Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold451
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: 596512
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 5
Found at i:464 original size:13 final size:13
Alignment explanation
Indices: 446--471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
436 ACAAAGATCC
446 ATGTATCGATACA
1 ATGTATCGATACA
459 ATGTATCGATACA
1 ATGTATCGATACA
472 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:467 original size:33 final size:33
Alignment explanation
Indices: 425--491 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
415 AAAATTTCCA
***
425 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
458 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
491 A
1 A
492 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:535 original size:19 final size:18
Alignment explanation
Indices: 511--578 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
501 CAGTAGCTAA
511 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
530 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
545 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
562 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
579 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:551 original size:13 final size:13
Alignment explanation
Indices: 533--557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
523 ACAATACTTA
533 TGTATCGATACAT
1 TGTATCGATACAT
546 TGTATCGATACA
1 TGTATCGATACA
558 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:555 original size:32 final size:32
Alignment explanation
Indices: 514--576 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
504 TAGCTAATTA
*
514 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
546 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
577 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:658 original size:21 final size:21
Alignment explanation
Indices: 634--690 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
624 CATTTGTAGG
634 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
655 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
676 ATGTATCGATACATT
1 ATGTATCGATACATT
691 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:701 original size:1 final size:1
Alignment explanation
Indices: 695--742 Score: 78
Period size: 1 Copynumber: 48.0 Consensus size: 1
685 TACATTTAAA
**
695 TTTTTTTTTTTTTTTTTTTTTCATTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
743 CAAACACTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:724 original size:23 final size:23
Alignment explanation
Indices: 694--738 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
684 ATACATTTAA
694 ATTTTTTTTTTTTTTTTTTTTTC
1 ATTTTTTTTTTTTTTTTTTTTTC
717 ATTTTTTTTTTTTTTTTTTTTT
1 ATTTTTTTTTTTTTTTTTTTTT
739 TTTTCAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.93
Consensus pattern (23 bp):
ATTTTTTTTTTTTTTTTTTTTTC
Found at i:1018 original size:8 final size:8
Alignment explanation
Indices: 936--1024 Score: 54
Period size: 8 Copynumber: 10.0 Consensus size: 8
926 GGTGTCTACA
936 ATATTTAT
1 ATATTTAT
*
944 ATTATTTTT
1 A-TATTTAT
*
953 ATATTAAAAT
1 ATATT--TAT
963 AATATTTA-
1 -ATATTTAT
*
971 AAATGTTAT
1 ATAT-TTAT
980 ATATTTAAT
1 ATATTT-AT
989 ATATTTAT
1 ATATTTAT
997 ATAAATTTTGAT
1 AT--A-TTT-AT
1009 ATATTTAT
1 ATATTTAT
1017 ATATTTAT
1 ATATTTAT
1025 GTTATATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
7 3 0.05
8 24 0.38
9 22 0.34
10 3 0.05
11 8 0.12
12 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (8 bp):
ATATTTAT
Found at i:1032 original size:19 final size:19
Alignment explanation
Indices: 976--1035 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
966 ATTTAAAATG
976 TTATATATTTA--ATATAT
1 TTATATATTTATGATATAT
993 TTATATAAATTT-TGATATAT
1 TTATAT--ATTTATGATATAT
*
1013 TTATATATTTATGTTATAT
1 TTATATATTTATGATATAT
1032 TTAT
1 TTAT
1036 TTTATTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
17 6 0.16
18 4 0.11
19 15 0.41
20 12 0.32
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTATATATTTATGATATAT
Found at i:1082 original size:28 final size:27
Alignment explanation
Indices: 988--1082 Score: 68
Period size: 28 Copynumber: 3.4 Consensus size: 27
978 ATATATTTAA
* *
988 TATATTTATA-TAAATTTTGATATATTT
1 TATATTTATATTATATTTTAAT-TATTT
* *
1015 ATATATTTATGTTATA-TTTATTTTATTTT
1 -TATATTTATATTATATTTTA-ATTA-TTT
* *
1044 TGTATAATATATTATATTTTAATTATTT
1 TATAT-TTATATTATATTTTAATTATTT
1072 TATATTATATA
1 TATATT-TATA
1083 ATGCACAGCG
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
28 29 0.57
29 18 0.35
30 4 0.08
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTTATATTATATTTTAATTATTT
Found at i:1661 original size:17 final size:16
Alignment explanation
Indices: 1618--1662 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
1608 AAGTTCATAG
*
1618 TTTAAAAATAAAAAAAT
1 TTTAAAAAT-TAAAAAT
1635 TTTAAAAATTAAAAAT
1 TTTAAAAATTAAAAAT
1651 TATTAAAAATTA
1 T-TTAAAAATTA
1663 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTTAAAAATTAAAAAT
Found at i:1934 original size:28 final size:29
Alignment explanation
Indices: 1852--1941 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
1842 ATGAAAAATA
*
1852 ATTTTTAATAATTATT-TATTAAA-ATTAT
1 ATTTTTAAT-ATTATTAAATTAAATATTAT
* *
1880 ATTTTTTAAATATT-TTAAAAGT-GATATT-T
1 A-TTTTT-AATATTATT-AAATTAAATATTAT
*
1909 ATTTTTAATATTATTAAATTAAATATAAT
1 ATTTTTAATATTATTAAATTAAATATTAT
1938 ATTT
1 ATTT
1942 ATTTTTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
