indices: 2886779--2886826 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2886769 GTTTTTAGCG
*
2886779 GCGTTTTGCTAAAAGCGCCGCTAA
1 GCGTTTTGCTAAAAGCGCCACTAA
*
2886803 GCGTTTTTCTAAAAGCGCCACTAA
1 GCGTTTTGCTAAAAGCGCCACTAA
2886827 TGCTCTGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (24 bp):
GCGTTTTGCTAAAAGCGCCACTAA
Found at i:2886842 original size:65 final size:65
Alignment explanation
Indices: 2886738--2886867 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
2886728 ACTTTTAGCG
* *
2886738 GCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCTAAAAGCGCCGCTAA
1 GCGTTTTGCCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAA
* *
2886803 GCGTTTTTCTAAAAGCGCCACTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAA
1 GCGTTTTGCCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAA
2886868 TGCTCTGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (65 bp):
GCGTTTTGCCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAA
Found at i:2886973 original size:41 final size:41
Alignment explanation
Indices: 2886803--2886975 Score: 219
Period size: 41 Copynumber: 4.2 Consensus size: 41
2886793 GCGCCGCTAA
* *
2886803 GCGTTTTT-CTAAAAGCGCCACTAATGCTCTGGTTTTTAGCG
1 GCGTTTTTGCCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCG
2886844 GCG-TTTTGCCAAAAGCGCCGCTAATGCTCTGTTTTTTAGCG
1 GCGTTTTTGCCAAAAGCGCCGCTAATGCTCTG-TTTTTAGCG
* *
2886885 GCG-TTTTGCCAAAAGCGCCGCTAATGCTCTGTTTTTCGCA
1 GCGTTTTTGCCAAAAGCGCCGCTAATGCTCTGTTTTTAGCG
* * * *
2886925 GCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGTTTTTAGTG
1 GCG-TTTTTGCCAAAAGCGCCGCTAATGCTCTGTTTTTAGCG
2886966 GCGTTTTTGC
1 GCGTTTTTGC
2886976 TATTGCTATG
Statistics
Matches: 117, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
40 21 0.18
41 87 0.74
42 9 0.08
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (41 bp):
GCGTTTTTGCCAAAAGCGCCGCTAATGCTCTGTTTTTAGCG
Found at i:2890748 original size:12 final size:12
Alignment explanation
Indices: 2890731--2890756 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2890721 AACTCTCTCT
2890731 CTCGCTCGTTCG
1 CTCGCTCGTTCG
2890743 CTCGCTCGTTCG
1 CTCGCTCGTTCG
2890755 CT
1 CT
2890757 TGTTCCTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.42, G:0.23, T:0.35
Consensus pattern (12 bp):
CTCGCTCGTTCG
Found at i:2892702 original size:43 final size:43
Alignment explanation
Indices: 2892641--2892726 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
2892631 GTTTTGTAGG
2892641 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
1 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
2892684 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
1 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
2892727 ACTTTGTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (43 bp):
TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
Found at i:2893731 original size:32 final size:33
Alignment explanation
Indices: 2893688--2893767 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
2893678 TTGTCTTGAT
*
2893688 GGAACTGTTGCTTACTGT-TGAGT-TTCTTCCAG
1 GGAACTGTTGCTTACTGTCTGA-TCATCTTCCAG
* * *
2893720 GTAACTGTTGCTTA-TTTCTTATCATCTTCCAG
1 GGAACTGTTGCTTACTGTCTGATCATCTTCCAG
2893752 GGAACTGTTGCTTACT
1 GGAACTGTTGCTTACT
2893768 ACTTACTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 3 0.08
32 36 0.90
33 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (33 bp):
GGAACTGTTGCTTACTGTCTGATCATCTTCCAG
Found at i:2895780 original size:13 final size:14
Alignment explanation
Indices: 2895753--2895781 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2895743 GTAAACTCTT
2895753 AAGCGAATAAGAAA
1 AAGCGAATAAGAAA
2895767 AAGCGAAT-AGAAA
1 AAGCGAATAAGAAA
2895780 AA
1 AA
2895782 TCATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (14 bp):
AAGCGAATAAGAAA
Found at i:2915237 original size:26 final size:26
Alignment explanation
Indices: 2915201--2915271 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
2915191 CTCAATAGAA
*
2915201 CTTACTATCCATCAGCTC-AGGAGGAG
1 CTTACTGTCCATCAGCTCGA-GAGGAG
*
2915227 CTTATTGTCCATCAGCTCGAGAGGAG
1 CTTACTGTCCATCAGCTCGAGAGGAG
*
2915253 CTTACTGTTCAT-AGCTCGA
1 CTTACTGTCCATCAGCTCGA
2915272 AAAGGAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.17
26 32 0.80
27 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTACTGTCCATCAGCTCGAGAGGAG
Found at i:2919658 original size:53 final size:53
Alignment explanation
Indices: 2919588--2919692 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 53
2919578 GTATTATTTG
* *
2919588 GTAATGCCTCGTAACCCTATTCTGGCGACAGAGACGGGTTAGGGGTGTTACAA
1 GTAATACCTCGTAACCCTATTCTAGCGACAGAGACGGGTTAGGGGTGTTACAA
* *
2919641 GTAATACCTCGTAACCCTATTCTAGCGACGGATACGGGTTAGGGGTGTTACA
1 GTAATACCTCGTAACCCTATTCTAGCGACAGAGACGGGTTAGGGGTGTTACA
2919693 TTTCCACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (53 bp):
GTAATACCTCGTAACCCTATTCTAGCGACAGAGACGGGTTAGGGGTGTTACAA
Found at i:2927763 original size:16 final size:16
Alignment explanation
Indices: 2927738--2927768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2927728 CACAAAATAT
2927738 TTTTTAATTTTTTCTC
1 TTTTTAATTTTTTCTC
*
2927754 TTTTTCATTTTTTCT
1 TTTTTAATTTTTTCT
2927769 TGATTTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTAATTTTTTCTC
Found at i:2927766 original size:18 final size:18
Alignment explanation
Indices: 2927745--2927794 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2927735 TATTTTTTAA
*
2927745 TTTTTTCTCTTTTTC-AT
1 TTTTTTTTCTTTTTCAAT
**
2927762 TTTTTCTTGATTTTTCAAT
1 TTTTT-TTTCTTTTTCAAT
2927781 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
2927795 TTTGTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.19
18 14 0.54
19 7 0.27
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTTCTTTTTCAAT
Found at i:2943565 original size:21 final size:22
Alignment explanation
Indices: 2943541--2943585 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
2943531 TATTTAACCC
*
2943541 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
2943562 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
2943584 AA
1 AA
2943586 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:2944687 original size:325 final size:329
Alignment explanation
Indices: 2944081--2944732 Score: 1028
Period size: 325 Copynumber: 2.0 Consensus size: 329
2944071 TCTTGATGAA
* * * *
2944081 GGTTTGAAGATTATTGATGCAAGATTCAACAATTCGATGGAAGAATGATTTAGTTGAGACTTGAT
1 GGTTTGAAGATTATTGATGAAAGATTCAACAATTCGAGGGAAGAATGATTTAATCGAGACTTGAT
* *
2944146 TTCAATTTAGGATTTAAAAGATTAATTTTCCAGCAATGAAGGTAAAATATTTTATAAAAAGAAAA
66 TTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATGAAGGCAAAATATTTTATAAAAAGAAAA
* *
2944211 GAGGGAAAATAAAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGGAA
131 GAGAGAAAAT--AAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGAAA
* *
2944276 AGGATTCAAAATCATAGTATAAGTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGAGGG
194 AGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGG
* * * *
2944341 TTGATTGGGAAAATAACCCATCTACTAAAAATTAAGAAAATGAGAGGGGGAATGGCACGCTTTGA
259 ATGATTAGGAAAATAACCCATCTACCAAAAAGTAAGAAAATGAGAGGGGGAATGGCACGCTTTGA
2944406 ACATGG
324 ACATGG
*
2944412 GGTTTGAAGA-TATTGATGAAAGATTCAACAATTC-AGGGGAAGAATGATTTAATCGGGACTTGA
1 GGTTTGAAGATTATTGATGAAAGATTCAACAATTCGA-GGGAAGAATGATTTAATCGAGACTTGA
2944475 TTTCAATTTAGGATTCAAAAGATTAAGTTTT-CAGCAATGAAGGCAAAATATTTTAT-AAAAGAA
65 TTTCAATTTAGGATTCAAAAGATTAA-TTTTCCAGCAATGAAGGCAAAATATTTTATAAAAAGAA
* *
2944538 GAGAGAGAAAAT-A-AAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGTTGAAA
129 AAGAGAGAAAATAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGAAA
2944601 AGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGG
194 AGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGG
* * * * *
2944666 ATGTTTAGGCAAATAACCCATCTACCGAAAAGTAAGAAAATGGGAGGGGGAATGGCATGCTTTGA
259 ATGATTAGGAAAATAACCCATCTACCAAAAAGTAAGAAAATGAGAGGGGGAATGGCACGCTTTGA
2944731 AC
324 AC
2944733 CTAGAAGCAA
Statistics
Matches: 297, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
325 169 0.57
326 1 0.00
329 18 0.06
330 95 0.32
331 14 0.05
