Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 9 of 444
Found at i:2728621 original size:27 final size:27
Alignment explanation
Indices: 2728590--2728643 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2728580 TAAAAATATG
2728590 TTTAAACCTTGAATTACTTAATTCAGA
1 TTTAAACCTTGAATTACTTAATTCAGA
2728617 TTTAAACCTTGAATTACTTAATTCAGA
1 TTTAAACCTTGAATTACTTAATTCAGA
2728644 CTTAGTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
TTTAAACCTTGAATTACTTAATTCAGA
Found at i:2731774 original size:5 final size:5
Alignment explanation
Indices: 2731764--2731832 Score: 129
Period size: 5 Copynumber: 13.8 Consensus size: 5
2731754 TTTATTAAAA
*
2731764 TATAT TATAT TATAT TATAT TATAT TATAT TGTAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
2731814 TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATA
2731833 AACAAAAGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:2732334 original size:5 final size:5
Alignment explanation
Indices: 2732324--2732355 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
2732314 TTGTGTGTTC
2732324 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
2732356 TCATAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:2732338 original size:9 final size:9
Alignment explanation
Indices: 2732324--2732354 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2732314 TTGTGTGTTC
2732324 TTTATTTTA
1 TTTATTTTA
2732333 TTTATTTTA
1 TTTATTTTA
2732342 TTTTATTTTA
1 -TTTATTTTA
2732352 TTT
1 TTT
2732355 TTCATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:2736791 original size:5 final size:5
Alignment explanation
Indices: 2736773--2736804 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
2736763 TTGTGTGTTC
2736773 TTTAT TTT-T TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
2736805 TCACAATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:2737708 original size:42 final size:42
Alignment explanation
Indices: 2737600--2737739 Score: 183
Period size: 42 Copynumber: 3.3 Consensus size: 42
2737590 AACCTCGAGT
* *
2737600 CGATGAGGCACTATATGTGTCGTAATATTGCTTCGGA-TAATTC
1 CGATGAGGCAC--TATGTGTCGTATTATTGCTTCGGATTAAATC
*
2737643 TGATGAGGCACTATGTGTCGTATTATTGCTTCGGATTAAATC
1 CGATGAGGCACTATGTGTCGTATTATTGCTTCGGATTAAATC
* * * *
2737685 CAATGAGGCACTATGTGTTGTATTATTGTTTCGGATTAAATT
1 CGATGAGGCACTATGTGTCGTATTATTGCTTCGGATTAAATC
*
2737727 CGATGAGGTACTA
1 CGATGAGGCACTA
2737740 AGTACCGATT
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 23 0.27
42 53 0.62
43 10 0.12
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (42 bp):
CGATGAGGCACTATGTGTCGTATTATTGCTTCGGATTAAATC
Found at i:2743340 original size:21 final size:21
Alignment explanation
Indices: 2743301--2743340 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2743291 TTTTATAATA
*
2743301 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
2743322 TTTTATAATATT-TTAAATT
1 TTTTA-AATATTATTAAATT
2743341 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:2743349 original size:13 final size:13
Alignment explanation
Indices: 2743331--2743355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2743321 GTTTTATAAT
2743331 ATTTTAAATTATA
1 ATTTTAAATTATA
2743344 ATTTTAAATTAT
1 ATTTTAAATTAT
2743356 CTTTAAAATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAAATTATA
Found at i:2743430 original size:14 final size:13
Alignment explanation
Indices: 2743413--2743448 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
2743403 TTAATCATAA
2743413 AAAATAAATAAAAT
1 AAAATAAAT-AAAT
2743427 AAAATAAATAAAT
1 AAAATAAATAAAT
2743440 AAAGATAAA
1 AAA-ATAAA
2743449 AGACAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:2743435 original size:18 final size:19
Alignment explanation
Indices: 2743414--2743449 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
2743404 TAATCATAAA
2743414 AAATAAATAAA-ATAAAAT
1 AAATAAATAAAGATAAAAT
2743432 AAATAAATAAAGATAAAA
1 AAATAAATAAAGATAAAA
2743450 GACAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (19 bp):
AAATAAATAAAGATAAAAT
Found at i:2743621 original size:22 final size:22
Alignment explanation
Indices: 2743593--2743637 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2743583 ATATTTAAAA
2743593 TATTATAAAACTAATAACAAAT
1 TATTATAAAACTAATAACAAAT
2743615 TATTATAAAACTAATAACAAAT
1 TATTATAAAACTAATAACAAAT
2743637 T
1 T
2743638 TGAAAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
TATTATAAAACTAATAACAAAT
Found at i:2743703 original size:14 final size:14
Alignment explanation
Indices: 2743686--2743742 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
2743676 AATATATATT
2743686 TAATATTTAAAAAA
1 TAATATTTAAAAAA
2743700 TAATATTTAAAATTTAA
1 TAATATTTAAAA---AA
* *
2743717 GAAAATTTAAAAAA
1 TAATATTTAAAAAA
*
2743731 TAATTTTTAAAA
1 TAATATTTAAAA
2743743 TTTAAAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 23 0.66
17 12 0.34
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TAATATTTAAAAAA
Found at i:2743721 original size:22 final size:22
Alignment explanation
Indices: 2743673--2743722 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
2743663 TTATATTATT
*
2743673 AAAAATATATATTTAATATTTA
1 AAAAATATATATTTAAAATTTA
2743695 AAAAATA-ATATTTAAAATTTA
1 AAAAATATATATTTAAAATTTA
2743716 AGAAAAT
1 A-AAAAT
2743723 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAATATATATTTAAAATTTA
Found at i:2743726 original size:31 final size:30
Alignment explanation
Indices: 2743690--2743787 Score: 115
Period size: 31 Copynumber: 3.1 Consensus size: 30
2743680 TATATTTAAT
2743690 ATTTAAAAAATAATATTTAAAATTTAAGAAA
1 ATTTAAAAAATAATATTTAAAATTTAA-AAA
*
2743721 ATTTAAAAAATAATTTTTAAAATTTAAAAA
1 ATTTAAAAAATAATATTTAAAATTTAAAAA
**
2743751 AGTAATTTCAAAATATATATTTAAAATTTACAAAA
1 A-T--TTAAAAAATA-ATATTTAAAATTTA-AAAA
2743786 AT
1 AT
2743788 ATATATATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
30 4 0.07
31 27 0.47
33 8 0.14
34 14 0.24
35 5 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (30 bp):
ATTTAAAAAATAATATTTAAAATTTAAAAA
Found at i:2743735 original size:22 final size:22
Alignment explanation
Indices: 2743710--2743758 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
2743700 TAATATTTAA
2743710 AATTTAAGAAAATTTAAAAAA-T
1 AATTT-AGAAAATTTAAAAAAGT
**
2743732 AATTTTTAAAATTTAAAAAAGT
1 AATTTAGAAAATTTAAAAAAGT
2743754 AATTT
1 AATTT
2743759 CAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTTAGAAAATTTAAAAAAGT
Found at i:2743744 original size:21 final size:22
Alignment explanation
Indices: 2743718--2743758 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
2743708 AAAATTTAAG
2743718 AAAATTTAAAAAA-TAATTTTT
1 AAAATTTAAAAAAGTAATTTTT
2743739 AAAATTTAAAAAAGTAATTT
1 AAAATTTAAAAAAGTAATTT
2743759 CAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATTTAAAAAAGTAATTTTT
Found at i:2743763 original size:21 final size:21
Alignment explanation
Indices: 2743718--2743764 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
2743708 AAAATTTAAG
*
2743718 AAAATTTAAAAAATAATTTTT
1 AAAATTTAAAAAATAATTTTC
2743739 AAAATTTAAAAAAGTAA-TTTC
1 AAAATTTAAAAAA-TAATTTTC
2743760 AAAAT
1 AAAAT
2743765 ATATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATTTAAAAAATAATTTTC
Found at i:2743802 original size:27 final size:26
Alignment explanation
Indices: 2743763--2743819 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
2743753 TAATTTCAAA
2743763 ATATATATTTAAAAT-TTACAAAAAT
1 ATATATATTTAAAATATTACAAAAAT
* *
2743788 ATATATATTAATAAAATATTTCAAATAT
1 ATATATATT--TAAAATATTACAAAAAT
2743816 ATAT
1 ATAT
2743820 TTCAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
27 6 0.22
28 12 0.44
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATATATTTAAAATATTACAAAAAT
Found at i:2746860 original size:31 final size:31
Alignment explanation
Indices: 2746825--2746904 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
2746815 CTTAACAACC
* * *
2746825 CAATGACTTAAATAAAAACTTTTAAATATTT
1 CAATGACTTAAATAAAAACTTTCAAACAATT
* **
2746856 CAATGACTTAAATGAAATGTTTCAAACAATT
1 CAATGACTTAAATAAAAACTTTCAAACAATT