27 10 0.21
28 14 0.29
29 16 0.33
30 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTTTTAATATTATTAAATTAAATATTAT
Found at i:2168 original size:14 final size:14
Alignment explanation
Indices: 2118--2161 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
2108 TAATTACTAG
2118 TAATATTT-AATTT
1 TAATATTTAAATTT
*
2131 GTATAAATTTAAATTT
1 -TA-ATATTTAAATTT
2147 TAATATTTAAATTT
1 TAATATTTAAATTT
2161 T
1 T
2162 TTTATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
15 7 0.27
16 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TAATATTTAAATTT
Found at i:3066 original size:2 final size:2
Alignment explanation
Indices: 3059--3099 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
3049 CAGCATGTGG
*
3059 AT AT AT AT -T AT AT AT AT AT AC AT AT A- 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
3099 A
1 A
3100 CACACAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3088 original size:15 final size:15
Alignment explanation
Indices: 3070--3099 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3060 TATATATTAT
3070 ATATATATACATATA
1 ATATATATACATATA
*
3085 ATATATATATATATA
1 ATATATATACATATA
3100 CACACAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATATACATATA
Found at i:3088 original size:17 final size:17
Alignment explanation
Indices: 3063--3095 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3053 ATGTGGATAT
*
3063 ATATTATATATATATAC
1 ATATAATATATATATAC
3080 ATATAATATATATATA
1 ATATAATATATATATA
3096 TATACACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAATATATATATAC
Found at i:3089 original size:19 final size:19
Alignment explanation
Indices: 3061--3097 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3051 GCATGTGGAT
*
3061 ATATATTATATATATATAC
1 ATATAATATATATATATAC
3080 ATATAATATATATATATA
1 ATATAATATATATATATA
3098 TACACACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATATATATATATAC
Found at i:3091 original size:21 final size:21
Alignment explanation
Indices: 3059--3101 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
3049 CAGCATGTGG
3059 ATATATATTATATATATATAC
1 ATATATATTATATATATATAC
3080 ATATA-ATATATATATATATAC
1 ATATATAT-TATATATATATAC
3101 A
1 A
3102 CACAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATATATTATATATATATAC
Found at i:3108 original size:21 final size:21
Alignment explanation
Indices: 3067--3109 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3057 GGATATATAT
* *
3067 TATATATATATACATATAATA
1 TATATATATATACACACAATA
3088 TATATATATATACACACAATA
1 TATATATATATACACACAATA
3109 T
1 T
3110 CTTGCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (21 bp):
TATATATATATACACACAATA
Found at i:3662 original size:21 final size:21
Alignment explanation
Indices: 3615--3662 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
3605 TTATGATATG
* *
3615 ATAAA-ATATTTAAAAATGAT
1 ATAAATATATATAAAAATAAT
**
3635 ACGAATATATATAAAAATAAT
1 ATAAATATATATAAAAATAAT
3656 ATAAATA
1 ATAAATA
3663 ATAATATTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
ATAAATATATATAAAAATAAT
Found at i:4750 original size:17 final size:16
Alignment explanation
Indices: 4728--4762 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4718 AAATTCACTT
4728 TTTACTTAAAAAAACTA
1 TTTACTTAAAAAAA-TA
*
4745 TTTACTTTAAAAAATA
1 TTTACTTAAAAAAATA
4761 TT
1 TT
4763 AATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTACTTAAAAAAATA
Found at i:5993 original size:16 final size:16
Alignment explanation
Indices: 5963--6001 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
5953 GATAATTTTT
5963 AAATA-ATAATTTAAA
1 AAATATATAATTTAAA
*
5978 AAATATATATTTTAAA
1 AAATATATAATTTAAA
5994 AAATATAT
1 AAATATAT
6002 TTATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATAATTTAAA
Found at i:6010 original size:13 final size:14
Alignment explanation
Indices: 5959--6009 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
5949 TAGTGATAAT
*
5959 TTTTAAATAATA-A
1 TTTTAAAAAATATA
*
5972 TTTAAAAAATATATA
1 TTTTAAAAA-ATATA
5987 TTTTAAAAAATATA
1 TTTTAAAAAATATA
6001 TTTATAAAA
1 TTT-TAAAA
6010 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 7 0.22
14 11 0.34
15 14 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTAAAAAATATA
Found at i:6015 original size:21 final size:20
Alignment explanation
Indices: 5965--6034 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 20
5955 TAATTTTTAA
5965 ATAATAATTTAAAAAA-TA-T
1 ATAATAA-TTAAAAAATTATT
*
5984 AT-AT-TTTAAAAAATATATTT
1 ATAATAATTAAAAAAT-TA-TT
6004 ATAA-AATTAAAAAATTATT
1 ATAATAATTAAAAAATTATT
6023 ATAATAA-TAAAA
1 ATAATAATTAAAA
6035 TTACCTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
16 8 0.19
18 4 0.10
19 13 0.31
20 7 0.17
21 10 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATAATTAAAAAATTATT
Found at i:7097 original size:32 final size:33
Alignment explanation
Indices: 7049--7127 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 33
7039 ATATTCGTAT
7049 TTAATATATTATATTTTATATAAATTTTAATAAA
1 TTAATATATT-TATTTTATATAAATTTTAATAAA
** *
7083 TTAATA-ATTTATTTTATATATTTTTTAATATA
1 TTAATATATTTATTTTATATAAATTTTAATAAA
*
7115 TTTATATATTTAT
1 TTAATATATTTAT
7128 ATCTTGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 25 0.62
33 9 0.22
34 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TTAATATATTTATTTTATATAAATTTTAATAAA
Found at i:7774 original size:23 final size:23
Alignment explanation
Indices: 7748--7803 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
7738 TTAAATGATC
* *
7748 ATATTTATGAACATTTAATAAAT