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (329 bp):
GGTTTGAAGATTATTGATGAAAGATTCAACAATTCGAGGGAAGAATGATTTAATCGAGACTTGAT
TTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATGAAGGCAAAATATTTTATAAAAAGAAAA
GAGAGAAAATAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGAAAAG
GATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGGAT
GATTAGGAAAATAACCCATCTACCAAAAAGTAAGAAAATGAGAGGGGGAATGGCACGCTTTGAAC
ATGG
Found at i:2944973 original size:15 final size:16
Alignment explanation
Indices: 2944948--2944980 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2944938 TTAATGTAAC
2944948 AAATATTTTAATATGT
1 AAATATTTTAATATGT
2944964 AAAT-TTTTAATATGT
1 AAATATTTTAATATGT
2944979 AA
1 AA
2944981 TATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AAATATTTTAATATGT
Found at i:2946960 original size:86 final size:87
Alignment explanation
Indices: 2946799--2947014 Score: 253
Period size: 86 Copynumber: 2.5 Consensus size: 87
2946789 TTAAGATTGT
* * *
2946799 AAAAA-GCCCTCAAAC-TTAAAAAAAAAAGCAATTAAGCCCCTCTTTTTTTTTTGCACTCAATTG
1 AAAAAGGCCCTCAAACTTTTAAAAAAAAAGCAATTAA-ACCC-C-TATTTTTTTGCACTCAATTG
*
2946862 AGAACTTGAACTTTCAAAATACATC
63 AGAACTTGAACTTTCAAAATACATA
*
2946887 AAAAAGGCCCTCAAACTTCTTAAAAAAAAAGCAATTAAACCCC-ATTTTTTT-CACTCAATTGGG
1 AAAAAGGCCCTCAAACTT-TTAAAAAAAAAGCAATTAAACCCCTATTTTTTTGCACTCAATTGAG
* *
2946950 TACTTGAACTTTCAAAATATATA
65 AACTTGAACTTTCAAAATACATA
* * ** *
2946973 AAAAAGACCCTCAAAATTTT-TCAAAAAAGCAATTAAGCCCCT
1 AAAAAGGCCCTCAAACTTTTAAAAAAAAAGCAATTAAACCCCT
2947015 GCTCTTAATA
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
84 18 0.16
85 2 0.02
86 47 0.42
87 7 0.06
88 5 0.04
89 11 0.10
90 4 0.04
91 18 0.16
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (87 bp):
AAAAAGGCCCTCAAACTTTTAAAAAAAAAGCAATTAAACCCCTATTTTTTTGCACTCAATTGAGA
ACTTGAACTTTCAAAATACATA
Found at i:2947116 original size:39 final size:39
Alignment explanation
Indices: 2947042--2947121 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
2947032 GAAAAAAATT
*
2947042 ATAAAAAATAATAAATTTTAGAAACATTATTAAATTTTA
1 ATAAAAAATAATAAATTTTAGAAACATTATTAAATTATA
*
2947081 ATAAAAATATAA-AAATTTTTGAAA-A-TATTAAAAATTATA
1 ATAAAAA-ATAATAAATTTTAGAAACATTATT--AAATTATA
2947120 AT
1 AT
2947122 TTTTTTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
37 4 0.11
38 1 0.03
39 27 0.75
40 4 0.11
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (39 bp):
ATAAAAAATAATAAATTTTAGAAACATTATTAAATTATA
Found at i:2947179 original size:19 final size:18
Alignment explanation
Indices: 2947124--2947180 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
2947114 ATTATAATTT
2947124 TTTTATAAAAATCGTAAAA
1 TTTTATAAAAATC-TAAAA
*** *
2947143 AAATAAAAAAATTCTAAAA
1 TTTTATAAAAA-TCTAAAA
2947162 TTTTATAAAAATCATAAAA
1 TTTTATAAAAATC-TAAAA
2947181 AAAATTAATG
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
18 2 0.07
19 24 0.86
20 2 0.07
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TTTTATAAAAATCTAAAA
Found at i:2947580 original size:47 final size:47
Alignment explanation
Indices: 2947477--2947583 Score: 110
Period size: 47 Copynumber: 2.2 Consensus size: 47
2947467 ATTTTTTACG
* *
2947477 ATTTTTATATATATATTTTTCTAATTTTTATTATTTGAATTTTTTATTA
1 ATTTTTA-ATA-ATATTTATCTAATTTTAATTATTTGAATTTTTTATTA
** * *
2947526 AAATTTAATAATATTTAT-TGATTTTAATTTTTTGTAATTTTTT-TCTA
1 ATTTTTAATAATATTTATCTAATTTTAATTATTTG-AATTTTTTAT-TA
2947573 ATTTTTAATAA
1 ATTTTTAATAA
2947584 GAGTAGGGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
46 14 0.29
47 26 0.54
48 3 0.06
49 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (47 bp):
ATTTTTAATAATATTTATCTAATTTTAATTATTTGAATTTTTTATTA
Found at i:2947696 original size:91 final size:91
Alignment explanation
Indices: 2947592--2947762 Score: 247
Period size: 92 Copynumber: 1.9 Consensus size: 91
2947582 AAGAGTAGGG
** * * *
2947592 GCTTAATTGCTTTTTTGAAAAA-GTT-TGAGATTTTTTTAATACATTTTGAAAGTTTAAGTACCC
1 GCTTAATTGCTTTTTT-AAAAAGGTTCAAAGACTTTTTTAATACATTTTAAAAGTTTAAATACCC
*
2947655 AAATAAATGTAAAAAAAGAAAAGTAAGA
65 AAAT-AATATAAAAAAAGAAAAGTAAGA
*
2947683 GCTTAATTGCTTTTTTAAAAAGGTTCAAAGGCTTTTTTAATACATTTTAAAAGTTTAAATACCCA
1 GCTTAATTGCTTTTTTAAAAAGGTTCAAAGACTTTTTTAATACATTTTAAAAGTTTAAATACCCA
2947748 AATAATATAAAAAAA
66 AATAATATAAAAAAA
2947763 ATAAAGATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
90 5 0.07
91 30 0.42
92 36 0.51
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (91 bp):
GCTTAATTGCTTTTTTAAAAAGGTTCAAAGACTTTTTTAATACATTTTAAAAGTTTAAATACCCA
AATAATATAAAAAAAGAAAAGTAAGA
Found at i:2955147 original size:13 final size:13
Alignment explanation
Indices: 2955129--2955153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2955119 GTCCTGGTGA
2955129 TCTAGTAAAACAC
1 TCTAGTAAAACAC
2955142 TCTAGTAAAACA
1 TCTAGTAAAACA
2955154 AAAGTTACCA
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:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
TCTAGTAAAACAC
Found at i:2957791 original size:114 final size:114
Alignment explanation
Indices: 2957591--2957807 Score: 380
Period size: 114 Copynumber: 1.9 Consensus size: 114
2957581 GCCTAACCTT
*
2957591 CTTTTTTTTGGCCTAATAACAAATTCAACCTTCCAATATTTCTAATTTTATTAATTTGATCCTAA
1 CTTTTTTTTGGCCTAATAACAAATTCAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAA
* *
2957656 ATCTAAAGAAATCAACGAATTTAGCCCTTAATGTTTTATATATAGTTCA
66 ATCTAAAGAAACCAAAGAATTTAGCCCTTAATGTTTTATATATAGTTCA
* *
2957705 CTTTTTTTTGGCCTAATAACAAATTTAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAC
1 CTTTTTTTTGGCCTAATAACAAATTCAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAA
*
2957770 ATCTAAAGCAACCAAAGAATTTAGCCCTTAATGTTTTA
66 ATCTAAAGAAACCAAAGAATTTAGCCCTTAATGTTTTA
2957808 ATTCTAATTC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (114 bp):
CTTTTTTTTGGCCTAATAACAAATTCAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAA
ATCTAAAGAAACCAAAGAATTTAGCCCTTAATGTTTTATATATAGTTCA
Found at i:2958130 original size:61 final size:62
Alignment explanation
Indices: 2958034--2958199 Score: 167
Period size: 61 Copynumber: 2.7 Consensus size: 62
2958024 GAATTAAAAT
* * ** * * *
2958034 TAAATTGACAAATTTTGTAATTGTTGAGTGATAAATTTATT-GAGTTTTTTAACATTTAA-AC
1 TAAATTGACAAATTTTGTAAATATTGAAAGTTAAATTTATTAAACTTTTTT-ACATTTAAGAC
* * *
2958095 TACAA-TGACAAATTTTGTAAATATTGAAAGTTAAATTTGTTAAACTTTTTTATATTTAAGAT
1 TA-AATTGACAAATTTTGTAAATATTGAAAGTTAAATTTATTAAACTTTTTTACATTTAAGAC
* * *
2958157 TAAATTGATAAATTGTGTAAATATTGAAAAATTAAATTTATTA
1 TAAATTGACAAATTTTGTAAATATTG-AAAGTTAAATTTATTA
2958200 TTAGATCAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
61 41 0.48
62 31 0.36
63 14 0.16
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.45
Consensus pattern (62 bp):
TAAATTGACAAATTTTGTAAATATTGAAAGTTAAATTTATTAAACTTTTTTACATTTAAGAC
Found at i:2958675 original size:13 final size:13
Alignment explanation
Indices: 2958657--2958682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2958647 CTAAAAAAAA
2958657 CATCATCTAATTT
1 CATCATCTAATTT
2958670 CATCATCTAATTT
1 CATCATCTAATTT
2958683 AAATATAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CATCATCTAATTT
Found at i:2964994 original size:12 final size:13
Alignment explanation
Indices: 2964979--2965007 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2964969 ATATATTTTT
2964979 ATATAAAAAA-TA
1 ATATAAAAAATTA
2964991 ATATAAAAAATTA
1 ATATAAAAAATTA
2965004 ATAT
1 ATAT
2965008 GGACGGATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:2966237 original size:99 final size:99
Alignment explanation
Indices: 2966057--2966240 Score: 248
Period size: 99 Copynumber: 1.9 Consensus size: 99
2966047 AAGCAAAGCC
* *
2966057 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAACCTAGTTATAGGAAATCG
1 ATGGAAGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAACCGAGTTATAGGAAATCG
* **
2966122 AGTTATGATAGATCAGATGAAAGAGAAGAAGGAT
66 AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
* **
2966156 ATGGAGGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAGTCGAGTTATAGAAGAAAT
1 ATGGAAGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAACCGAGTTATAG--GAAAT
2966221 -GA-TGACAAT-GATTCAGATGA
64 CGAGTGACAATAGA-TCAGATGA