**
2746887 CAATGACCAAAATAAAAA
1 CAATGACTTAAATAAAAA
2746905 TTTAGTCATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAACAATT
Found at i:2748282 original size:14 final size:15
Alignment explanation
Indices: 2748257--2748298 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2748247 TTGTTGATTC
*
2748257 ATTTCGAATTTGGAT
1 ATTTTGAATTTGGAT
*
2748272 ATTTT-AATTTGGGTT
1 ATTTTGAATTT-GGAT
2748287 ATTTTGAATTTG
1 ATTTTGAATTTG
2748299 AGTGATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.55
Consensus pattern (15 bp):
ATTTTGAATTTGGAT
Found at i:2748298 original size:16 final size:16
Alignment explanation
Indices: 2748257--2748314 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
2748247 TTGTTGATTC
* *
2748257 ATTTCGAATTT-GGAT
1 ATTTTGAATTTGGGTT
2748272 ATTTT-AATTTGGGTT
1 ATTTTGAATTTGGGTT
* *
2748287 ATTTTGAATTTGAGTG
1 ATTTTGAATTTGGGTT
*
2748303 ATTTAGAATTTG
1 ATTTTGAATTTG
2748315 AGTCATTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 5 0.14
15 12 0.33
16 19 0.53
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.52
Consensus pattern (16 bp):
ATTTTGAATTTGGGTT
Found at i:2755968 original size:19 final size:19
Alignment explanation
Indices: 2755918--2755970 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
2755908 AAAAATAATT
* *
2755918 AAATTCATTAAAATATAAA
1 AAATTAATTAAATTATAAA
* *
2755937 AAATATATTTTAAATTTTAAA
1 AAAT-TA-ATTAAATTATAAA
2755958 AAATTAATTAAAT
1 AAATTAATTAAAT
2755971 GCAAACGTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 10 0.37
20 3 0.11
21 14 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTAATTAAATTATAAA
Found at i:2758628 original size:6 final size:6
Alignment explanation
Indices: 2758619--2758669 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
2758609 TAGTCTGAAT
* *
2758619 CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG CTGTTG CTGTTG CTGGTG
1 CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG
2758667 CTG
1 CTG
2758670 TTGTTGAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.18, G:0.45, T:0.37
Consensus pattern (6 bp):
CTGGTG
Found at i:2759797 original size:18 final size:18
Alignment explanation
Indices: 2759774--2759813 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2759764 TGAGACAGAG
*
2759774 AAAAAATAAATAAAATTT
1 AAAAAAGAAATAAAATTT
**
2759792 AAAAAAGATTTAAAATTT
1 AAAAAAGAAATAAAATTT
2759810 AAAA
1 AAAA
2759814 GGAAAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAAAGAAATAAAATTT
Found at i:2763407 original size:2 final size:2
Alignment explanation
Indices: 2763400--2763429 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2763390 GATAATTGCA
2763400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2763430 TGGGAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2764715 original size:2 final size:2
Alignment explanation
Indices: 2764710--2764742 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2764700 TAGTGTGTGC
*
2764710 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2764743 GCCAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2766571 original size:12 final size:11
Alignment explanation
Indices: 2766552--2766582 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
2766542 TGCATAAAAC
2766552 TTATTTTATTA
1 TTATTTTATTA
2766563 TTAATTTTATTA
1 TT-ATTTTATTA
2766575 TTATTTTA
1 TTATTTTA
2766583 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:2766740 original size:12 final size:12
Alignment explanation
Indices: 2766711--2766742 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2766701 ATATTTTTTT
2766711 AAATT-ATATAA
1 AAATTAATATAA
2766722 AAA-TAATATAA
1 AAATTAATATAA
2766733 AAATTAATAT
1 AAATTAATAT
2766743 GGGCGGGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 12 0.63
12 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:2777936 original size:16 final size:17
Alignment explanation
Indices: 2777906--2777942 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
2777896 TAATAAATTA
2777906 TTAAAAATATATATAT-
1 TTAAAAATATATATATG
2777922 TTAAAAATA-ATTATATG
1 TTAAAAATATA-TATATG
2777939 TTAA
1 TTAA
2777943 TTTCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 14 0.74
17 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TTAAAAATATATATATG
Found at i:2778007 original size:2 final size:2
Alignment explanation
Indices: 2778000--2778035 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2777990 AAATATTCTC
2778000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2778036 TATGTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2778527 original size:17 final size:17
Alignment explanation
Indices: 2778505--2778548 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
2778495 TTTAGCTATC
2778505 TATATATAAATT-TTAAA
1 TATATA-AAATTATTAAA
2778522 TATATAAAATTATTAAA
1 TATATAAAATTATTAAA
2778539 T-TA-AAAATTA
1 TATATAAAATTA
2778549 AAAACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATAAAATTATTAAA
Found at i:2782925 original size:29 final size:29
Alignment explanation
Indices: 2782869--2782955 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
2782859 CTAGCAAAGC
**
2782869 CTGTGTGGC-CTACACGGCCTGGTGCACGA
1 CTGTGTGGCTC-ACACGGCCTGGCACACGA
* *
2782898 TTGTGTGGCTCACATGGCCTGGCACACGA
1 CTGTGTGGCTCACACGGCCTGGCACACGA
* * * * *
2782927 CCGTTTGGCTCACACTGTCTAGCACACGA
1 CTGTGTGGCTCACACGGCCTGGCACACGA
2782956 TCATGTGGCG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 45 0.98
30 1 0.02
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (29 bp):
CTGTGTGGCTCACACGGCCTGGCACACGA
Found at i:2782964 original size:29 final size:29
Alignment explanation
Indices: 2782901--2782964 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
2782891 TGCACGATTG
* *
2782901 TGTGGCTCACATGGCCTGGCACACGACCG
1 TGTGGCTCACATGGCCTAGCACACGACCA
* * *
2782930 TTTGGCTCACACT-GTCTAGCACACGATCA
1 TGTGGCTCACA-TGGCCTAGCACACGACCA
2782959 TGTGGC
1 TGTGGC
2782965 GTCGACAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (29 bp):
TGTGGCTCACATGGCCTAGCACACGACCA
Found at i:2786957 original size:14 final size:14
Alignment explanation
Indices: 2786938--2786971 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2786928 TTGAAATACT
2786938 AAATTATAAAAAAA
1 AAATTATAAAAAAA
2786952 AAATTATAAAAAAA
1 AAATTATAAAAAAA
2786966 AAATTA
1 AAATTA
2786972 AGTATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATTATAAAAAAA
Found at i:2788374 original size:9 final size:9
Alignment explanation
Indices: 2788360--2788427 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
2788350 TTTATACAAA
2788360 TAATTCGGT
1 TAATTCGGT
2788369 TAATTCGGT
1 TAATTCGGT
* *
2788378 TAAATCGGG
1 TAATTCGGT
*
2788387 TAATTCGGG
1 TAATTCGGT
2788396 TAATTCGGT
1 TAATTCGGT
*
2788405 TAATTCGAT
1 TAATTCGGT
2788414 TAATTCGGT
1 TAATTCGGT
2788423 TAATT
1 TAATT
2788428 TTATACTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:2794349 original size:17 final size:18
Alignment explanation
Indices: 2794313--2794352 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2794303 TTGTATTTTT
2794313 AAAT-TTTAAAAATGTAAA
1 AAATATTTAAAAA-GTAAA
2794331 AAATATTTAAAAA-TAAA
1 AAATATTTAAAAAGTAAA
2794348 AAATA
1 AAATA
2794353 AGAGGACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 4 0.19
19 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATATTTAAAAAGTAAA
Found at i:2796256 original size:18 final size:19
Alignment explanation
Indices: 2796233--2796273 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
2796223 TTTATAAACC
2796233 TTTTATAATTTT-AAATAT
1 TTTTATAATTTTAAAATAT
2796251 TTTTATAATTTTAAAATAT
1 TTTTATAATTTTAAAATAT
2796270 TTTT
1 TTTT
2796274 TTACGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTAAAATAT
Found at i:2796977 original size:31 final size:31
Alignment explanation
Indices: 2796942--2797004 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
2796932 AATAGACTAA
* *
2796942 TGATTTAAAT-AAGAACTTTTGAATAATTCAG
1 TGATTTAAATGAA-AAATTTCGAATAATTCAG
*
2796973 TGATTTAAATGAAAAATTTCGAATAGTTCAG
1 TGATTTAAATGAAAAATTTCGAATAATTCAG