1 ATATTTATGAACAATTAAAAAAT
* *
7771 ATATTCATGAATAATTAAAAAAT
1 ATATTTATGAACAATTAAAAAAT
7794 -TATTTATGAA
1 ATATTTATGAA
7804 TGATAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (23 bp):
ATATTTATGAACAATTAAAAAAT
Found at i:15778 original size:25 final size:22
Alignment explanation
Indices: 15739--15788 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 22
15729 TGTTTATATA
15739 ATTTATGAAGTATTAAAATTAT
1 ATTTATGAAGTATTAAAATTAT
*
15761 ATTTATGAATGATAATTAAATTTAT
1 ATTTATGAA-G-T-ATTAAAATTAT
15786 ATT
1 ATT
15789 AAATAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
24 1 0.04
25 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (22 bp):
ATTTATGAAGTATTAAAATTAT
Found at i:15800 original size:25 final size:25
Alignment explanation
Indices: 15750--15806 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
15740 TTTATGAAGT
* *
15750 ATTAAAATTATATTTATGAATGATA
1 ATTAAAATTATATTAATGAATAATA
*
15775 ATTAAATTTATATTAAAT-AATAATA
1 ATTAAAATTATATT-AATGAATAATA
*
15800 AATAAAA
1 ATTAAAA
15807 ATAATAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTAAAATTATATTAATGAATAATA
Found at i:16034 original size:21 final size:20
Alignment explanation
Indices: 16008--16046 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15998 TCGAATTACT
16008 ATTTAATAAATAAAATATTTA
1 ATTTAAT-AATAAAATATTTA
*
16029 ATTTAATTATAAAATATT
1 ATTTAATAATAAAATATT
16047 AATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAATAATAAAATATTTA
Found at i:18341 original size:21 final size:22
Alignment explanation
Indices: 18305--18350 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
18295 TTAATTATTT
18305 TTTTAAAATAATA-TTTAATAA
1 TTTTAAAATAATATTTTAATAA
*
18326 TTTTAAAATTAA-ATTTTAATTA
1 TTTTAAAA-TAATATTTTAATAA
18348 TTT
1 TTT
18351 ATAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAAAATAATATTTTAATAA
Found at i:18350 original size:22 final size:22
Alignment explanation
Indices: 18288--18350 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
18278 TTCAAAATTT
*
18288 AATTAAATTAATT-ATTTTTTTAA
1 AATTAAATT--TTAATTATTTTAA
*
18311 AA-T-AATATTTAATAATTTTAA
1 AATTAAAT-TTTAATTATTTTAA
18332 AATTAAATTTTAATTATTT
1 AATTAAATTTTAATTATTT
18351 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.06
21 13 0.39
22 13 0.39
23 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTAAATTTTAATTATTTTAA
Found at i:19661 original size:23 final size:22
Alignment explanation
Indices: 19616--19672 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 22
19606 TTTCATTTAA
19616 TAAAAAATATTATTTAAATTTAAT-
1 TAAAAAATA-TA--TAAATTTAATG
19640 TATAAAAATATATAAATATTAATG
1 TA-AAAAATATATAAAT-TTAATG
19664 TAAAAAATA
1 TAAAAAATA
19673 AAATTTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.17
23 12 0.40
24 6 0.20
25 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAAAATATATAAATTTAATG
Found at i:23588 original size:23 final size:23
Alignment explanation
Indices: 23562--23613 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
23552 TTTATATAAT
*
23562 TATTTGTAAAA-AATAATATTTAA
1 TATTTATAAAATAATAAT-TTTAA
**
23585 TATTTATAAAATTTTAATTTTAA
1 TATTTATAAAATAATAATTTTAA
23608 TATTTA
1 TATTTA
23614 CAATCACGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTTATAAAATAATAATTTTAA
Found at i:25464 original size:4 final size:4
Alignment explanation
Indices: 25455--25479 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
25445 TATGCCCAAC
25455 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
25480 CCCTCACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:26096 original size:14 final size:14
Alignment explanation
Indices: 26069--26152 Score: 86
Period size: 14 Copynumber: 6.0 Consensus size: 14
26059 TTATAAAATT
26069 TTTAATTAAATAAAA
1 TTTAATT-AATAAAA
26084 TTTAATTAATAAAA
1 TTTAATTAATAAAA
*
26098 TTTATTTAA-AAATA
1 TTTAATTAATAAA-A
*
26112 TTTAATAAAT-AAA
1 TTTAATTAATAAAA
26125 TTTAA--AATTAAAA
1 TTTAATTAA-TAAAA
26138 TTTAATTATATAAAA
1 TTTAATTA-ATAAAA
26153 AATTATATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
11 2 0.03
12 1 0.02
13 17 0.29
14 25 0.42
15 13 0.22
16 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAATTAATAAAA
Found at i:26127 original size:13 final size:14
Alignment explanation
Indices: 26069--26143 Score: 75
Period size: 13 Copynumber: 5.4 Consensus size: 14
26059 TTATAAAATT
26069 TTTAATTAAATAAAA
1 TTTAA-TAAATAAAA
*
26084 TTTAATTAATAAAA
1 TTTAATAAATAAAA
* *
26098 TTTATTTAAA-AATA
1 TTTA-ATAAATAAAA
26112 TTTAATAAAT-AAA
1 TTTAATAAATAAAA
*
26125 TTTAA-AATTAAAA
1 TTTAATAAATAAAA
26138 TTTAAT
1 TTTAAT
26144 TATATAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 3 0.06
13 19 0.39
14 19 0.39
15 8 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAATAAATAAAA
Found at i:26180 original size:17 final size:17
Alignment explanation
Indices: 26160--26220 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
26150 AAAAATTATA
26160 TAAAATATAAAATAAAT
1 TAAAATATAAAATAAAT
* *
26177 TAAAACATAACATAAAT
1 TAAAATATAAAATAAAT
* * *
26194 ATAATATGAGAAAAT-AAG
1 -TAAAAT-ATAAAATAAAT
26212 TAAAATATA
1 TAAAATATA
26221 TACGACATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
16 2 0.06
17 20 0.61
18 6 0.18
19 5 0.15
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAAATATAAAATAAAT
Found at i:26644 original size:16 final size:17
Alignment explanation
Indices: 26609--26646 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
26599 ACAATAAAAA
26609 AAATAAGAATATGATAC
1 AAATAAGAATATGATAC