2966241 TGAAAGGAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
98 2 0.03
99 65 0.88
100 2 0.03
101 5 0.07
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.21
Consensus pattern (99 bp):
ATGGAAGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAACCGAGTTATAGGAAATCG
AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
Found at i:2969612 original size:16 final size:16
Alignment explanation
Indices: 2969591--2969624 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2969581 TCTTTTACAA
2969591 ATATATATATATAATC
1 ATATATATATATAATC
*
2969607 ATATATATATATAGTC
1 ATATATATATATAATC
2969623 AT
1 AT
2969625 TATCAGTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
ATATATATATATAATC
Found at i:2971364 original size:42 final size:41
Alignment explanation
Indices: 2971256--2971771 Score: 351
Period size: 41 Copynumber: 12.9 Consensus size: 41
2971246 AGTCGAGAAA
* *
2971256 TAGCGGCATTTTCAGAAAAACGCCGCCAAAAGTCTGAGAAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * **
2971297 TCGCGACATTTTTCCAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
2971338 TAGCGGCATTTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCA-TTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* ****** ** * ** *
2971380 CTA----AAAACGCCGCCAAA-G--GTC-TGAG-CGTTAGC--
1 -TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTC-TGAGCAT
* * ** *
2971412 -GGC-G-TTTTTTACCAAAACGCCGCCAAAGGTCTGAGCAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * * * *
2971450 TAGCGGCGTTTTTGGAAAAGCGACGCTAAAAGCCTGAGCAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * * *
2971491 TAGCGACGTTGTTGGAAAAACGCCGCTAAAAGTCTGAGCAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
2971532 TAGCGGCATTGTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * * * *
2971573 TTGCGGCGTTTTTGGAAAAAAGCCGCTAAAAGTCTGAGAAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
2971614 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
2971655 TAGCGGCGTTTTTGGAAAAATGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
2971696 TCGCAGCGTTTTTGGAAAAACGCCGCCAAAAGTC-GAAGCAT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTG-AGCAT
* * * * *
2971737 TAGCGGCGTTTTTGGAGAAACGCCGCTAAACGTCT
1 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCT
2971772 TTTTTGAATT
Statistics
Matches: 379, Mismatches: 78, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
32 4 0.01
33 2 0.01
34 6 0.02
35 4 0.01
36 5 0.01
37 2 0.01
38 4 0.01
39 3 0.01
40 2 0.01
41 314 0.83
42 31 0.08
43 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:2971429 original size:70 final size:70
Alignment explanation
Indices: 2971312--2971449 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
2971302 ACATTTTTCC
*
2971312 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTTAGAAAAACGCCGCCAAAAGTCTGAG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTTACAAAAACGCCGCCAAAAGTCTGAG
2971377 CATCT
66 CATCT
* * * * *
2971382 AAAAACGCCGCCAAAGGTCTGAGCGTTAGCGGCGTTTTTTACCAAAACGCCGCCAAAGGTCTGAG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTTACAAAAACGCCGCCAAAAGTCTGAG
2971447 CAT
66 CAT
2971450 TAGCGGCGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (70 bp):
AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTTACAAAAACGCCGCCAAAAGTCTGAG
CATCT
Found at i:2971487 original size:41 final size:41
Alignment explanation
Indices: 2971382--2971771 Score: 505
Period size: 41 Copynumber: 9.5 Consensus size: 41
2971372 CTGAGCATCT
* * *
2971382 AAAAACGCCGCCAAAGGTCTGAGCGTTAGCGGCGTTTTT-T
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
*
2971422 ACCAAAACGCCGCCAAAGGTCTGAGCATTAGCGGCGTTTTTGG
1 A--AAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
* * * * * *
2971465 AAAAGCGACGCTAAAAGCCTGAGCATTAGCGACGTTGTTGG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
* * *
2971506 AAAAACGCCGCTAAAAGTCTGAGCATTAGCGGCATTGTTGG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
*
2971547 AAAAACGCCGCCAAAAGTCTGAGCATTTGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
* * *
2971588 AAAAAAGCCGCTAAAAGTCTGAGAATTAGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
* *
2971629 GAAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
* * * *
2971670 AAAAATGCCGCCAAAAGTCTGAGTATTCGCAGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
2971711 AAAAACGCCGCCAAAAGTC-GAAGCATTAGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTG-AGCATTAGCGGCGTTTTTGG
* * *
2971752 AGAAACGCCGCTAAACGTCT
1 AAAAACGCCGCCAAAAGTCT
2971772 TTTTTGAATT
Statistics
Matches: 308, Mismatches: 37, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
40 2 0.01
41 268 0.87
42 37 0.12
43 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGG
Found at i:2971938 original size:7 final size:7
Alignment explanation
Indices: 2971926--2971950 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2971916 GGGTTTGATA
2971926 TTTAGTG
1 TTTAGTG
2971933 TTTAGTG
1 TTTAGTG
2971940 TTTAGTG
1 TTTAGTG
2971947 TTTA
1 TTTA
2971951 TGATCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (7 bp):
TTTAGTG
Found at i:2972853 original size:14 final size:14
Alignment explanation
Indices: 2972811--2972853 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2972801 GCGGTATTAA
2972811 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
2972825 TGG-TTAGGGGTTAG
1 -GGTTTAAGGGTTAG
*
2972839 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
2972853 G
1 G
2972854 AGATAAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.33
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:2973362 original size:21 final size:21
Alignment explanation
Indices: 2973303--2973380 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
2973293 ATTTAGTATC
*
2973303 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
2973324 TATAAGGTTAGTGGTTTATGGTT
1 TA-GAGTTTAG-GGTTTATGGTT
* *
2973347 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
2973368 TA-AGGTTTAGGGT
1 TAGA-GTTTAGGGT
2973381 CTGATTTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 1 0.02
21 22 0.48
22 13 0.28
23 10 0.22
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:2974805 original size:24 final size:26
Alignment explanation
Indices: 2974778--2974832 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
2974768 AATTTTTTTA
*
2974778 ATTAAT-CGAAATTTTT-TATCTAAT
1 ATTAATCCGAAATTTTTATATATAAT
* *
2974802 ATT-ATCCTAAATTTTTATATATTAT
1 ATTAATCCGAAATTTTTATATATAAT
2974827 ATTAAT
1 ATTAAT
2974833 TTAATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 9 0.36
26 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAATCCGAAATTTTTATATATAAT
Found at i:2976788 original size:21 final size:21
Alignment explanation
Indices: 2976762--2976860 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
2976752 TAACTCACGT
*
2976762 AACCTACATAATTTACATAAC
1 AACCTACATAACTTACATAAC
2976783 AACCTACATAACTTACAT---
1 AACCTACATAACTTACATAAC
* * *
2976801 AACTTACATAATTTATATAAC
1 AACCTACATAACTTACATAAC
* * *
2976822 --TC-ACATAACGTATATAAC
1 AACCTACATAACTTACATAAC
* *
2976840 AACTTACATAACTCACATAAC
1 AACCTACATAACTTACATAAC
2976861 TTACATAACT
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
18 29 0.49
21 30 0.51
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (21 bp):
AACCTACATAACTTACATAAC
Found at i:2976799 original size:9 final size:9
Alignment explanation
Indices: 2976736--2976872 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
2976726 ATTGATCATT
*
2976736 ACTTAAATA
1 ACTTACATA
*
2976745 AGTTACATA
1 ACTTACATA
* *
2976754 ACTCACGTA
1 ACTTACATA
*
2976763 ACCTACATA
1 ACTTACATA
*
2976772 ATTTACATAACA
1 ACTTACAT---A
*
2976784 ACCTACATA
1 ACTTACATA
2976793 ACTTACATA
1 ACTTACATA
2976802 ACTTACATA
1 ACTTACATA
* *
2976811 ATTTATATA
1 ACTTACATA
*
2976820 ACTCACATA
1 ACTTACATA
* *
2976829 ACGTATATAACA
1 AC-T-TA-CATA
2976841 ACTTACATA
1 ACTTACATA
*
2976850 ACTCACATA
1 ACTTACATA
2976859 ACTTACATA
1 ACTTACATA
2976868 ACTTA
1 ACTTA
2976873 ACTAATACAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 81 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:2976810 original size:57 final size:57
Alignment explanation