2797004 T
1 T
2797005 CGTCAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.38
Consensus pattern (31 bp):
TGATTTAAATGAAAAATTTCGAATAATTCAG
Found at i:2801293 original size:22 final size:22
Alignment explanation
Indices: 2801268--2801309 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2801258 TACTGTTTAC
*
2801268 TGTTGTTTTGTTGCCATTTTGA
1 TGTTGTTTTATTGCCATTTTGA
*
2801290 TGTTGTTTTATTGTCATTTT
1 TGTTGTTTTATTGCCATTTT
2801310 AATATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.19, T:0.64
Consensus pattern (22 bp):
TGTTGTTTTATTGCCATTTTGA
Found at i:2801554 original size:12 final size:12
Alignment explanation
Indices: 2801534--2801569 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
2801524 AATTTATTTT
2801534 TATATAAAAATAA
1 TATA-AAAAATAA
2801547 TATAAAAAATAA
1 TATAAAAAATAA
2801559 TATAAACAAAT
1 TATAAA-AAAT
2801570 TAAACTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAAAAAATAA
Found at i:2814631 original size:25 final size:27
Alignment explanation
Indices: 2814574--2814628 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
2814564 TAGAGCTGCA
2814574 AGCTGAAGGAGGCAATTGAAGTGCCAAGC
1 AGCTGAAGGAGGCAATTGAAGTGCC-A-C
*
2814603 AGCTGAGGGAGGCAATTGAAGTGCCA
1 AGCTGAAGGAGGCAATTGAAGTGCCA
2814629 GCTTGTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.33, C:0.16, G:0.36, T:0.15
Consensus pattern (27 bp):
AGCTGAAGGAGGCAATTGAAGTGCCAC
Found at i:2817687 original size:114 final size:114
Alignment explanation
Indices: 2817485--2817696 Score: 352
Period size: 114 Copynumber: 1.9 Consensus size: 114
2817475 TGTAATTCAG
*
2817485 TAAGAGGAATAAATAAGCAAGCAAAATGGGAGTTGGCAGGTGTCAGCTATGGTCCAAACCTTAAC
1 TAAGAGGAATAAATAAGCAAGCAAAATGGGAGTTGGCAGGTGTCAGCTATGGTCCAAACCTTAAA
* *
2817550 CATGAAGCAAATAAGCATTAAAGGTAAGCATTTAATAGGCAAATTTGAC
66 CATGAAGCAAAGAAGCATAAAAGGTAAGCATTTAATAGGCAAATTTGAC
* * * * *
2817599 TAAGAGGAATAAATAAGCAAGCAAAATGTGAGTTGGTAGGTGTCATCTATGGTGCAAGCCTTAAA
1 TAAGAGGAATAAATAAGCAAGCAAAATGGGAGTTGGCAGGTGTCAGCTATGGTCCAAACCTTAAA
2817664 CATGAAGCAAAGAAGCATAAAAGGTAAGCATTT
66 CATGAAGCAAAGAAGCATAAAAGGTAAGCATTT
2817697 GATCCATTAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.22
Consensus pattern (114 bp):
TAAGAGGAATAAATAAGCAAGCAAAATGGGAGTTGGCAGGTGTCAGCTATGGTCCAAACCTTAAA
CATGAAGCAAAGAAGCATAAAAGGTAAGCATTTAATAGGCAAATTTGAC
Found at i:2821259 original size:2 final size:2
Alignment explanation
Indices: 2821243--2821298 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
2821233 TATGAATAAA
*
2821243 AT AT A- AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2821284 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
2821299 AAGAATATGG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2825192 original size:51 final size:51
Alignment explanation
Indices: 2825131--2825231 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
2825121 TTAACAGTTG
2825131 GAATACGATTATTTTTCTAAACATTGTTGATCTATGGAGAGAGATAATATT
1 GAATACGATTATTTTTCTAAACATTGTTGATCTATGGAGAGAGATAATATT
* * *
2825182 GAATATGATTATTTTTCTAAACATTGTTGATCTATGGGGAGAGGTAATAT
1 GAATACGATTATTTTTCTAAACATTGTTGATCTATGGAGAGAGATAATAT
2825232 CGATTGAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.40
Consensus pattern (51 bp):
GAATACGATTATTTTTCTAAACATTGTTGATCTATGGAGAGAGATAATATT
Found at i:2834976 original size:39 final size:39
Alignment explanation
Indices: 2834915--2835007 Score: 150
Period size: 39 Copynumber: 2.3 Consensus size: 39
2834905 ACAAAGCATG
*
2834915 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
2834956 CGGGACTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
2834995 CGGGACTTAGCCC
1 CGGGACTTAGCCC
2835008 TAAGTCTGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 41 0.84
40 2 0.04
41 6 0.12
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:2835117 original size:39 final size:39
Alignment explanation
Indices: 2835057--2835314 Score: 444
Period size: 39 Copynumber: 6.6 Consensus size: 39
2835047 GCAAAGCATG
*
2835057 CGGGACTTTAAGCCCGAATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* *
2835098 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
2835137 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
2835176 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
2835215 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
2835254 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
2835293 CGGGACTTAGCCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
2835315 TCTCCATTAT
Statistics
Matches: 208, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 200 0.96
40 2 0.01
41 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:2835122 original size:142 final size:142
Alignment explanation
Indices: 2834866--2835149 Score: 532
Period size: 142 Copynumber: 2.0 Consensus size: 142
2834856 TCATTGGCAT
2834866 TAAGTCTGCTAGATTTAAAACCAAAATCAAATCACCACCACAAAGCATGCGGGACTTTAAGCCCG
1 TAAGTCTGCTAGATTTAAAACCAAAATCAAATCACCACCACAAAGCATGCGGGACTTTAAGCCCG
* *
2834931 GATATAATACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAACACCAGCACGAATGCCTTC
66 AATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
2834996 GGGACTTAGCCC
131 GGGACTTAGCCC
*
2835008 TAAGTCTGCTAGATTTAAAACCAAAATCAAATCACCACCGCAAAGCATGCGGGACTTTAAGCCCG
1 TAAGTCTGCTAGATTTAAAACCAAAATCAAATCACCACCACAAAGCATGCGGGACTTTAAGCCCG
*
2835073 AATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTTC
66 AATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
2835138 GGGACTTAGCCC
131 GGGACTTAGCCC
2835150 GGATATAATA
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (142 bp):
TAAGTCTGCTAGATTTAAAACCAAAATCAAATCACCACCACAAAGCATGCGGGACTTTAAGCCCG
AATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
GGGACTTAGCCC
Found at i:2837070 original size:19 final size:19
Alignment explanation
Indices: 2837046--2837086 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2837036 GTTATAATAT
*
2837046 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
2837065 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
2837084 TAA
1 TAA
2837087 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:2843160 original size:6 final size:6
Alignment explanation
Indices: 2843137--2843263 Score: 91
Period size: 6 Copynumber: 20.8 Consensus size: 6
2843127 TATCTGAACT
* * * *
2843137 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
2843186 AGAATC AAAATC AG-ATC AGAATT AG-GTGAC AGAATT AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
*
2843234 AGTATC AGGTAAT- AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
2843264 GTGAATGCAA
Statistics
Matches: 93, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
5 10 0.11
6 73 0.78
7 6 0.06
8 4 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:2843182 original size:25 final size:25
Alignment explanation
Indices: 2843151--2843235 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
2843141 TCAAAATGAG
2843151 AATCAGAATCAGAATCAGGTGACAA
1 AATCAGAATCAGAATCAGGTGACAA
2843176 AATCAGAATCAG-A--A--T--CAA
1 AATCAGAATCAGAATCAGGTGACAA
* *
2843194 AATCAG-ATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAA
*
2843218 AATTAGAATCAGAATCAG
1 AATCAGAATCAGAATCAG
2843236 TATCAGGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
17 5 0.10
18 10 0.20
20 2 0.04
22 2 0.04
24 8 0.16
25 22 0.45
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTGACAA
Found at i:2843241 original size:42 final size:43
Alignment explanation
Indices: 2843136--2843254 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 43
2843126 TTATCTGAAC
* *
2843136 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGACAAAAT
1 TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAAAAT
* * * *
2843179 CAGAATCAGAATCAAAATCAG-ATCAGAATTAGGTGACAGAAT
1 TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAAAAT
*
2843221 TAGAATCAGAATCAGTATCAGGTAAT-AGAATCAG
1 TAGAATCAGAATCAGAATCA-G-AATCAGAATCAG
2843255 AATCAGAATG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 36 0.57
43 18 0.29
44 7 0.11
45 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (43 bp):
TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAAAAT
Found at i:2843249 original size:25 final size:24
Alignment explanation
Indices: 2843149--2843263 Score: 85
Period size: 25 Copynumber: 4.7 Consensus size: 24
2843139 AATCAAAATG
* *
2843149 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCA-GTAAT
* *
2843174 AAAATCAGAATCAGAATCA-AAAT
1 AGAATCAGAATCAGAATCAGTAAT
* *
2843197 CAG-ATCAGAATTAG-GTGACAG-AATT
1 -AGAATCAGAATCAGAAT--CAGTAA-T
*
2843222 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCA-GTAAT
2843247 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
2843264 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
22 1 0.01
23 11 0.15
24 9 0.13
25 47 0.66
26 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAT
Found at i:2843251 original size:31 final size:31
Alignment explanation
Indices: 2843185--2843263 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
2843175 AAATCAGAAT
* * *
2843185 CAGAATCAAAATCAG-ATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
2843215 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
2843246 TAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
2843264 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 13 0.32
31 28 0.68
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:2848612 original size:25 final size:25
Alignment explanation
Indices: 2848565--2848628 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
2848555 GATGATAATT
2848565 TTAATTTAATATA-TTTAATTGTAA
1 TTAATTTAATATATTTTAATTGTAA
2848589 TTAATTTAATATATTTTAATTGTAA
1 TTAATTTAATATATTTTAATTGTAA
*
2848614 TTAGTTTAATATATT
1 TTAATTTAATATATT
2848629 GAAAAACCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 13 0.34
25 25 0.66
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (25 bp):
TTAATTTAATATATTTTAATTGTAA
Found at i:2853413 original size:7 final size:6
Alignment explanation
Indices: 2853397--2853428 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
2853387 AAATAGATAA
2853397 AAAAAT AAAAAT AAAAAT AAAAAT AAATAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A
2853429 TATGAAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:2853625 original size:2 final size:2
Alignment explanation
Indices: 2853618--2853660 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2853608 TAAACAAATG
2853618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2853660 T
1 T
2853661 TAAAATAGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2858800 original size:21 final size:21
Alignment explanation
Indices: 2858776--2858820 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2858766 GATAAATTTA
2858776 ATTATCACAAAGATAAATAAC
1 ATTATCACAAAGATAAATAAC
* * *
2858797 ATTATCATAAATATAAATATC
1 ATTATCACAAAGATAAATAAC
2858818 ATT
1 ATT
2858821 TCAATATCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTATCACAAAGATAAATAAC
Found at i:2860647 original size:5 final size:5
Alignment explanation
Indices: 2860637--2860669 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
2860627 GGTAGTGTGA
2860637 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2860670 AACACACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:2860662 original size:9 final size:9
Alignment explanation
Indices: 2860638--2860668 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2860628 GTAGTGTGAA
2860638 AAATAAAAT
1 AAATAAAAT
2860647 AAAATAAAAT
1 -AAATAAAAT
2860657 AAATAAAAT
1 AAATAAAAT
2860666 AAA
1 AAA
2860669 AAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2860662 original size:14 final size:15
Alignment explanation
Indices: 2860637--2860669 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2860627 GGTAGTGTGA
2860637 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
2860652 AAAAT-AAATAAAAT
1 AAAATAAAATAAAAT
2860666 AAAA
1 AAAA
2860670 AACACACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:2864388 original size:12 final size:12
Alignment explanation
Indices: 2864371--2864396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2864361 AAAATAGGGC
2864371 TTTAGCGGCGTT
1 TTTAGCGGCGTT
2864383 TTTAGCGGCGTT
1 TTTAGCGGCGTT
2864395 TT
1 TT
2864397 ATTAAAAACA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:2864560 original size:41 final size:41
Alignment explanation
Indices: 2864486--2864667 Score: 321
Period size: 41 Copynumber: 4.5 Consensus size: 41
2864476 CGTATTTTAC
* *
2864486 TAAAACGGCGCTAAAAA-CAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGG
2864526 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGG
*
2864567 TAAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGG
*
2864608 TAAAACGCCGCTAAAAACCAGAGCAGTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGG
2864649 TAAAACGCCGCTAAAAACC
1 TAAAACGCCGCTAAAAACC
2864668 CCATAACCCC
Statistics
Matches: 136, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
40 16 0.12
41 120 0.88
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGG
Found at i:2864846 original size:14 final size:15
Alignment explanation
Indices: 2864829--2864862 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2864819 ATCATTATAT
2864829 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
2864843 TTTAA-GATATATGG
1 TTTAAGGATATATGG
2864857 TTTAAG
1 TTTAAG
2864863 CAGGTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:2865779 original size:12 final size:12
Alignment explanation
Indices: 2865732--2865791 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
2865722 TGTATATAAG
*
2865732 TATATAAGATATA
1 TATATAA-AAATA
*
2865745 TATATATAAATA
1 TATATAAAAATA
* *
2865757 TTATTTTAAAATA
1 -TATATAAAAATA
2865770 TATATAAAAATA
1 TATATAAAAATA
2865782 TATATGAAAA
1 TATAT-AAAA
2865792 GTGGTTTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 19 0.50
13 19 0.50
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:2870585 original size:21 final size:21
Alignment explanation
Indices: 2870556--2870595 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2870546 GTTTTTATAT
*
2870556 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
2870577 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
2870596 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:2871045 original size:21 final size:21
Alignment explanation
Indices: 2871016--2871055 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2871006 GTTTTTATAT
*
2871016 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
2871037 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
2871056 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:2871223 original size:460 final size:459
Alignment explanation
Indices: 2870131--2871411 Score: 2521
Period size: 460 Copynumber: 2.8 Consensus size: 459
2870121 GAAGTATGAA
2870131 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
1 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
2870196 TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
66 TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
2870261 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAA-AGATTGA
131 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGA-ATTGA
2870325 AAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAA-TTATTTCCACTTTACTTATAAAAAT
195 AAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAAT
2870389 TAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTT
260 TAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTT
2870454 GATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATTTTTATCAAAATAGTAT
325 GATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATTTTTATCAAAATAGTAT
2870519 TATTAATTATTATTGAAGTATGAATAAGTTTTTATATTTTGGTTCAACTTAAGTATTATTTGATT
390 TATTAATTATTATTGAAGTATGAATAAGTTTTTATATTTTGGTTCAACTTAAGTATTATTTGATT
2870584 CAACT
455 CAACT
2870589 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
1 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
2870654 TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
66 TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