26626 AAATAAGCAA-ATG-TAC
1 AAATAAG-AATATGATAC
26642 AAATA
1 AAATA
26647 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.21
Consensus pattern (17 bp):
AAATAAGAATATGATAC
Found at i:27295 original size:15 final size:16
Alignment explanation
Indices: 27256--27295 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
27246 TTTTTATTCA
*
27256 CTTTCTTTTCTTTCTTT
1 CTTTCTCTT-TTTCTTT
27273 CTTTCTCTTTTTCTTT
1 CTTTCTCTTTTTCTTT
27289 C-TTCTCT
1 CTTTCTCT
27296 CCCCTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 8 0.36
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
CTTTCTCTTTTTCTTT
Found at i:28352 original size:27 final size:27
Alignment explanation
Indices: 28308--28386 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
28298 TTAAAATACA
**
28308 ATAAAAAATATACCATAAATATATAAAT
1 ATAAAAAATAT-TTATAAATATATAAAT
28336 ATAAAAAATATTTATAAATATTTATAAAT
1 ATAAAAAATATTTATAAATA--TATAAAT
*
28365 AT--ATAATATTT-TAAATA-ATAAA
1 ATAAAAAATATTTATAAATATATAAA
28387 AAATATAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 5 0.11
26 6 0.13
27 15 0.33
28 11 0.24
29 9 0.20
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAAAAAATATTTATAAATATATAAAT
Found at i:28356 original size:10 final size:10
Alignment explanation
Indices: 28341--28381 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
28331 TAAATATAAA
28341 AAATATTTAT
1 AAATATTTAT
28351 AAATATTTAT
1 AAATATTTAT
28361 AAATA--TAT
1 AAATATTTAT
28369 -AATATTT-T
1 AAATATTTAT
28377 AAATA
1 AAATA
28382 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.14
8 4 0.14
9 5 0.18
10 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAATATTTAT
Found at i:28374 original size:17 final size:16
Alignment explanation
Indices: 28348--28385 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
28338 AAAAAATATT
28348 TATA-AATATTTATAAA
1 TATATAATATTT-TAAA
28364 TATATAATATTTTAAA
1 TATATAATATTTTAAA
28380 TA-ATAA
1 TATATAA
28386 AAAATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATAATATTTTAAA
Found at i:28384 original size:29 final size:29
Alignment explanation
Indices: 28329--28384 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
28319 ACCATAAATA
*
28329 TATAAATATAAAAAATATTTATAAATATT
1 TATAAATATAAAAAATATTTAAAAATATT
* *
28358 TATAAATATATAATAT-TTTAAATAATA
1 TATAAATATAAAAAATATTTAAA-AATA
28385 AAAAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TATAAATATAAAAAATATTTAAAAATATT
Found at i:28399 original size:13 final size:13
Alignment explanation
Indices: 28381--28408 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28371 TATTTTAAAT
28381 AATAAAAAATATA
1 AATAAAAAATATA
28394 AATAAAAAATATA
1 AATAAAAAATATA
28407 AA
1 AA
28409 CACCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAAAATATA
Found at i:30750 original size:12 final size:11
Alignment explanation
Indices: 30722--30764 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
30712 ATAAAAATAA
*
30722 AATATATAATT
1 AATAAATAATT
30733 ATATAAATAAATT
1 A-ATAAAT-AATT
30746 AATAAATAATT
1 AATAAATAATT
30757 AAATAAAT
1 -AATAAAT
30765 TATCATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 18 0.64
13 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATAAATAATT
Found at i:30750 original size:20 final size:21
Alignment explanation
Indices: 30716--30776 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
30706 TTGAACATAA
* *
30716 AAATAAAATATAT-AATTATAT
1 AAATAAATTATATAAATAAT-T
30737 AAATAAATTA-ATAAATAATT
1 AAATAAATTATATAAATAATT
30757 AAATAAATTATCATTAAATA
1 AAATAAATTAT-A-TAAATA
30777 TATGATCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.38
21 14 0.41
22 1 0.03
23 6 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAAATTATATAAATAATT
Found at i:31529 original size:3 final size:3
Alignment explanation
Indices: 31521--31557 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31511 AAAGCGTTGG
31521 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31558 GTATTTTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:34133 original size:20 final size:20
Alignment explanation
Indices: 34105--34179 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
34095 TTTTACCCAG
34105 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
34125 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
34145 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
34165 ATGTATCGATACATT
1 ATGTATCGATACATT
34180 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:34165 original size:40 final size:39
Alignment explanation
Indices: 34105--34182 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
34095 TTTTACCCAG
*
34105 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
34145 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
34183 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:35560 original size:10 final size:9
Alignment explanation
Indices: 35535--35583 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
35525 TATAATTTTT
35535 TAAAAAGATA
1 TAAAAA-ATA
*
35545 TTAAAAATGA
1 TAAAAAAT-A
*
35555 TAAAAAATT
1 TAAAAAATA
35564 TAAAAAATAA
1 TAAAAAAT-A
35574 TAAAAAATA
1 TAAAAAATA
35583 T
1 T
35584 CAATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 12 0.36
10 21 0.64
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:37134 original size:17 final size:18
Alignment explanation
Indices: 37107--37140 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37097 ATTTTTTAAA
37107 AAATAATTTAATAAATTT
1 AAATAATTTAATAAATTT
37125 AAAT-ATTTAATAAATT
1 AAATAATTTAATAAATT