Indices: 2976736--2976870 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 57
2976726 ATTGATCATT
* * * **
2976736 ACTTAAATAAGTTACATAACTCACGTAAC-CTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCACATAACTC-ACATAACGTACATAACAACCTACATA
* * * * *
2976793 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
*
2976850 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
2976871 TAACTAATAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 64 0.98
58 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.30
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
Found at i:2982461 original size:21 final size:21
Alignment explanation
Indices: 2982437--2982494 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
2982427 CTAGCCGATG
* *
2982437 CAGCAGAGAGGGAGGCAGCGA
1 CAGCAGCGAGAGAGGCAGCGA
*
2982458 CAGCAGCGAGAGAGGCAGCGG
1 CAGCAGCGAGAGAGGCAGCGA
2982479 CAGCAGCGAGAGAGGC
1 CAGCAGCGAGAGAGGC
2982495 GGAGCAGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.47, T:0.00
Consensus pattern (21 bp):
CAGCAGCGAGAGAGGCAGCGA
Found at i:2982911 original size:44 final size:43
Alignment explanation
Indices: 2982851--2982998 Score: 161
Period size: 44 Copynumber: 3.4 Consensus size: 43
2982841 AAATCACCGA
* * * *
2982851 TAAAGGACTCTACTTTTGGCGGCATTTGTGGAGAAAGCGCCAC
1 TAAAGGTCTGTACTTTTGGCGGCATTTTTGGAGAAAGCGCCGC
* *
2982894 TAAAAGGTCTGTACTTTTGGCGGCATTTTTGGTGTAAGCGCCGC
1 T-AAAGGTCTGTACTTTTGGCGGCATTTTTGGAGAAAGCGCCGC
* ** * * * *
2982938 TATAGGTCTGTAAATTTAGCGGCTTTTTTGGGAAAAAGCTCCGC
1 TAAAGGTCTGTACTTTTGGCGGCATTTTT-GGAGAAAGCGCCGC
2982982 TAAAGGTCTGTACTTTT
1 TAAAGGTCTGTACTTTT
2982999 AACGGTGCTT
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
43 24 0.28
44 61 0.72
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TAAAGGTCTGTACTTTTGGCGGCATTTTTGGAGAAAGCGCCGC
Found at i:2983067 original size:43 final size:43
Alignment explanation
Indices: 2982978--2983095 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
2982968 GGAAAAAGCT
* * *
2982978 CCGCTAAAGGTCTGTACTTTTAACGGTGCTTTGCAAACAAAAG
1 CCGCTAAAGGTCTGCACTTTTAGCGGCGCTTTGCAAACAAAAG
**
2983021 CCGCTAAAGGTCTGCACTTTTAGCGGCGCTTT-C-CTCGAAAATG
1 CCGCTAAAGGTCTGCACTTTTAGCGGCGCTTTGCAAAC-AAAA-G
* *
2983064 CCGCTAAAGGTCTACACCTTTAGCGGCG-TTTG
1 CCGCTAAAGGTCTGCACTTTTAGCGGCGCTTTG
2983096 TTTGCTAAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 8 0.12
43 56 0.86
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (43 bp):
CCGCTAAAGGTCTGCACTTTTAGCGGCGCTTTGCAAACAAAAG
Found at i:2983179 original size:42 final size:43
Alignment explanation
Indices: 2983020--2983176 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
2983010 GCAAACAAAA
* * * **
2983020 GCCGCTAAAGGTCTGCACTTTTAGCGGCGCTTTCCTCG-AAAAT
1 GCCGCTAAAGGTCTACACTTTTAGCGGCGCTTT-ATGGTAAAGC
* * * *
2983063 GCCGCTAAAGGTCTACACCTTTAGCGGCGTTTGTTTGCT-AAGC
1 GCCGCTAAAGGTCTACACTTTTAGCGGCGCTT-TATGGTAAAGC
* * *
2983106 GCCGCTAAAGGTCTATACTATGAGCGGCG-TTTATGGTAAAGC
1 GCCGCTAAAGGTCTACACTTTTAGCGGCGCTTTATGGTAAAGC
*
2983148 GCCGCTAAAGGTAT-CTACTTTTAGCGGCG
1 GCCGCTAAAGGTCTAC-ACTTTTAGCGGCG
2983177 TTTTCCGTTC
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.04
42 30 0.33
43 57 0.62
44 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGGTCTACACTTTTAGCGGCGCTTTATGGTAAAGC
Found at i:2989054 original size:17 final size:16
Alignment explanation
Indices: 2989029--2989067 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2989019 AATTTTTAAG
* *
2989029 TTTTAAAAATTATATA
1 TTTTTAAAATGATATA
2989045 TATTTTAAAATGATATA
1 T-TTTTAAAATGATATA
2989062 TTTTTA
1 TTTTTA
2989068 TTTTTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTTTAAAATGATATA
Found at i:2996501 original size:45 final size:44
Alignment explanation
Indices: 2996438--2996530 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 44
2996428 ACTTTAATTG
*
2996438 ACTTAGTGCAATCCAATGGCTCTGTTTTAGGTGACTTATTATCA
1 ACTTAGTGCAATCCAATGGCTCTATTTTAGGTGACTTATTATCA
2996482 ACTTAAGTGCAATCCAATGGCTCTATTTTAGGTGACTTATTATCA
1 ACTT-AGTGCAATCCAATGGCTCTATTTTAGGTGACTTATTATCA
2996527 ACTT
1 ACTT
2996531 TGACCCAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.09
45 43 0.91
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (44 bp):
ACTTAGTGCAATCCAATGGCTCTATTTTAGGTGACTTATTATCA
Found at i:2996800 original size:69 final size:69
Alignment explanation
Indices: 2996682--2996916 Score: 299
Period size: 69 Copynumber: 3.4 Consensus size: 69
2996672 ACTTATAATG
* * *
2996682 TCAGCTGGGAGCATAGGTCCGCTAGCTGCTTTGAAGGTTGTGATCTTAAATCGTCAAACCTTTAT
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
2996747 GACA
66 GACA
* * * *
2996751 TCAGTTGGGAACGTAGGTCCGTTAGCTGCTTTGGAGGTTGTGATATTAAATCATCAAACCTTTAT
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
2996816 GACA
66 GACA
* ** * ** * *
2996820 TCAGTTAGGAGCGTAGGTTTGCTACCTATTTTGGAGGTTGCGATCTTAAATTGTCAAACCTTTAT
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
2996885 GACA
66 GACA
* * * *
2996889 TAAATTGGGAGCGTAGATTCGCTAGCTG
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTG
2996917 TGTCAGAGTT
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 140 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (69 bp):
TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
GACA
Found at i:3003035 original size:47 final size:49
Alignment explanation
Indices: 3002977--3003084 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 49
3002967 ACATAACAAT
* *
3002977 ATTTTATATTTTATAT-TTTAAATATTATGATTTAAATAAGATTTTTAG
1 ATTTTAGATTTTATATCTTTAAATATTAGGATTTAAATAAGATTTTTAG
* * * * * *
3003025 ATTTTA-ATTTT-TGTCTTTATATATTAGGTTTTGAATTAGCTTTTTAG
1 ATTTTAGATTTTATATCTTTAAATATTAGGATTTAAATAAGATTTTTAG
3003072 ATTTTAGATTTTA
1 ATTTTAGATTTTA
3003085 AATATTAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
46 2 0.04
47 37 0.74
48 11 0.22
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (49 bp):
ATTTTAGATTTTATATCTTTAAATATTAGGATTTAAATAAGATTTTTAG
Found at i:3003090 original size:41 final size:40
Alignment explanation
Indices: 3003040--3003139 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 40
3003030 AATTTTTGTC
* *
3003040 TTTATATATTAGGTTTTGAATTAGCTTTTTAGATTTTAGA
1 TTTAAATATTAGGTTTTGAATTAGATTTTTAGATTTTAGA
* * * *
3003080 TTTTAAATATTAAGTTTTAAATTAGATTTTTGGTTTTTAGA
1 -TTTAAATATTAGGTTTTGAATTAGATTTTTAGATTTTAGA
*
3003121 TTTAAATAATAAGGTTTTG
1 TTTAAAT-ATTAGGTTTTG
3003140 TTTTCAAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 7 0.14
41 42 0.86
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (40 bp):
TTTAAATATTAGGTTTTGAATTAGATTTTTAGATTTTAGA
Found at i:3004610 original size:44 final size:44
Alignment explanation
Indices: 3004549--3004635 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
3004539 GCTGACGATC
*
3004549 CCCGAGCTCGTAACTTGATTCCAAAATTTATAAAACAAAGACAT
1 CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACAT
3004593 CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACA
1 CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACA
3004636 AACATATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.23
Consensus pattern (44 bp):
CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACAT
Found at i:3005266 original size:41 final size:45
Alignment explanation
Indices: 3005206--3005326 Score: 135
Period size: 41 Copynumber: 2.8 Consensus size: 45
3005196 ATGCTATCTC
* * *
3005206 ATATCAATGCCACTGTCCCAGACAGGGTCTTACACG-AATCA-A-
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTAACCACAT
* * *
3005248 ATA-CGATGTCGATGTCCCAGACACGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTAACCACAT
*
3005292 ATATCGATGCCAACGTCCCAGAC-GTGGTCTTACAC
1 ATATCGATGCCAATGTCCCAGACAG-GGTCTTACAC
3005327 AAAAACACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 27 0.42
42 7 0.11
43 1 0.02
44 3 0.05
45 26 0.41
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTAACCACAT
Found at i:3009267 original size:29 final size:29
Alignment explanation
Indices: 3009225--3009284 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
3009215 GTGACGTGAC
3009225 CCCTGTCTTACAACAAAGACCAATTTGTA
1 CCCTGTCTTACAACAAAGACCAATTTGTA
3009254 CCCTGTCTTACAACAAAGACCAATTTGTA