2870719 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAA
131 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAA
2870784 AAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATT
196 AAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATT
2870849 AAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTG
261 AAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTG
2870914 ATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATTTTTATCAAAATAGTATT
326 ATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATTTTTATCAAAATAGTATT
2870979 ATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAACTTAAGTATTATTTGATT
391 ATTAATTATTA-TTGAAGTATGAATAAGTTTTTATATTTTGGTTCAACTTAAGTATTATTTGATT
2871044 CAACT
455 CAACT
2871049 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
1 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
2871114 TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
66 TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
2871179 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAA
131 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAA
*
2871244 AAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATT
196 AAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATT
2871309 AAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTG
261 AAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTG
2871374 ATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTT
326 ATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTT
2871412 TGTTATATTA
Statistics
Matches: 819, Mismatches: 1, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
458 231 0.28
459 168 0.21
460 420 0.51
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (459 bp):
TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTT
TAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAA
TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAA
AAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATT
AAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTG
ATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATTTTTATCAAAATAGTATT
ATTAATTATTATTGAAGTATGAATAAGTTTTTATATTTTGGTTCAACTTAAGTATTATTTGATTC
AACT
Found at i:2877207 original size:21 final size:21
Alignment explanation
Indices: 2877181--2877220 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2877171 ACTTAGAGCA
2877181 GAGGCAGCAGCGAGGGAGGTG
1 GAGGCAGCAGCGAGGGAGGTG
2877202 GAGGCAGCAGCGAGGGAGG
1 GAGGCAGCAGCGAGGGAGG
2877221 CGAAGCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.57, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGTG
Found at i:2877570 original size:44 final size:44
Alignment explanation
Indices: 2877522--2877641 Score: 170
Period size: 44 Copynumber: 2.8 Consensus size: 44
2877512 CTGGGTAAAT
*
2877522 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAATGTTCTTGGTCTA
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
** *
2877566 TAGCGGCGTTTTTTTACTAAAGCGCAGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
* * *
2877610 TAGCGGCGCTTTTGTAAAAAA-CGCCGCCAAAG
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAG
2877642 ACCAGGACCT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 9 0.14
44 57 0.86
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (44 bp):
TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
Found at i:2878587 original size:5 final size:5
Alignment explanation
Indices: 2878577--2878624 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
2878567 CAATTTGTGA
2878577 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2878625 AACACACAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2884707 original size:29 final size:28
Alignment explanation
Indices: 2884639--2884767 Score: 113
Period size: 29 Copynumber: 4.5 Consensus size: 28
2884629 AATCACGTTA
2884639 ATATTAA-ATT-AATAAATT-AT-TATC
1 ATATTAATATTAAATAAATTAATATATC
* * *
2884663 AAGATAAATATTAAATAAATTTAATATCTC
1 -ATATTAATATTAAATAAA-TTAATATATC
* * *
2884693 ACATTAATATTAAATCAATAAAGTATTATC
1 ATATTAATATTAAATAAATTAA-TA-TATC
*
2884723 TATATAAATATTAAATTAAATTAATATATC
1 -ATATTAATATTAAA-TAAATTAATATATC
2884753 ATATTAATATTAAAT
1 ATATTAATATTAAAT
2884768 TAATAAAATA
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
25 5 0.06
26 3 0.04
27 6 0.07
28 6 0.07
29 32 0.39
30 10 0.12
31 14 0.17
32 6 0.07
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
ATATTAATATTAAATAAATTAATATATC
Found at i:2884750 original size:24 final size:24
Alignment explanation
Indices: 2884723--2884779 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
2884713 AAGTATTATC
2884723 TATATAAATATTAA-ATTAAATTAA
1 TATAT-AATATTAATATTAAATTAA
*
2884747 TATATCATATTAATATTAAATTAA
1 TATATAATATTAATATTAAATTAA
2884771 TA-A-AATATT
1 TATATAATATT
2884780 CTTTAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.17
23 8 0.27
24 17 0.57
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATAATATTAATATTAAATTAA
Found at i:2884768 original size:29 final size:32
Alignment explanation
Indices: 2884636--2884779 Score: 110
Period size: 29 Copynumber: 4.8 Consensus size: 32
2884626 ATTAATCACG
* *
2884636 TTAATATTAAATT-AATAAATTATTATCAAGA
1 TTAATATTAAATTAAATAAAGTATTATCAATA
* * * *
2884667 TAAATATTAAA-TAAATTTAA-TA-TCTC-ACA
1 TTAATATTAAATTAAA-TAAAGTATTATCAATA
* *
2884696 TTAATATTAAA-TCAATAAAGTATTATCTATA
1 TTAATATTAAATTAAATAAAGTATTATCAATA
* *
2884727 TAAATATTAAATTAAATTAA-TA-TATC-ATA
1 TTAATATTAAATTAAATAAAGTATTATCAATA
*
2884756 TTAATATTAAATT-AATAAAATATT
1 TTAATATTAAATTAAATAAAGTATT
2884780 CTTTAGATAA
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
28 8 0.09
29 34 0.37
30 12 0.13
31 28 0.31
32 9 0.10
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (32 bp):
TTAATATTAAATTAAATAAAGTATTATCAATA
Found at i:2884799 original size:60 final size:61
Alignment explanation
Indices: 2884630--2884802 Score: 233
Period size: 60 Copynumber: 2.9 Consensus size: 61
2884620 ATTAGAATTA
* * *
2884630 ATCACGTTAATATTAAATTAATAAATTATTATCAAGATAAATATTAAA-TAAATTTAATAT
1 ATCACATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATAT
* * * *
2884690 CTCACATTAATATTAAATCAATAAAGTATTATCTATATAAATATTAAATTAAA-TTAATAT
1 ATCACATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATAT
* * * *
2884750 ATCATATTAATATTAAATTAATAAAATATTCTTTAGATAAATATGAAATTAAA
1 ATCACATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAA
2884803 ACAATGTTAT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 94 0.96
61 4 0.04
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (61 bp):
ATCACATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATAT
Found at i:2897387 original size:22 final size:22
Alignment explanation
Indices: 2897341--2897393 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
2897331 TATTAGATAT
**
2897341 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
2897363 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
*
2897385 TAATTAGAT
1 TAAATAGAT
2897394 GATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:2897528 original size:2 final size:2
Alignment explanation
Indices: 2897523--2897555 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2897513 TACATGTGTG
2897523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2897556 GAAAAGGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2899587 original size:46 final size:46
Alignment explanation
Indices: 2899535--2899759 Score: 299
Period size: 46 Copynumber: 4.9 Consensus size: 46
2899525 GTGCTCTCTA
* * *
2899535 ATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*
2899581 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*** * *
2899627 ACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
** *
2899673 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAATATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
2899719 ATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
2899760 TCGTGTCAAA
Statistics
Matches: 159, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 158 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:2900064 original size:16 final size:17