37141 CGGATATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATAATTTAATAAATTT
Found at i:37968 original size:39 final size:40
Alignment explanation
Indices: 37902--37982 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
37892 CAAATATTAC
* * * *
37902 AAAATATATTAAATTATTTATATTTAAAACTTAATAAATA
1 AAAATATATTAAATTATTAAAAATTAAAACTTAAAAAATA
**
37942 AAAAT-TATTAAATTATTAAAAATTAAATTTTAAAAAATA
1 AAAATATATTAAATTATTAAAAATTAAAACTTAAAAAATA
37981 AA
1 AA
37983 TTAAAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
39 30 0.86
40 5 0.14
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (40 bp):
AAAATATATTAAATTATTAAAAATTAAAACTTAAAAAATA
Found at i:37976 original size:14 final size:15
Alignment explanation
Indices: 37948--37985 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
37938 AATAAAAATT
37948 ATTAAATTATTAAAA
1 ATTAAATTATTAAAA
37963 ATTAAATT-TTAAAA
1 ATTAAATTATTAAAA
*
37977 AATAAATTA
1 ATTAAATTA
37986 AAAAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTAAATTATTAAAA
Found at i:40404 original size:13 final size:13
Alignment explanation
Indices: 40386--40410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40376 CATAAAGTGT
40386 TGTATCGATACAA
1 TGTATCGATACAA
40399 TGTATCGATACA
1 TGTATCGATACA
40411 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:40408 original size:33 final size:33
Alignment explanation
Indices: 40366--40432 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
40356 TTCAACGATT
40366 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
40399 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
40432 T
1 T
40433 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:40491 original size:13 final size:13
Alignment explanation
Indices: 40473--40497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40463 ATCACTTAAA
40473 TGTATCGATACAT
1 TGTATCGATACAT
40486 TGTATCGATACA
1 TGTATCGATACA
40498 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44725 original size:10 final size:10
Alignment explanation
Indices: 44710--44736 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
44700 TGCTAACTAA
44710 GTTTTTGTTT
1 GTTTTTGTTT
44720 GTTTTTGTTT
1 GTTTTTGTTT
44730 GTTTTTG
1 GTTTTTG
44737 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:54431 original size:1 final size:1
Alignment explanation
Indices: 54425--54530 Score: 77
Period size: 1 Copynumber: 106.0 Consensus size: 1
54415 GGCGTCCTCC
** ** ** * * *
54425 AAAAAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAAAAAACAAAAAAACAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
54490 AAAAAAAAACAAAAACAATAAAAAACAAACAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
54531 GGGGGTCCGG
Statistics
Matches: 79, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:54448 original size:16 final size:15
Alignment explanation
Indices: 54427--54530 Score: 97
Period size: 16 Copynumber: 6.9 Consensus size: 15
54417 CGTCCTCCAA
54427 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
**
54442 GAAAAAAATGAAAAAC
1 -AAAAAAAAAAAAAAC
*
54458 --CAAAAAAAAAAA-
1 AAAAAAAAAAAAAAC
*
54470 AAAAAACAAAAAAAC
1 AAAAAAAAAAAAAAC
*
54485 AAAAGAAAAAAAAAC
1 AAAAAAAAAAAAAAC
*
54500 AAAAACAATAAAAAAC
1 AAAAA-AAAAAAAAAC
54516 AAACAAAACAAAAAA
1 AAA-AAAA-AAAAAA
54531 GGGGGTCCGG
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
13 9 0.13
14 10 0.14
15 17 0.24
16 27 0.39
17 7 0.10
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:54455 original size:26 final size:23
Alignment explanation
Indices: 54425--54530 Score: 88
Period size: 25 Copynumber: 4.4 Consensus size: 23
54415 GGCGTCCTCC
*
54425 AAAAAAAAAAAAAAAACGAAAAA
1 AAAAAAAAAAAAAAAAAGAAAAA
**
54448 AATGAAAAACCAAAAAAAA-AAAAA
1 AA--AAAAAAAAAAAAAAAGAAAAA
* *
54472 AAAACAAAAAAACAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAGAAAAA
* *
54495 AAAACAAAAACAATAAAAAACAAACA
1 AAAA-AAAAA-AA-AAAAAAGAAAAA
*
54521 AAACAAAAAA
1 AAAAAAAAAA
54531 GGGGGTCCGG
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
22 11 0.17
23 11 0.17
24 12 0.18
25 19 0.29
26 12 0.18
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAAAGAAAAA
Found at i:54498 original size:35 final size:35
Alignment explanation
Indices: 54425--54530 Score: 115
Period size: 35 Copynumber: 2.9 Consensus size: 35
54415 GGCGTCCTCC
** **
54425 AAAAAAAAAAAAAAAACGAAAAAAA-TGAAAAACCA
1 AAAAAAAAAAAAAAAAC-AAAAAAACAAAAAAAAAA
54460 AAAAAAAAAAAAAAAACAAAAAAACAAAAGAAAAAA
1 AAAAAAAAAAAAAAAACAAAAAAACAAAA-AAAAAA
54496 AAACAAAAACAATAAAAAACAAACAAAACAAAAAA
1 AAA-AAAAA-AA-AAAAAACAAA-AAAACAAAAAA
54531 GGGGGTCCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.11
35 19 0.31
36 7 0.11
37 5 0.08
38 2 0.03
39 12 0.20
40 9 0.15
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (35 bp):
AAAAAAAAAAAAAAAACAAAAAAACAAAAAAAAAA
Found at i:54504 original size:48 final size:47
Alignment explanation
Indices: 54425--54530 Score: 101
Period size: 47 Copynumber: 2.3 Consensus size: 47
54415 GGCGTCCTCC
*
54425 AAAAAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAA-AAAAAA
1 AAAAAAAAAAAAAAAACGAAAAAAAT-AAAAAACAAAAAAATAAAAAA
* * * *
54472 AAAACAAAAAAACAAAA-GAAAAAAAAACAAAAACAATAAAA-AACAAA
1 AAAA-AAAAAAAAAAAACGAAAAAAATA-AAAAACAAAAAAATAAAAAA
* *
54519 CAAAACAAAAAA
1 AAAAAAAAAAAA
54531 GGGGGTCCGG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
46 7 0.14
47 31 0.63
48 11 0.22
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (47 bp):
AAAAAAAAAAAAAAAACGAAAAAAATAAAAAACAAAAAAATAAAAAA
Found at i:56286 original size:88 final size:88