1 CCCTGTCTTACAACAAAGACCAATTTGTA
3009283 CC
1 CC
3009285 TATTTAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (29 bp):
CCCTGTCTTACAACAAAGACCAATTTGTA
Found at i:3010253 original size:25 final size:23
Alignment explanation
Indices: 3010201--3010258 Score: 84
Period size: 21 Copynumber: 2.5 Consensus size: 23
3010191 AACAATCATT
3010201 TTGTTAAAAATTTCATTCATTTC
1 TTGTTAAAAATTTCATTCATTTC
3010224 -T-TTAAAAATTTCATTCATTTC
1 TTGTTAAAAATTTCATTCATTTC
3010245 TATTGTTAAAAATT
1 --TTGTTAAAAATT
3010259 AATCCATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 20 0.65
22 1 0.03
24 1 0.03
25 9 0.29
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (23 bp):
TTGTTAAAAATTTCATTCATTTC
Found at i:3010543 original size:50 final size:50
Alignment explanation
Indices: 3010484--3010580 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
3010474 TATTTTTACC
3010484 GTCGTGTATACATATAAACCCTAAACCTTACATATATATATATGTGTAAT
1 GTCGTGTATACATATAAACCCTAAACCTTACATATATATATATGTGTAAT
3010534 GTCGTGTATACATATAAACCCTAAACCTTACATATATATATATGTGT
1 GTCGTGTATACATATAAACCCTAAACCTTACATATATATATATGTGT
3010581 GTAATGTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (50 bp):
GTCGTGTATACATATAAACCCTAAACCTTACATATATATATATGTGTAAT
Found at i:3011406 original size:19 final size:21
Alignment explanation
Indices: 3011382--3011423 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3011372 TTTCAACTCA
3011382 TAAAAAT-A-AAAATAATAAT
1 TAAAAATAAGAAAATAATAAT
3011401 TAAAAATAATGAAAATAATAAT
1 TAAAAATAA-GAAAATAATAAT
3011423 T
1 T
3011424 TCATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
22 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATAAGAAAATAATAAT
Found at i:3012915 original size:19 final size:19
Alignment explanation
Indices: 3012895--3012964 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
3012885 CTAAATTTTA
*
3012895 AAAATT-TATTATTAAAAT
1 AAAATTATAATATTAAAAT
3012913 AAAATTATAATATT-AAAT
1 AAAATTATAATATTAAAAT
* *
3012931 AATATAATAATA-TAATAAT
1 AAAATTATAATATTAA-AAT
3012950 ATAAATTAT-ATATTA
1 A-AAATTATAATATTA
3012965 TATTATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.02
18 21 0.50
19 13 0.31
20 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTATAATATTAAAAT
Found at i:3012927 original size:8 final size:8
Alignment explanation
Indices: 3012911--3012977 Score: 61
Period size: 8 Copynumber: 8.9 Consensus size: 8
3012901 TATTATTAAA
*
3012911 ATAAAATT
1 ATAATATT
3012919 ATAATATT
1 ATAATATT
*
3012927 A-AATAAT
1 ATAATATT
*
3012934 ATAATAAT
1 ATAATATT
*
3012942 ATAATAAT
1 ATAATATT
3012950 ATAA-ATT
1 ATAATATT
3012957 AT-ATATT
1 ATAATATT
*
3012964 ATATTATT
1 ATAATATT
3012972 A-AATAT
1 ATAATAT
3012978 GTATGTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
6 1 0.02
7 19 0.37
8 31 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATAATATT
Found at i:3012939 original size:26 final size:25
Alignment explanation
Indices: 3012910--3012961 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
3012900 TTATTATTAA
*
3012910 AATAAAATTATAATATTAAATAATAT
1 AATAAAATAATAATA-TAAATAATAT
* *
3012936 AATAATATAATAATATAAATTATAT
1 AATAAAATAATAATATAAATAATAT
3012961 A
1 A
3012962 TTATATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAAAATAATAATATAAATAATAT
Found at i:3013956 original size:6 final size:6
Alignment explanation
Indices: 3013945--3013973 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3013935 ACATTACATC
3013945 TTCTTG TTCTTG TTCTTG TTCTTG TTCTT
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTT
3013974 TTATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.14, T:0.69
Consensus pattern (6 bp):
TTCTTG
Found at i:3019732 original size:37 final size:37
Alignment explanation
Indices: 3019683--3019757 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
3019673 TGACCATATG
3019683 TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
1 TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
*
3019720 TATGTAACTCATGTGCTTTGATATAAGTCGAGGTTTA
1 TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
3019757 T
1 T
3019758 GCTTTACAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (37 bp):
TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
Found at i:3020976 original size:68 final size:69
Alignment explanation
Indices: 3020904--3021031 Score: 222
Period size: 69 Copynumber: 1.9 Consensus size: 69
3020894 TTATTTTTAA
*
3020904 TAAATTTAATTTAATATTTATATTG-ATAGTATTTTATTAATTTAATATTAAAATAATTATCTTA
1 TAAATTTAATTTAATATTTATATTGAAAAGTATTTTATTAATTTAATATTAAAATAATTATCTTA
3020968 ATAT
66 ATAT
* *
3020972 TAAATTTAATTTAATATTTATCTTGAAAAGTATTTTATTAATTTAATATTAAAGTAATTA
1 TAAATTTAATTTAATATTTATATTGAAAAGTATTTTATTAATTTAATATTAAAATAATTA
3021032 AGTTTAATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
68 24 0.43
69 32 0.57
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (69 bp):
TAAATTTAATTTAATATTTATATTGAAAAGTATTTTATTAATTTAATATTAAAATAATTATCTTA
ATAT
Found at i:3030262 original size:45 final size:46
Alignment explanation
Indices: 3030196--3030298 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
3030186 TAGTAATTTT
* *
3030196 CATTTC-C-ATTT-TGAGGAAACCA-CATCATTTTCCAAATG-ATTC
1 CATTTCTCTATTTCTGAGAAAACCATAATCA-TTTCCAAATGTATTC
* *
3030238 CATTTCTCTATTTCTGAGAAAACCATAATCATTTCTAAATGTTTTC
1 CATTTCTCTATTTCTGAGAAAACCATAATCATTTCCAAATGTATTC
*
3030284 CATTTCTTTATTTCT
1 CATTTCTCTATTTCT
3030299 ATTCATTCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 6 0.12
43 1 0.02
44 4 0.08
45 19 0.37
46 21 0.41
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (46 bp):
CATTTCTCTATTTCTGAGAAAACCATAATCATTTCCAAATGTATTC
Found at i:3031421 original size:25 final size:25
Alignment explanation
Indices: 3031360--3031421 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
3031350 TTTTCTTGAA
*
3031360 AATTTATATGATAGGAAAATCATATG
1 AATTTA-ATGATAGGAAAATCATATC
** * **
3031386 AAAATATTGATAGGAAAATTTTATC
1 AATTTAATGATAGGAAAATCATATC
3031411 AATTTAATGAT
1 AATTTAATGAT
3031422 TAGTTTGAAA
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (25 bp):
AATTTAATGATAGGAAAATCATATC
Found at i:3036479 original size:14 final size:14
Alignment explanation
Indices: 3036456--3036485 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3036446 TTGAAATTAT
3036456 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
3036470 GTTGATTTGGATTG
1 GTTGAATTGGATTG
3036484 GT
1 GT
3036486 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:3047926 original size:48 final size:48
Alignment explanation
Indices: 3047868--3047963 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
3047858 CCACTTATCA
*
3047868 AAATCCACTATAAGAGATTGGGAGTATATATGTGGTGAAGGGGTTTTT
1 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
3047916 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
1 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
3047964 CCCTTCCGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
Found at i:3048873 original size:25 final size:25
Alignment explanation
Indices: 3048816--3048882 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
3048806 AAATGGATTA
* * * *
3048816 TCTGTAAAGTCTTTATGGCAATCTC
1 TCTGGAAAGCCTTTGTGACAATCTC
**
3048841 TCAAGAAAGCCTTTGTGACAATCTC
1 TCTGGAAAGCCTTTGTGACAATCTC
3048866 TCTGGAAAGCCTTTGTG
1 TCTGGAAAGCCTTTGTG
3048883 GTATATTATC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (25 bp):
TCTGGAAAGCCTTTGTGACAATCTC
Found at i:3052853 original size:24 final size:24
Alignment explanation
Indices: 3052816--3052869 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3052806 ACTAGGTAAA
3052816 ATGAGTATATGATTACAATCATCTC
1 ATGA-TATATGATTACAATCATCTC
*
3052841 ATGATATGTGATTACAATCATCTC
1 ATGATATATGATTACAATCATCTC
3052865 ATGAT
1 ATGAT
3052870 TGGTTTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (24 bp):
ATGATATATGATTACAATCATCTC
Found at i:3055832 original size:25 final size:25
Alignment explanation
Indices: 3055798--3055959 Score: 114
Period size: 25 Copynumber: 6.5 Consensus size: 25
3055788 AACTATTTGT
*
3055798 AAAGCCTTTGTGGCAATCTCTCTAG
1 AAAGCCTTTGTGGCGATCTCTCTAG
* * *
3055823 AAAGCCTTTGTGGCAAAT-TCCCTAT
1 AAAGCCTTTGTGGC-GATCTCTCTAG