Alignment explanation
Indices: 2900045--2900077 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2900035 ATGATGAAGC
2900045 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
2900061 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
2900078 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:2902008 original size:10 final size:10
Alignment explanation
Indices: 2901993--2902043 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
2901983 TAATTTTAGG
2901993 ATTTAT-TTT
1 ATTTATCTTT
2902002 CATTTATCTTT
1 -ATTTATCTTT
2902013 ATTTATCTTT
1 ATTTATCTTT
* *
2902023 AATTATTTATT
1 ATTTATCT-TT
2902034 ATTTATCTTT
1 ATTTATCTTT
2902044 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 24 0.69
11 11 0.31
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:2902051 original size:21 final size:22
Alignment explanation
Indices: 2902011--2902056 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2902001 TCATTTATCT
**
2902011 TTATTTATCTTTAATTATTT-A
1 TTATTTATCTTTAAGAATTTCA
*
2902032 TTATTTATCTTTTAGAATTTCA
1 TTATTTATCTTTAAGAATTTCA
2902054 TTA
1 TTA
2902057 GGAATAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTTATCTTTAAGAATTTCA
Found at i:2907334 original size:21 final size:21
Alignment explanation
Indices: 2907301--2907340 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2907291 AAATGGTAGC
* *
2907301 AAAATAGTGAAAAAAAACAAG
1 AAAACAGTAAAAAAAAACAAG
*
2907322 AAAACAGTAAAAAATAACA
1 AAAACAGTAAAAAAAAACA
2907341 GTTTTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAACAGTAAAAAAAAACAAG
Found at i:2913586 original size:21 final size:22
Alignment explanation
Indices: 2913560--2913601 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2913550 TGACCTTTCC
*
2913560 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
2913581 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
2913602 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:2913587 original size:11 final size:10
Alignment explanation
Indices: 2913560--2913601 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
2913550 TGACCTTTCC
2913560 AAGGTATGGG
1 AAGGTATGGG
*
2913570 TAGGTATGGG
1 AAGGTATGGG
2913580 AAAGGTATGGG
1 -AAGGTATGGG
2913591 CAAGGTATGGG
1 -AAGGTATGGG
2913602 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:2921504 original size:27 final size:28
Alignment explanation
Indices: 2921474--2921573 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
2921464 TTTAGTTTAC
2921474 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
2921501 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
2921528 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
2921555 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
2921574 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:2921573 original size:54 final size:54
Alignment explanation
Indices: 2921474--2921580 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
2921464 TTTAGTTTAC
* * *
2921474 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
2921528 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
2921581 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:2921591 original size:54 final size:53
Alignment explanation
Indices: 2921476--2921592 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
2921466 TAGTTTACTA
* * * **
2921476 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
* *
2921529 AAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTAC
1 AAA-TTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTAC
2921583 AGAATTACCG
1 A-AATTACCG
2921593 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
53 11 0.21
54 40 0.75
55 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
Found at i:2921599 original size:27 final size:27
Alignment explanation
Indices: 2921569--2921859 Score: 320
Period size: 27 Copynumber: 10.8 Consensus size: 27
2921559 ATTACCAAAG
*
2921569 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
2921596 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
2921623 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
2921650 TACCCTCGACTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
2921677 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
2921704 TACCCTCGATTTACATAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
2921731 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
2921758 TACCCTCGATTTACTGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
2921785 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
2921812 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
2921839 TACCCTCGATTTACA-AATTAC
1 TACCCTCGATTTACAGAATTAC
2921860 TAAAATACCC
Statistics
Matches: 233, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.03
27 223 0.96
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:2921885 original size:53 final size:54
Alignment explanation
Indices: 2921728--2921886 Score: 144
Period size: 54 Copynumber: 3.0 Consensus size: 54
2921718 ATAATTATCA
* ***** * *
2921728 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACT-GAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTAAAATACCCTTGATTTA-TAAAATTACTG
* * *** *
2921782 TTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTAAAATACCCTTGATTTATAAAATTACTG
*
2921836 TTTTACCCTCGATTTACA-AATTACTAAAATACCCTT-AGTTTGTAAAATTAC
1 TTTTACCCTCGATTTACAGAATTACTAAAATACCCTTGA-TTTATAAAATTAC
2921887 CAAATACCCC
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 27 0.30
54 62 0.69
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACTAAAATACCCTTGATTTATAAAATTACTG
Found at i:2921891 original size:26 final size:27
Alignment explanation
Indices: 2921853--2921976 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
2921843 CTCGATTTAC
*
2921853 AAATTACTAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
2921880 AAATTACC-AAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
2921906 AAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
2921933 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
2921960 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
2921977 CTGATTTACA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 25 0.30
27 58 0.70
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:2921910 original size:53 final size:54
Alignment explanation
Indices: 2921853--2921976 Score: 180
Period size: 53 Copynumber: 2.3 Consensus size: 54
2921843 CTCGATTTAC
* *
2921853 AAATTACTAAAATACCCTTAGTTTGTAAAATTACC-AAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTC-AATTTGTA
* * *
2921906 AAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTA
2921960 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
2921977 CTGATTTACA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 31 0.49
54 31 0.49
55 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTA
Found at i:2922054 original size:27 final size:27
Alignment explanation
Indices: 2922015--2922066 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
2922005 TGACTTTCTA
2922015 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
2922042 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
2922067 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:2922184 original size:27 final size:27
Alignment explanation
Indices: 2922120--2922184 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
2922110 ACCCCTAAAA
*
2922120 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
2922147 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
2922174 GGTAAAATGAC
1 GGTAAAATGAC
2922185 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:2923374 original size:25 final size:25
Alignment explanation
Indices: 2923345--2923392 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
2923335 TTATAATATG
* *
2923345 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
2923370 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
2923393 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:2923443 original size:9 final size:9