Alignment explanation
Indices: 55968--56437 Score: 404
Period size: 88 Copynumber: 5.4 Consensus size: 88
55958 TTCATCACCC
* *** * *** *
55968 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTCGAA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
**
56033 AGCCCACAAGTCAGTGGCA-A-CC
65 AGCCCACAAGTCAGTGGCATATTT
* * ** * * *
56055 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * * *
56118 AAGTCCACAACTCCGTGGCACTCTTT
64 AAGCCCACAAGTCAGTGGCA-TATTT
** * * * ** *
56144 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTT-TCAGCCCACAAGTTAGTGGCACCCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCACCCTTT
56206 TCAAAAGCCCACAAGTCAGTGGCATATTT
60 TCAAAAGCCCACAAGTCAGTGGCATATTT
* *
56235 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
56300 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
56323 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
* ***
56385 GCCCACAAATCAGTGGCACCCTT
66 GCCCACAAGTCAGTGGCATATTT
** * *
56408 TTCCGAAGCCCACAAATCGGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT
56438 TCCATCTTTA
Statistics
Matches: 319, Mismatches: 48, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
84 6 0.02
85 42 0.13
86 50 0.16
87 41 0.13
88 109 0.34
89 3 0.01
91 24 0.08
92 24 0.08
93 4 0.01
94 15 0.05
95 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
GCCCACAAGTCAGTGGCATATTT
Found at i:56297 original size:58 final size:59
Alignment explanation
Indices: 55968--56437 Score: 360
Period size: 57 Copynumber: 8.0 Consensus size: 59
55958 TTCATCACCC
* *** ***
55968 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* * * *
56027 TTCGAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
** * * * * * *
56084 TTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * * * * * *
56144 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
***
56205 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * **
56264 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
*
56323 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* ** * *
56379 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAATCGGTGGC-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
56436 TT
1 TT
56438 TCCATCTTTA
Statistics
Matches: 333, Mismatches: 56, Indels: 46
0.77 0.13 0.11
Matches are distributed among these distances:
55 22 0.07
56 11 0.03
57 86 0.26
58 73 0.22
59 50 0.15
60 48 0.14
61 5 0.02
62 15 0.05
63 1 0.00
64 15 0.05
65 7 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:56419 original size:30 final size:30
Alignment explanation
Indices: 55972--56441 Score: 362
Period size: 30 Copynumber: 16.0 Consensus size: 30
55962 TCACCCTTCA
* ** *
55972 AAAGTCCACAAGTCAGTGGCA-TTTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
56001 AAAGCCCACAAGTCAGTGGCATTTTTTTCG
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
56031 AAAGCCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
56058 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
56088 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * * *
56117 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCAC-CCTTTTC----C
* * * * *
56152 TAAGCTCACAACTCTA-TAGCACTCTTTT-C
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTCC
* *
56181 --AGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
56209 AAAGCCCACAAGTCAGTGGCATATTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
56239 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
56267 AAAGCCCACAAGTTAGTGGCACCCTGTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
56297 AAAGCCCACAAGTCAGTGGCATATTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
56327 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
56355 AAAGCCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
56382 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
56412 GAAGCCCACAAATCGGTGGCA-CCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
56441 A
1 A
56442 TCTTTAAGTC
Statistics
Matches: 363, Mismatches: 58, Indels: 40
0.79 0.13 0.09
Matches are distributed among these distances:
26 1 0.00
27 65 0.18
28 50 0.14
29 64 0.18
30 158 0.44
31 5 0.01
34 4 0.01
35 16 0.04
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCC
Found at i:56511 original size:43 final size:43
Alignment explanation
Indices: 56443--56532 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
56433 CCTTTTCCAT
*
56443 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
56486 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
56529 CTTT
1 CTTT
56533 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:56564 original size:52 final size:53
Alignment explanation
Indices: 56486--56639 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
56476 ACATTGGCAC
*
56486 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
* * * *
56538 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAG
* * * * * *
56593 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
56640 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
Found at i:57458 original size:13 final size:13
Alignment explanation
Indices: 57440--57464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57430 CATAAAGTGT
57440 TGTATCGATACAA
1 TGTATCGATACAA
57453 TGTATCGATACA
1 TGTATCGATACA
57465 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:57462 original size:33 final size:33
Alignment explanation
Indices: 57420--57486 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
57410 TTCAACGATT