* * * *
3055848 AAAACC-TTATGGTGATCTCTCTAA
1 AAAGCCTTTGTGGCGATCTCTCTAG
* * *
3055872 AAAGCCTTTGCGGCGATATCT-TTG
1 AAAGCCTTTGTGGCGATCTCTCTAG
* * *
3055896 AAAAGCTTTTATGGTGATCTCTCTAG
1 -AAAGCCTTTGTGGCGATCTCTCTAG
* * * *
3055922 AAAGGCTTTTTGGCGATTTCTCTAT
1 AAAGCCTTTGTGGCGATCTCTCTAG
*
3055947 AAAGCCATTGTGG
1 AAAGCCTTTGTGG
3055960 GATATTATCT
Statistics
Matches: 102, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
23 2 0.02
24 16 0.16
25 79 0.77
26 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGATCTCTCTAG
Found at i:3055951 original size:50 final size:49
Alignment explanation
Indices: 3055813--3055952 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 49
3055803 CTTTGTGGCA
* * * *
3055813 ATCTCTCTAGAAAGCCTTTGTGGCAAATTCCCTATAAAACCTTATGGTG
1 ATCTCTCTAGAAAGCCTTTGTGGCGATTTCTCTATAAAGCCTTATGGTG
* * * * *
3055862 ATCTCTCTAAAAAGCCTTTGCGGCGATATCTTTGA-AAAGCTTTTATGGTG
1 ATCTCTCTAGAAAGCCTTTGTGGCGATTTCTCT-ATAAAGC-CTTATGGTG
* *
3055912 ATCTCTCTAGAAAGGCTTTTTGGCGATTTCTCTATAAAGCC
1 ATCTCTCTAGAAAGCCTTTGTGGCGATTTCTCTATAAAGCC
3055953 ATTGTGGGAT
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
49 31 0.43
50 41 0.57
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (49 bp):
ATCTCTCTAGAAAGCCTTTGTGGCGATTTCTCTATAAAGCCTTATGGTG
Found at i:3065840 original size:102 final size:102
Alignment explanation
Indices: 3065664--3065860 Score: 331
Period size: 102 Copynumber: 1.9 Consensus size: 102
3065654 GGTTCTACGA
* *
3065664 TCTCAAAAATATAAAAATTAAAATAAAATGATTAAATTGCACTAAATAATATTGTAGAATAAAAA
1 TCTCAAAAATATAAAAATTAAAATAAAATGACTAAATTGCACTAAACAATATTGTAGAATAAAAA
* * *
3065729 CTTGGTATTCGGCTATGGTGTTTTCTCCTTTATTTTT
66 CTTGATATTCCGCTATGGCGTTTTCTCCTTTATTTTT
* *
3065766 TCTCAAAAATATAAAAATTACAATAAAATGACTAAGTTGCACTAAACAATATTGTAGAATAAAAA
1 TCTCAAAAATATAAAAATTAAAATAAAATGACTAAATTGCACTAAACAATATTGTAGAATAAAAA
3065831 CTTGATATTCCGCTATGGCGTTTTCTCCTT
66 CTTGATATTCCGCTATGGCGTTTTCTCCTT
3065861 CAATTTCTCT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (102 bp):
TCTCAAAAATATAAAAATTAAAATAAAATGACTAAATTGCACTAAACAATATTGTAGAATAAAAA
CTTGATATTCCGCTATGGCGTTTTCTCCTTTATTTTT
Found at i:3066302 original size:25 final size:26
Alignment explanation
Indices: 3066274--3066329 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
3066264 CATTTCGGGT
3066274 TGTTACATTTCTAACATGAAAGGGC-
1 TGTTACATTTCTAACATGAAAGGGCA
3066299 TGTTACATTTCTAACATGAAAGGGCA
1 TGTTACATTTCTAACATGAAAGGGCA
3066325 TGTTA
1 TGTTA
3066330 AAAAATTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (26 bp):
TGTTACATTTCTAACATGAAAGGGCA
Found at i:3067389 original size:37 final size:38
Alignment explanation
Indices: 3067347--3067421 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
3067337 CCTGATCCCA
* * *
3067347 CACATATGGGGAGGCTTACGAGAGGTCCTGC-TCCTAC
1 CACATAAGGAGAGGCTTACGAGAGGTCCTACTTCCTAC
* *
3067384 CACATAAGGAGAGGCTTATGGGAGGTCCTACTTCCTAC
1 CACATAAGGAGAGGCTTACGAGAGGTCCTACTTCCTAC
3067422 TAGTTGACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 26 0.81
38 6 0.19
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (38 bp):
CACATAAGGAGAGGCTTACGAGAGGTCCTACTTCCTAC
Found at i:3070562 original size:21 final size:21
Alignment explanation
Indices: 3070520--3070562 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3070510 TTCAGGTGGA
*
3070520 TCAGCTCTTATGAGATTTTGT
1 TCAGCTCTTATGAGATTCTGT
* *
3070541 TCAGTTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGATTCTGT
3070562 T
1 T
3070563 GGCGTGTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (21 bp):
TCAGCTCTTATGAGATTCTGT
Found at i:3070628 original size:40 final size:40
Alignment explanation
Indices: 3070541--3070640 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
3070531 GAGATTTTGT
* * *
3070541 TCAGTTCTTATGAGCTTCTG-TTGGCGTGTTTCGGGTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGCTGGA
* * *
3070580 CCAACTCTTATGAGCTTCTGTTTGGCGTATTTCTGCTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGCTGGA
*
3070620 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
3070641 CTAGTGTGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 17 0.33
40 34 0.67
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGCTGGA
Found at i:3076847 original size:42 final size:42
Alignment explanation
Indices: 3076788--3076869 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
3076778 GAATGAAGAA
*
3076788 TTTACTCTAGTCTCTATAATAAAGCAATTTAACATTTACTTT
1 TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACTTT
3076830 TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACT
1 TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACT
3076870 GTTACTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (42 bp):
TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACTTT
Found at i:3077066 original size:8 final size:8
Alignment explanation
Indices: 3077022--3077078 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
3077012 TTTTTTATTC
*
3077022 TTTTATAA
1 TTTTAAAA
3077030 TTTATAATAA
1 TTT-TAA-AA
3077040 TTTTAAAA
1 TTTTAAAA
3077048 ---TAAATA
1 TTTTAAA-A
3077054 TTTTAAAA
1 TTTTAAAA
3077062 TTTTAAAA
1 TTTTAAAA
3077070 TTTTAAAA
1 TTTTAAAA
3077078 T
1 T
3077079 AATTAATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
5 4 0.10
6 1 0.02
8 23 0.55
9 9 0.21
10 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:3077072 original size:30 final size:32
Alignment explanation
Indices: 3077022--3077080 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
3077012 TTTTTTATTC
*
3077022 TTTTATAATTTATAATAATTTTAAAATAAATA
1 TTTTAAAATTTATAATAATTTTAAAATAAATA
3077054 TTTTAAAATTT-TAA-AATTTTAAAATAA
1 TTTTAAAATTTATAATAATTTTAAAATAA
3077081 TTAATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.50
31 3 0.12
32 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTTAAAATTTATAATAATTTTAAAATAAATA
Found at i:3079091 original size:11 final size:11
Alignment explanation
Indices: 3079075--3079100 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3079065 GCTGGCCTTT
3079075 TTTTGTATTTA
1 TTTTGTATTTA
3079086 TTTTGTATTTA
1 TTTTGTATTTA
3079097 TTTT
1 TTTT
3079101 TTGGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTGTATTTA
Found at i:3079327 original size:41 final size:40
Alignment explanation
Indices: 3079289--3079531 Score: 199
Period size: 41 Copynumber: 5.9 Consensus size: 40
3079279 CCGAAAAAAA
3079289 GAGAAATAACGGCCTTTTTTACCCAAACGCCACTAAAAACT-
1 GAGAAATAACGG-CTTTTTTA-CCAAACGCCACTAAAAACTG
** * * * *
3079330 GATCAATAGCAGCGTTTTTATCTAAAACGCCACTAAAAACT-
1 GAGAAATAACGGCTTTTTTA-C-CAAACGCCACTAAAAACTG
* ** *
3079371 AATCAATAACGGCGTTTTTGT-CTAAGACGCCACTAAAAACTG
1 GAGAAATAACGGC-TTTTT-TACCAA-ACGCCACTAAAAACTG
* * *
3079413 GAGGAATAGCGGCATTTTTATCCAAACGCCACTAAAAACTG
1 GAGAAATAACGGCTTTTTTA-CCAAACGCCACTAAAAACTG
*
3079454 GAGAAATAACGG-TGTTTTTGTCCAAACGCCACTAAAAACTG
1 GAGAAATAACGGCT-TTTTT-ACCAAACGCCACTAAAAACTG
* *
3079495 GAGAAATAGCGGCATTTTTGT-CCAAACACCACTAAAA
1 GAGAAATAACGGC-TTTTT-TACCAAACGCCACTAAAA
3079532 TTGATCAATA
Statistics
Matches: 166, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
40 11 0.07
41 132 0.80
42 20 0.12
43 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (40 bp):
GAGAAATAACGGCTTTTTTACCAAACGCCACTAAAAACTG
Found at i:3079379 original size:82 final size:79
Alignment explanation
Indices: 3079290--3079531 Score: 243
Period size: 82 Copynumber: 2.9 Consensus size: 79
3079280 CGAAAAAAAG
* *
3079290 AGAAATAACGGCCTTTTTTACCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTATCTAA
1 AGAAATAACGG-CTTTTTT--CCAAACGCCACTAAAAACTGAGCAATAGCAGCATTTTTATC-AA
3079355 AACGCCACTAAAAACT-A
62 AACGCCACTAAAAACTGA
** * * * *
3079372 ATCAATAACGGCGTTTTTGTCTAAGACGCCACTAAAAACTGGAGGAATAGCGGCATTTTTATCCA
1 AGAAATAACGGC-TTTTT-TCCAA-ACGCCACTAAAAACT-GAGCAATAGCAGCATTTTTATCAA
*
3079437 AACGCCACTAAAAACTGG
62 AACGCCACTAAAAACTGA
* * * * *
3079455 AGAAATAACGGTGTTTTTGTCCAAACGCCACTAAAAACTGGAGAAATAGCGGCATTTTTGTCCAA
1 AGAAATAACGG-CTTTTT-TCCAAACGCCACTAAAAACT-GAGCAATAGCAGCATTTTTATCAAA
*
3079520 ACACCACTAAAA
63 ACGCCACTAAAA
3079532 TTGATCAATA
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
81 4 0.03
82 96 0.70
83 38 0.28