Alignment explanation
Indices: 2923431--2923487 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
2923421 TTTGATAAAC
2923431 ATGATATGA
1 ATGATATGA
2923440 ATGATATGCA
1 ATGATATG-A
* *
2923450 CATGACATGT
1 -ATGATATGA
2923460 ATGATATGCA
1 ATGATATG-A
*
2923470 CATGATATGT
1 -ATGATATGA
2923480 ATGATATG
1 ATGATATG
2923488 CACATGAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 23 0.59
10 1 0.03
11 15 0.38
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (9 bp):
ATGATATGA
Found at i:2923454 original size:20 final size:20
Alignment explanation
Indices: 2923429--2923499 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
2923419 ATTTTGATAA
*
2923429 ACATGATATGAATGATATGC
1 ACATGATATGTATGATATGC
*
2923449 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
2923469 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
2923489 ACATGAGATGT
1 ACATGATATGT
2923500 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:2923576 original size:23 final size:23
Alignment explanation
Indices: 2923546--2923687 Score: 205
Period size: 23 Copynumber: 6.1 Consensus size: 23
2923536 AGGAAGTGCA
*
2923546 AAAGGGCTAATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
2923569 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
2923593 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
2923616 AAAGGGCTTATG-CCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
2923639 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
2923662 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2923685 AAA
1 AAA
2923688 AGAGGCAAGG
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
22 8 0.08
23 68 0.64
24 30 0.28
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:2923598 original size:47 final size:47
Alignment explanation
Indices: 2923544--2923708 Score: 235
Period size: 47 Copynumber: 3.5 Consensus size: 47
2923534 GGAGGAAGTG
2923544 CAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
2923591 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTGAT
1 CAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
2923637 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
2923684 TAAAAGAGGC-AAGGCCTCCAGTTAT
1 CAAAAG-GGCTAATGCC-CCAGTTAT
2923709 ATGATAAAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
46 43 0.40
47 53 0.50
48 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (47 bp):
CAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:2923937 original size:31 final size:31
Alignment explanation
Indices: 2923902--2923965 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
2923892 CGTTTACAGT
*
2923902 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
2923933 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
2923964 AA
1 AA
2923966 TATGAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:2931236 original size:19 final size:19
Alignment explanation
Indices: 2931212--2931319 Score: 154
Period size: 17 Copynumber: 5.9 Consensus size: 19
2931202 AATCATATCT
*
2931212 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
2931231 TCTAAGATTG--TATTATA
1 TCTAAGATTGCATATCATA
2931248 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
2931266 TCTAAGATTGC--ATCATA
1 TCTAAGATTGCATATCATA
*
2931283 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
2931302 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
2931320 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
17 33 0.41
18 16 0.20
19 32 0.40
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2931269 original size:35 final size:36
Alignment explanation
Indices: 2931212--2931314 Score: 163
Period size: 35 Copynumber: 2.9 Consensus size: 36
2931202 AATCATATCT
* * *
2931212 TCTAAGATTGTATATCATATCTAAGATTGTATTATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATCATA
2931248 TCTAAGATTGCA-ATCATATCTAAGATTGCATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATCATA
*
2931283 TCTAAGATTGCATATCACATCTAAGATTGCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCAT
2931315 ATCATTGAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 33 0.53
36 29 0.47
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATCATA
Found at i:2934268 original size:42 final size:42
Alignment explanation
Indices: 2934205--2934296 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
2934195 TGGCCCATAG
* *
2934205 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACAAATGAAATACCAATGAATGTATGCAA
*
2934247 GCCCATTTCAATATCAAATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACAAATGAAATACCAATGAATGTATGCAA
2934289 GCCCATTT
1 GCCCATTT
2934297 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACAAATGAAATACCAATGAATGTATGCAA
Found at i:2934478 original size:27 final size:27
Alignment explanation
Indices: 2934442--2934538 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 27
2934432 CTCTTTTAAT
2934442 AACTGGGGCAAAGCCCTTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTTTGATA
* *
2934469 AACTGAGGCAAAGCCC--TTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTTTGATA
* **
2934494 AACTGGGGTAAAGCCC-TTTTCGGA-A
1 AACTGGGGCAAAGCCCTTTTTTTGATA
2934519 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
2934539 AGCACTTCCT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 35 0.59
26 9 0.15
27 15 0.25
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (27 bp):
AACTGGGGCAAAGCCCTTTTTTTGATA
Found at i:2935409 original size:27 final size:27
Alignment explanation
Indices: 2935347--2935424 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
2935337 GGGCATATTC
2935347 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
2935374 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
2935401 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
2935425 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:2935498 original size:27 final size:26
Alignment explanation
Indices: 2935468--2935572 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 26
2935458 AATCTACAAT
2935468 CCAAGGGTATTTCAGTAATTTTGTAAA
1 CCAAGGGTATTTCAGTAATTTT-TAAA
*
2935495 CCAATGGTATTTCCA-TAATTTTTAGAAA
1 CCAAGGGTATTT-CAGTAATTTTT--AAA
* * *
2935523 GTCAAGGGTATTTCTGTAACTTTCTAAA
1 -CCAAGGGTATTTCAGTAA-TTTTTAAA
* * **
2935551 TCAGGGGTATTTTGGTAATTTT
1 CCAAGGGTATTTCAGTAATTTT
2935573 ACAAATTTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
26 4 0.06
27 33 0.52
28 9 0.14
29 13 0.21
30 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (26 bp):
CCAAGGGTATTTCAGTAATTTTTAAA
Found at i:2935570 original size:56 final size:54
Alignment explanation
Indices: 2935469--2935643 Score: 156
Period size: 54 Copynumber: 3.2 Consensus size: 54
2935459 ATCTACAATC
* * *** *
2935469 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAA-TTTCTAAACCAGTGGTATTTTGGTAATTTTTACAAA-T
* * *
2935525 CAAGGGTATTTCTGTAACTTTCTAAATCAGGGGTATTTTGGTAA-TTTTACAAAT
1 CAAGGGTATTTCAGTAA-TTTCTAAACCAGTGGTATTTTGGTAATTTTTACAAAT
** * * *
2935579 TTAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTCTGGTAA-TTTTACAAAT
1 CAAGGGTATTTCAGTAATTTC-TAAACCAGTGGTATTTTGGTAATTTTTACAAAT
* *
2935633 TAGGGGTATTT
1 CAAGGGTATTT
2935644 TGGTAATATT
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 4 0.04
54 52 0.53
55 8 0.08
56 35 0.35
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTCTAAACCAGTGGTATTTTGGTAATTTTTACAAAT
Found at i:2935578 original size:27 final size:27
Alignment explanation
Indices: 2935514--2935760 Score: 166
Period size: 27 Copynumber: 9.1 Consensus size: 27
2935504 TTTCCATAAT
* *
2935514 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
*
2935542 CTTT-CTAAATCAGGGGTATTTTGGTAA
1 TTTTAC-AAATCAGGGGTATTTTGGTAA
* *
2935569 TTTTACAAATTTA-GGGTATTTCGGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* * * *
2935596 TTTCACAAACCAGTGGTATTCTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
2935623 TTTTACAAATTAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
2935650 TATTACAAA-CTAGGGGTATTTTAGCAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* * *