57420 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
57453 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
57486 T
1 T
57487 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:57545 original size:13 final size:13
Alignment explanation
Indices: 57527--57551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57517 ATCACTTAAA
57527 TGTATCGATACAT
1 TGTATCGATACAT
57540 TGTATCGATACA
1 TGTATCGATACA
57552 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61235 original size:79 final size:79
Alignment explanation
Indices: 61053--61238 Score: 203
Period size: 79 Copynumber: 2.4 Consensus size: 79
61043 ACAACGAGGC
* *** * *
61053 TGGAGTATCCCCGATTATGGAAAATCGGTGTTCTAAAAATAAAATTGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGACATTCTAAAAATAAAATCGGGGTTGGAGTATCCCCTA
**
61118 TGAAATAACAAAGT
66 AAAAATAACAAAGT
* * * * *
61132 TGGGGTATCCCTGATTAT-AGAAAATCGACATTTTGAAAATAAAATCGGGGTTGGAGTATTCCCT
1 TGGAGTATCCCCGATTATGA-AAAATCGACATTCTAAAAATAAAATCGGGGTTGGAGTATCCCCT
***
61196 AAAAAATAACGGGGT
65 AAAAAATAACAAAGT
*
61211 TGGAGTATCCCCGATTGTGAAAAATCGA
1 TGGAGTATCCCCGATTATGAAAAATCGA
61239 TGCTTTAGAA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 85 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAAAAATCGACATTCTAAAAATAAAATCGGGGTTGGAGTATCCCCTA
AAAAATAACAAAGT
Found at i:61315 original size:51 final size:51
Alignment explanation
Indices: 61209--61324 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
61199 AAATAACGGG
* * * *
61209 GTTGGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCAGGG
1 GTTGGAGTATCCCCCATTGTGAAAAATCAATACTTTAGAAATAAGGCAGGA
* * * * *
61260 GTTGGAGCATCCCCCATTGTGAGAAATCAATATTTTGGAAATAAAGTCA-GA
1 GTTGGAGTATCCCCCATTGTGAAAAATCAATACTTTAGAAAT-AAGGCAGGA
61311 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
61325 TCAGAAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 49 0.91
52 5 0.09
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (51 bp):
GTTGGAGTATCCCCCATTGTGAAAAATCAATACTTTAGAAATAAGGCAGGA
Found at i:61378 original size:28 final size:27
Alignment explanation
Indices: 61313--61382 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
61303 AAGTCAGAGT
* *
61313 TGGAGTATCCCCTCA-GAAATAACGGGT
1 TGGAGTATCCCC-GATGAAATAACGGGC
*
61340 TGGAGTATCCCCGATGGAATAACGGGGC
1 TGGAGTATCCCCGATGAAATAAC-GGGC
61368 TGGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
61383 TGTAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.50
28 18 0.47
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (27 bp):
TGGAGTATCCCCGATGAAATAACGGGC
Found at i:63812 original size:29 final size:29
Alignment explanation
Indices: 63780--63854 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
63770 CGATACATTG
* *
63780 CAAAATATATCGATACATCTGGGTAAACC
1 CAAAATGTATCGATACATCTAGGTAAACC
63809 CAAAATGTATCGATACATCTAGGTAAACC
1 CAAAATGTATCGATACATCTAGGTAAACC
63838 CAAAATGTATCGATACA
1 CAAAATGTATCGATACA
63855 ATGTATCGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (29 bp):
CAAAATGTATCGATACATCTAGGTAAACC
Found at i:63888 original size:13 final size:13
Alignment explanation
Indices: 63841--63870 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
63831 GTAAACCCAA
63841 AATGTATCGATAC
1 AATGTATCGATAC
63854 AATGTATCGATAC
1 AATGTATCGATAC
63867 AATG
1 AATG
63871 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:64963 original size:335 final size:335
Alignment explanation
Indices: 64353--65009 Score: 1233
Period size: 335 Copynumber: 2.0 Consensus size: 335
64343 GACCTAAACA
*
64353 CTATAGCCAACATAACCTAGGAAGTCCCTCAACCCCGGTAAACGTCACCCAAGGCACTAATCTAA
1 CTATAGCCAACATAACCTAGGAAGTCCCTCAACCCCGGTAAACGTCACCCAAGGCACTAATCCAA
*
64418 TCCCCATAGCCGGAAACCTAATAATGGCGACCAACCCTTGGGGGCCACAAGCTTACCCACCATAA
66 TCCCCATAGCCGGAAACCTAATAATGGCAACCAACCCTTGGGGGCCACAAGCTTACCCACCATAA
64483 ATCCCTTTGCCAGATTACCATGGCCATTATATAGATAAAATGCAGGCTATGACCAACCACATAAT
131 ATCCCTTTGCCAGATTACCATGGCCATTATATAGATAAAATGCAGGCTATGACCAACCACATAAT
*
64548 CGCCTAACAGGCTCTCATACAATAGCTCCTTCAGAATCAAGAAAAGCAAGACCCTTTAGCACATG
196 CGCCTAACAGGCTCTCATACAATAGCTCCTTCAGAATCAAGAAAAGCAAGACCCTTTAGCACAGG
64613 TGAATGGCCAAAGTACACAAACCAAGTCTGATCGTTAACCCAAGAAAAACAGAAACCATACTCAC
261 TGAATGGCCAAAGTACACAAACCAAGTCTGATCGTTAACCCAAGAAAAACAGAAACCATACTCAC
64678 TCTGATCGAC
326 TCTGATCGAC
* *
64688 CTATAGCCAACATAACCTAGGAAGTCCCTCAACCTCGGTAAACGTCGCCCAAGGCACTAATCCAA
1 CTATAGCCAACATAACCTAGGAAGTCCCTCAACCCCGGTAAACGTCACCCAAGGCACTAATCCAA
*
64753 TCCCCATAGCCGGAAACCTAATAGTGGCAACCAACCCTTGGGGGCCACAAGCTTACCCACCATAA
66 TCCCCATAGCCGGAAACCTAATAATGGCAACCAACCCTTGGGGGCCACAAGCTTACCCACCATAA
*
64818 ATCCCTTTGCCAGATTACCATGGCCATTATATAGCTAAAATGCAGGCTATGACCAACCACATAAT
131 ATCCCTTTGCCAGATTACCATGGCCATTATATAGATAAAATGCAGGCTATGACCAACCACATAAT
* *
64883 CGCCTAACAGGCTCTTATACAATAGCTCCTTCAGAATTAAGAAAAGCAAGACCCTTTAGCACAGG
196 CGCCTAACAGGCTCTCATACAATAGCTCCTTCAGAATCAAGAAAAGCAAGACCCTTTAGCACAGG
64948 TGAATGGCCAAAGTACACAAACCAAGTCTGATCGTTAACCCAAGAAAAACAGAAACCATACT
261 TGAATGGCCAAAGTACACAAACCAAGTCTGATCGTTAACCCAAGAAAAACAGAAACCATACT
65010 GTCGCAACGT
Statistics
Matches: 313, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
335 313 1.00
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.19
Consensus pattern (335 bp):
CTATAGCCAACATAACCTAGGAAGTCCCTCAACCCCGGTAAACGTCACCCAAGGCACTAATCCAA
TCCCCATAGCCGGAAACCTAATAATGGCAACCAACCCTTGGGGGCCACAAGCTTACCCACCATAA
ATCCCTTTGCCAGATTACCATGGCCATTATATAGATAAAATGCAGGCTATGACCAACCACATAAT
CGCCTAACAGGCTCTCATACAATAGCTCCTTCAGAATCAAGAAAAGCAAGACCCTTTAGCACAGG