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (79 bp):
AGAAATAACGGCTTTTTTCCAAACGCCACTAAAAACTGAGCAATAGCAGCATTTTTATCAAAACG
CCACTAAAAACTGA
Found at i:3079527 original size:123 final size:123
Alignment explanation
Indices: 3079304--3079531 Score: 289
Period size: 123 Copynumber: 1.9 Consensus size: 123
3079294 ATAACGGCCT
** *
3079304 TTTTTACCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTATCTAAAACGCCACTAAAAA
1 TTTTTACCCAAACGCCACTAAAAACTGAGAAATAACAGCGTTTTTATCTAAAACGCCACTAAAAA
** * * *
3079369 CTAATCAATAACGGCGTTTTTGTCTAAGACGCCACTAAAAACTGGAGGAATAGCGGCA
66 CTAAGAAATAACGGCATTTTTGTCCAAGACACCACTAAAAACTGGAGGAATAGCGGCA
* * * * *
3079427 TTTTTATCCAAACGCCACTAAAAACTGGAGAAATAACGGTGTTTTTGTC-CAAACGCCACTAAAA
1 TTTTTACCCAAACGCCACTAAAAACT-GAGAAATAACAGCGTTTTTATCTAAAACGCCACTAAAA
* *
3079491 ACTGGAGAAATAGCGGCATTTTTGTCCAA-ACACCACTAAAA
65 ACT-AAGAAATAACGGCATTTTTGTCCAAGACACCACTAAAA
3079532 TTGATCAATA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
123 53 0.60
124 35 0.40
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (123 bp):
TTTTTACCCAAACGCCACTAAAAACTGAGAAATAACAGCGTTTTTATCTAAAACGCCACTAAAAA
CTAAGAAATAACGGCATTTTTGTCCAAGACACCACTAAAAACTGGAGGAATAGCGGCA
Found at i:3079720 original size:11 final size:11
Alignment explanation
Indices: 3079672--3079713 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
3079662 ATCTGATTTA
3079672 ATTTTCATATT
1 ATTTTCATATT
*
3079683 ATTTTCTTATT
1 ATTTTCATATT
3079694 ATTTTCATATT
1 ATTTTCATATT
3079705 ATTTTCATA
1 ATTTTCATA
3079714 ATTTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTCATATT
Found at i:3079720 original size:22 final size:22
Alignment explanation
Indices: 3079672--3079721 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
3079662 ATCTGATTTA
*
3079672 ATTTTCATATTATTTTCTTATT
1 ATTTTCATATTATTTTCTAATT
3079694 ATTTTCATATTATTTTCATAATT
1 ATTTTCATATTATTTTC-TAATT
*
3079717 TTTTT
1 ATTTT
3079722 TGAATTCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTCATATTATTTTCTAATT
Found at i:3081291 original size:39 final size:39
Alignment explanation
Indices: 3081247--3081353 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
3081237 TCCAAGGGAT
* *
3081247 TTAGCGGCGCTTTTTAAAAAACG-TGCTAAAGATCGAGAA
1 TTAGCGGCGCTTTTT-AAAAACGCCGCAAAAGATCGAGAA
* **
3081286 TTAGCGGCGCTTTTGTAAAAGCGCCGCAAAAGATCGAGTT
1 TTAGCGGCGCTTTT-TAAAAACGCCGCAAAAGATCGAGAA
*
3081326 TTAGCGGTGCCTTTTTCAAAAACGCCGC
1 TTAGCGGCG-CTTTTT-AAAAACGCCGC
3081354 TAATTCTCGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 20 0.35
40 22 0.39
41 15 0.26
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCAAAAGATCGAGAA
Found at i:3092028 original size:31 final size:29
Alignment explanation
Indices: 3091993--3092095 Score: 116
Period size: 31 Copynumber: 3.4 Consensus size: 29
3091983 TAATTACATT
3091993 AATATTAAATTAATAAAATATTATCAAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
** * * *
3092024 AATATTAAATTAAATTTAATATCTCATATC
1 AATATTAAATT-AATAAAATATATCAGATA
3092054 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
3092085 AATATTAAATT
1 AATATTAAATT
3092096 TATTAAAACA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 7 0.12
30 17 0.29
31 28 0.47
32 7 0.12
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (29 bp):
AATATTAAATTAATAAAATATATCAGATA
Found at i:3093910 original size:64 final size:64
Alignment explanation
Indices: 3093809--3093937 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
3093799 GTCATTCATG
* * *
3093809 TTACATCTAGTTATGGGCATTTGATTCATTTCGATCATAGCATCTTAATTATTTGACATAAGCA
1 TTACATCTAGTTATGGGCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGACATAAGCA
*
3093873 TTACATCTAGTTA-GGAGCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGGCATAAGCA
1 TTACATCTAGTTATGG-GCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGACATAAGCA
3093937 T
1 T
3093938 GATACAGGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 2 0.03
64 58 0.97
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (64 bp):
TTACATCTAGTTATGGGCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGACATAAGCA
Found at i:3094394 original size:177 final size:177
Alignment explanation
Indices: 3094090--3094484 Score: 601
Period size: 177 Copynumber: 2.2 Consensus size: 177
3094080 GAAGACAGCA
** * *
3094090 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGATTGCAAATTATAGATCTTATCACCATGTATCGG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCATGTATCGG
* * * * * *
3094155 CTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCTATGTATCGGCTATGGAGCAAATTTTAGCC
66 CTATAGAACAGATCAAAAATGGAGAGTCTTATCTCCATGTATCAGCTATGGAGCAAATTTTAGCC
*
3094220 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACG
131 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACG
* * * *
3094267 AGCTTTAACCCCCTAAGCAGTAGGGTTACAGGCTGTAAATTACAGATCTTATCTCCATGTATCGG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCATGTATCGG
* * *
3094332 CTATAGAACAGATCAAAAATGGAGAGTCTTATCTCCATGTCTCAGCTATGGAGTAGATTTTAGCC
66 CTATAGAACAGATCAAAAATGGAGAGTCTTATCTCCATGTATCAGCTATGGAGCAAATTTTAGCC
*
3094397 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGTTTGAAAATACG
131 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACG
* *
3094444 AGCCTTAACCCCTTAAGCAGTAGGGTGACAGGCTGAAAATT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
3094485 GCAAATTTTA
Statistics
Matches: 196, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 196 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (177 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCATGTATCGG
CTATAGAACAGATCAAAAATGGAGAGTCTTATCTCCATGTATCAGCTATGGAGCAAATTTTAGCC
ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACG
Found at i:3095981 original size:24 final size:24
Alignment explanation
Indices: 3095949--3095999 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
3095939 TTTAACATAC
3095949 TTTACTGATTTTGCATTATTCTAG
1 TTTACTGATTTTGCATTATTCTAG
3095973 TTTACTGATTTTGCATTATTCTAG
1 TTTACTGATTTTGCATTATTCTAG
3095997 TTT
1 TTT
3096000 GTTATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.57
Consensus pattern (24 bp):
TTTACTGATTTTGCATTATTCTAG
Found at i:3096053 original size:16 final size:16
Alignment explanation
Indices: 3096029--3096068 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3096019 CATATATATA
3096029 TTTAAAATTGT-TTTAT
1 TTTAAAATT-TATTTAT
*
3096045 TTTATAATTTATTTAT
1 TTTAAAATTTATTTAT
3096061 TTTAAAAT
1 TTTAAAAT
3096069 CCTCTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTAAAATTTATTTAT
Found at i:3097062 original size:126 final size:126
Alignment explanation
Indices: 3096814--3097125 Score: 408
Period size: 126 Copynumber: 2.5 Consensus size: 126
3096804 CACATAAGGA
* * *
3096814 AATATTTCATGTTTGAAAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGACTTTTTTTTCC
1 AATATTTCATATTTGGAAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA---TTTTTTCA
** * *
3096879 TTCAACTAAAATATGGAATATCCTTGTGAAATTTCGTCCATGTTTTCTTAAATTAAAACGAGGC
63 TTCAACTAAAATACAGAATATCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGC
** * * * *
3096943 AATATTTTGTGTTTGGGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGATTTTTTCATTC
1 AATATTTCATATTTGGAAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTC
* * *
3097008 GACTAAAATACAGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAATTAAAATGAGGC
66 AACTAAAATACAGAATATCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGC
* * * * *
3097069 ATTATTTCATATTTGGAAATTCGAAAAATCGTGCCCAATCGTGCAGGGTTTCGATTT
1 AATATTTCATATTTGGAAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
3097126 ATCGTTTGGC
Statistics
Matches: 158, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
126 110 0.70
129 48 0.30
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (126 bp):
AATATTTCATATTTGGAAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTC
AACTAAAATACAGAATATCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGC
Found at i:3099538 original size:12 final size:12
Alignment explanation
Indices: 3099506--3099540 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3099496 AAAAACAATA
3099506 ATATAATAAATTT
1 ATATAA-AAATTT
3099519 AT-TAAAAATTT