2935677 TTATACAGAAT-A-AGGTATTTTGCTAA
1 TTTTACA-AATCAGGGGTATTTTGGTAA
***
2935703 TTTTATTGATC-GAGGGTATTTTGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
** * * *
2935730 TTTTGTAAACCAAGGGTATTTTAGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
2935757 TTTT
1 TTTT
2935761 GTAAATCGAG
Statistics
Matches: 168, Mismatches: 39, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
25 2 0.01
26 16 0.10
27 139 0.83
28 11 0.07
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:2935761 original size:27 final size:27
Alignment explanation
Indices: 2935715--2935774 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
2935705 TTATTGATCG
*
2935715 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCA
* *
2935742 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAACCA
2935769 AGGGTA
1 AGGGTA
2935775 AAACAGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAACCA
Found at i:2935782 original size:27 final size:27
Alignment explanation
Indices: 2935752--2935909 Score: 181
Period size: 27 Copynumber: 5.9 Consensus size: 27
2935742 AGGGTATTTT
* *
2935752 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
2935779 AGTAATTCTATAAATCAAGGGTTACAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
2935806 AGTAATTCTATAAATCGAGGATAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
2935833 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * * * * *
2935860 GGTAATTTTGTAAGTCGAGAGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
2935887 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
2935910 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:2935784 original size:54 final size:54
Alignment explanation
Indices: 2935725--2935922 Score: 193
Period size: 54 Copynumber: 3.7 Consensus size: 54
2935715 AGGGTATTTT
* * * *
2935725 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCAAGGGTATTATAGTAATTTTGTAAATCGAGGGTAAAAC
* * * * * *
2935779 AGTAATTCTATAAATCAAGGGT-TACACAGTAATTCTATAAATCGAGGATAAAAC
1 GGTAATTCTATAAATCAAGGGTAT-TATAGTAATTTTGTAAATCGAGGGTAAAAC
* ** * * * *
2935833 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAGTCGAGAGTAAAAT
1 GGTAATTCTATAAATCAAGGGTATTATAGTAATTTTGTAAATCGAGGGTAAAAC
* *
2935887 GGTAATTCTATAAATCGAGGGTACTT-TGGTAATTTT
1 GGTAATTCTATAAATCAAGGGTA-TTATAGTAATTTT
2935923 ACAATTTGAG
Statistics
Matches: 117, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 116 0.99
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (54 bp):
GGTAATTCTATAAATCAAGGGTATTATAGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:2938788 original size:40 final size:41
Alignment explanation
Indices: 2938733--2938828 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
2938723 ATTTAGTAAA
* *
2938733 AAAACACCGCTAAAAA-TAGAGCATTAGCGGCGC-TTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTA-GT
*
2938773 AAAACGCCGCTAAAAACCAGAGCATTAGCGGTGCTTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGT
*
2938814 AAAACGCTGCTAAAA
1 AAAACGCCGCTAAAA
2938829 GTCATATAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 15 0.30
41 31 0.62
42 4 0.08
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGT
Found at i:2939008 original size:14 final size:14
Alignment explanation
Indices: 2938986--2939030 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
2938976 TTAATTATCA
*
2938986 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
2939000 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
2939014 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
2939028 TTA
1 TTA
2939031 AGTAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:2939059 original size:49 final size:46
Alignment explanation
Indices: 2939001--2939097 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 46
2938991 GTTTAAGGTT
*
2939001 TATGGTTTAAGATATATGGTTTAGGGTTTAAGTAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAG-A--TTTAGGAGTTAAC
2939050 TATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTAGGAGTTAAC
2939096 TA
1 TA
2939098 GTATTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
46 14 0.30
48 1 0.02
49 32 0.68
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTAGGAGTTAAC
Found at i:2939079 original size:21 final size:21
Alignment explanation
Indices: 2938997--2939083 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 21
2938987 TATAGTTTAA
*
2938997 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
*
2939018 GGTTTAGGGTTTAAGTAGGTTTAT
1 GGTTTAGGGTTTAAG-A--TATAT
*
2939042 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
2939067 GGTTTAGGGTTTAAGAT
1 GGTTTAGGGTTTAAGAT
2939084 TTAGGAGTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
21 26 0.48
22 1 0.02
24 8 0.15
25 8 0.15
27 1 0.02
28 10 0.19
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:2939622 original size:14 final size:14
Alignment explanation
Indices: 2939603--2939647 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
2939593 TTAATTATCA
2939603 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
2939617 TTATAGTGTAGGGT
1 TTATAGTTTAGGGT
* *
2939631 GTATGGTTTAGGGT
1 TTATAGTTTAGGGT
2939645 TTA
1 TTA
2939648 ATTTTTAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:2947168 original size:26 final size:26
Alignment explanation
Indices: 2947137--2947244 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
2947127 TGAAATGCCC
*
2947137 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
2947163 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
2947189 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
2947215 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
2947241 ATCA
1 ATCA
2947245 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:2955341 original size:26 final size:26
Alignment explanation
Indices: 2955310--2955417 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
2955300 TGAAATGCCC
2955310 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
2955336 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
2955362 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
2955388 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
2955414 ATCA
1 ATCA
2955418 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:2957716 original size:36 final size:36
Alignment explanation
Indices: 2957669--2957741 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
2957659 ACTCGAAATA
*
2957669 ATGTTAGAAAAGAGTGAAAAAGAAATTTTTATTCTC
1 ATGTTAGAAAAGAGAGAAAAAGAAATTTTTATTCTC
2957705 ATGTTAGAAAAGAGAGAAAAAGAAATTTTTATTCTC
1 ATGTTAGAAAAGAGAGAAAAAGAAATTTTTATTCTC
2957741 A
1 A
2957742 CGAAGAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (36 bp):
ATGTTAGAAAAGAGAGAAAAAGAAATTTTTATTCTC
Found at i:2960044 original size:2 final size:2
Alignment explanation
Indices: 2960037--2960071 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2960027 CTAATGTATT
2960037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2960072 TTTCCTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2960548 original size:40 final size:40
Alignment explanation
Indices: 2960491--2960578 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
2960481 TTTTATCTGA
* *
2960491 ATTTTTGTAAATATTTTGTAGTGTTAATTATAAGTTTTAT
1 ATTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTAT
* * * *
2960531 ATTTTTGTGAATCTTTTGTATTATTAATTATAGGTCTTAT
1 ATTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTAT
*
2960571 AATTTTGT
1 ATTTTTGT
2960579 TCCATTTGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.58
Consensus pattern (40 bp):
ATTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTAT
Found at i:2961099 original size:27 final size:27
Alignment explanation
Indices: 2961061--2961112 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2961051 ATGGTGATAG
2961061 TAGTGATAATGCTGATGAAGAGTTATC
1 TAGTGATAATGCTGATGAAGAGTTATC
*
2961088 TAGTGATGATGCTGATGAAGAGTTA
1 TAGTGATAATGCTGATGAAGAGTTA
2961113 ACTATCGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (27 bp):
TAGTGATAATGCTGATGAAGAGTTATC
Done.