1 ATATAAAAATTT
3099530 ATATAAAAATT
1 ATATAAAAATT
3099541 AAATATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAAAATTT
Found at i:3099631 original size:4 final size:4
Alignment explanation
Indices: 3099624--3099657 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
3099614 ATATATATAT
3099624 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
3099658 TTTATACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:3105971 original size:13 final size:13
Alignment explanation
Indices: 3105953--3105978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3105943 TTATATTCGC
3105953 TTTGAAGATTTGG
1 TTTGAAGATTTGG
3105966 TTTGAAGATTTGG
1 TTTGAAGATTTGG
3105979 AGACATTATT
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:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
TTTGAAGATTTGG
Found at i:3117892 original size:49 final size:49
Alignment explanation
Indices: 3117820--3117955 Score: 227
Period size: 49 Copynumber: 2.8 Consensus size: 49
3117810 AGCCGAAGTT
* *
3117820 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* *
3117869 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGGCCAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
*
3117918 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
3117956 CGTGACCTCA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:3122932 original size:40 final size:40
Alignment explanation
Indices: 3122835--3122933 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
3122825 GAGCTTCTGT
*
3122835 TCAGCTCTTATGAGTTT-TG-TTGGCATGTTTCGAGTGGA
1 TCAGCTCTTATGAGTTTCTGTTTGGCATATTTCGAGTGGA
* *
3122873 CCAGCTCTTAT-AGGATTCTGTTTGGCATATTTCG-GTTGGA
1 TCAGCTCTTATGA-GTTTCTGTTTGGCATATTTCGAG-TGGA
3122913 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGTTTCTGT
3122934 ATGGTGTGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.02
38 13 0.25
39 3 0.06
40 33 0.65
41 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.42
Consensus pattern (40 bp):
TCAGCTCTTATGAGTTTCTGTTTGGCATATTTCGAGTGGA
Found at i:3133718 original size:9 final size:9
Alignment explanation
Indices: 3133704--3133896 Score: 74
Period size: 9 Copynumber: 20.6 Consensus size: 9
3133694 CTGCCTTTAT
3133704 TAAAAATTA
1 TAAAAATTA
*
3133713 TAAAAA-AA
1 TAAAAATTA
*
3133721 TAAAATTTA
1 TAAAAATTA
*
3133730 TAAAATTTA
1 TAAAAATTA
*
3133739 TAAATATTA
1 TAAAAATTA
**
3133748 TTAAATTTTAA
1 -TAAAAATT-A
3133759 TAAAAGAATT-
1 T-AAA-AATTA
* *
3133769 CAAATATTA
1 TAAAAATTA
*
3133778 -AAAATTTA
1 TAAAAATTA
3133786 CTAAAAATTA
1 -TAAAAATTA
3133796 -AAAAATATA
1 TAAAAAT-TA
**
3133805 TAAAAATCG
1 TAAAAATTA
*
3133814 TAAAAAATA
1 TAAAAATTA
*
3133823 TAAAAACTTG
1 TAAAAA-TTA
*
3133833 TAAAATTTTTA
1 TAAAA--ATTA
3133844 TAAAAA-TA
1 TAAAAATTA
3133852 GTAAAAAATTA
1 -T-AAAAATTA
*
3133863 TAAAAAAAATA
1 T--AAAAATTA
*
3133874 TAGAAA-TA
1 TAAAAATTA
3133882 TAAAAAATTA
1 T-AAAAATTA
3133892 TAAAA
1 TAAAA
3133897 TTTTCTAAAA
Statistics
Matches: 139, Mismatches: 26, Indels: 38
0.68 0.13 0.19
Matches are distributed among these distances:
8 26 0.19
9 53 0.38
10 36 0.26
11 22 0.16
12 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:3133809 original size:10 final size:10
Alignment explanation
Indices: 3133770--3133927 Score: 68
Period size: 10 Copynumber: 16.2 Consensus size: 10
3133760 AAAAGAATTC
3133770 AAATAT-TAA
1 AAATATATAA
*
3133779 AAATTTACTAA
1 AAATATA-TAA
3133790 AAAT-TA-AA
1 AAATATATAA
3133798 AAATATATAA
1 AAATATATAA
*
3133808 AAATCGTA-AA
1 AAAT-ATATAA
3133818 AAATATA-AA
1 AAATATATAA
* *
3133827 AACT-TGTAA
1 AAATATATAA
* *
3133836 AATTTTTATAA
1 AA-ATATATAA
3133847 AAATAGTA-AA
1 AAATA-TATAA
3133857 AAAT-TATAAA
1 AAATATAT-AA
* *
3133867 AAAAATATAG
1 AAATATATAA
3133877 AAATATA-AA
1 AAATATATAA
3133886 AAAT-TATAA
1 AAATATATAA
* * *
3133895 AATTTTCT-A
1 AAATATATAA
3133904 AAATCATAATAA
1 AAAT-AT-ATAA
*
3133916 AATTATATAA
1 AAATATATAA
3133926 AA
1 AA
3133928 TGTAAATATT
Statistics
Matches: 113, Mismatches: 19, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
8 11 0.10
9 32 0.28
10 43 0.38
11 23 0.20
12 4 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
AAATATATAA
Found at i:3133869 original size:20 final size:20
Alignment explanation
Indices: 3133777--3133868 Score: 84
Period size: 19 Copynumber: 4.8 Consensus size: 20
3133767 TTCAAATATT
*
3133777 AAAAATTTACTAAAAAT--TA
1 AAAAATATA-TAAAAATAGTA
*
3133796 AAAAATATATAAAAATCGTA
1 AAAAATATATAAAAATAGTA
* *
3133816 AAAAATATA-AAAACTTGTA
1 AAAAATATATAAAAATAGTA
** *
3133835 AAATTTTTATAAAAATAGTA
1 AAAAATATATAAAAATAGTA
3133855 AAAAAT-TATAAAAA
1 AAAAATATATAAAAA
3133869 AAATATAGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
18 7 0.12
19 30 0.50
20 23 0.38
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATATATAAAAATAGTA
Found at i:3133957 original size:39 final size:39
Alignment explanation
Indices: 3133865--3133959 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 39
3133855 AAAAATTATA
*
3133865 AAAAAAATATAGAAA-TATAAAAAATTATAAAATTTTCT
1 AAAAAAATATAAAAATTATAAAAAATTATAAAATTTTCT
** * * *
3133903 AAAATCATA-ATAAAATTATATAAAATGTA-AATATTTTGT
1 AAAAAAATATA-AAAATTATAAAAAAT-TATAAAATTTTCT
3133942 AAAAAAATATAAAAATTA
1 AAAAAAATATAAAAATTA
3133960 GTGTACCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
37 1 0.02
38 10 0.22
39 31 0.69
40 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (39 bp):
AAAAAAATATAAAAATTATAAAAAATTATAAAATTTTCT
Found at i:3134173 original size:19 final size:17
Alignment explanation
Indices: 3134151--3134200 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
3134141 TTTTTAAAAT
3134151 TTTTATTAAAATTTAATTA
1 TTTT-TTAAAATTT-ATTA
3134170 TTTTTCTAAAATTTATTA
1 TTTTT-TAAAATTTATTA
*
3134188 TTTTTTATAATTT
1 TTTTTTAAAATTT
3134201 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.24
18 10 0.34
19 12 0.41
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTAAAATTTATTA
Found at i:3134189 original size:18 final size:19
Alignment explanation
Indices: 3134157--3134192 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3134147 AAATTTTTAT
3134157 TAAAATTTAATTATTTTTC
1 TAAAATTTAATTATTTTTC
3134176 TAAAATTT-ATTATTTTT
1 TAAAATTTAATTATTTTT
3134193 TATAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAAATTTAATTATTTTTC
Found at i:3134379 original size:89 final size:90
Alignment explanation
Indices: 3134225--3134427 Score: 239
Period size: 89 Copynumber: 2.3 Consensus size: 90
3134215 AAGAGCAAGC
* * *
3134225 ACTTAATTGC-TTTTTTGAAAAAAATTGAGGGTCTTTGTGATGCATTTTGAAAGTTCAAATACTC
1 ACTTAATTACTTTTTTTGAAAAAAATTGAAGGTCTTTGTGATCCATTTTGAAAGTTCAAATACTC
* **
3134289 AATTGAGTG-GGAAAAAAATCAGGG
66 AATTAAGTGTAAAAAAAAATCAGGG
* ** * * * *
3134313 ACTTAATTACTTTTTTTGAAGAAGTTTGAAGGTCTTTTTTATCCATTTTGAAAGTTCAAGTGCTC
1 ACTTAATTACTTTTTTTGAAAAAAATTGAAGGTCTTTGTGATCCATTTTGAAAGTTCAAATACTC
*
3134378 AATTAAGTGTAAAAAAAAATGAGGG
66 AATTAAGTGTAAAAAAAAATCAGGG
* * *
3134403 GCTTGATTACTTTTTTTTAAAAAAA
1 ACTTAATTACTTTTTTTGAAAAAAA
3134428 GTTTAAGGAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 9 0.10
89 53 0.57
90 31 0.33
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (90 bp):
ACTTAATTACTTTTTTTGAAAAAAATTGAAGGTCTTTGTGATCCATTTTGAAAGTTCAAATACTC
AATTAAGTGTAAAAAAAAATCAGGG
Found at i:3136736 original size:31 final size:31
Alignment explanation
Indices: 3136701--3136770 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
3136691 AATATGGTGA
* *
3136701 GTGGTTATTTGTAGGACTTAGA-AGGATGTGG
1 GTGGTTAATTATAGGACTTA-ATAGGATGTGG
* *
3136732 GTGGTTAATTATGGGACTTAATGGGATGTGG
1 GTGGTTAATTATAGGACTTAATAGGATGTGG
3136763 GTGGTTAA
1 GTGGTTAA
3136771 GAAATTATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.23, C:0.03, G:0.39, T:0.36
Consensus pattern (31 bp):
GTGGTTAATTATAGGACTTAATAGGATGTGG
Found at i:3136846 original size:22 final size:22
Alignment explanation
Indices: 3136818--3136859 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3136808 TTTTCTTCCC
3136818 CTTTTCTCTAT-TTTTCTTTTTT
1 CTTTTCT-TATATTTTCTTTTTT
*
3136840 CTTTTCTTTTATTTTCTTTT
1 CTTTTCTTATATTTTCTTTT
3136860 CTCCATTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
CTTTTCTTATATTTTCTTTTTT
Done.