TGAATGGCCAAAGTACACAAACCAAGTCTGATCGTTAACCCAAGAAAAACAGAAACCATACTCAC
TCTGATCGAC
Found at i:66095 original size:81 final size:79
Alignment explanation
Indices: 65992--66184 Score: 226
Period size: 79 Copynumber: 2.4 Consensus size: 79
65982 TGGAGTGTTT
* * *
65992 CCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCAATGATTAGAAAAAAAAAAA
1 CCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATT-GAAAAAAAAAAA
*
66056 TCGGGATTGGAGTATC
64 CCGGGATTGGAGTATC
* ** ** * *
66072 CCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCC
1 CCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTGAAAAAAAAAAACC
*
66137 GGGGTTGGAGTATC
66 GGGATTGGAGTATC
* * *
66151 CCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
66185 GAAATAACGA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 50 0.52
80 7 0.07
81 39 0.41
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (79 bp):
CCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTGAAAAAAAAAAACC
GGGATTGGAGTATC
Found at i:66176 original size:28 final size:28
Alignment explanation
Indices: 66136--66207 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
66126 GGAATAAAGC
** *
66136 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
66164 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
66192 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
66208 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:66265 original size:52 final size:52
Alignment explanation
Indices: 66196--66365 Score: 177
Period size: 52 Copynumber: 3.3 Consensus size: 52
66186 AAATAACGAG
* *
66196 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAACCGGA
** * ** *
66248 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAACC-GGA
* * *
66301 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAACCGGA
66352 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
66366 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
51 3 0.03
52 77 0.80
53 16 0.17
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAACCGGA
Found at i:66392 original size:28 final size:27
Alignment explanation
Indices: 66352--66420 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
66342 TAAAACCGGA
66352 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
66380 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
66407 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
66421 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:66435 original size:107 final size:105
Alignment explanation
Indices: 66082--66473 Score: 330
Period size: 107 Copynumber: 3.7 Consensus size: 105
66072 CCTTCGAAAA
* * * * * * *
66082 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGGAATAAAACCGGAGTTGGAG
* *
66147 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * * *
66189 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGG-AATAAAACCGGAGTTGGA
* * ** * ** **
66254 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * *
66291 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTAG-GAATAAAACCGGAGTT
66355 GGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * *
66400 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-ATTTTAGG-AATAAAACCGGAGTTG
66465 GAGTATCCC
63 GAGTATCCC
66474 GATTATAGAA
Statistics
Matches: 219, Mismatches: 48, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 46 0.21
105 20 0.09
106 18 0.08
107 72 0.33
108 32 0.15
109 26 0.12
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGGAATAAAACCGGAGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:66505 original size:211 final size:212
Alignment explanation
Indices: 66089--66533 Score: 623
Period size: 211 Copynumber: 2.1 Consensus size: 212
66079 AAATAACGGG
* * * *
66089 GTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCAATTGTGGAAAAATCAATATTTTAGGAATAAAACCGGAGTTGGAGTATCCC
* * *
66153 CTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGA
* *
66218 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTT
131 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGCGTT
66283 TTGAAAATAAAACCAGGA
196 TTGAAAATAAAACC-GGA
* * * *
66301 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTTGGAGTATCC
1 GTTGGAGTATCCCCAATTGTGGAAAAATCAATATTTTAG-GAATAAAACCGGAGTTGGAGTATCC
* *
66364 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTG
65 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTG
* * *
66428 AAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTAT-CCCGATTATA-GAAAATTAGT
130 AA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGC
*
66491 GTTTTGAAAATAAAATCGGA
193 GTTTTGAAAATAAAACCGGA
* *
66511 GTTAGAATATCCCCAATTGTGGA
1 GTTGGAGTATCCCCAATTGTGGA
66534 GAATTGATAA
Statistics
Matches: 206, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
210 3 0.01
211 89 0.43
212 84 0.41
213 30 0.15
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (212 bp):
GTTGGAGTATCCCCAATTGTGGAAAAATCAATATTTTAGGAATAAAACCGGAGTTGGAGTATCCC
CTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGA
AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGCGTT
TTGAAAATAAAACCGGA
Found at i:68917 original size:13 final size:13
Alignment explanation
Indices: 68899--68924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68889 ACATAGATCT
68899 ATGTATCGATACA
1 ATGTATCGATACA
68912 ATGTATCGATACA
1 ATGTATCGATACA
68925 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:68988 original size:19 final size:19
Alignment explanation
Indices: 68964--69018 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
68954 CAGTAGCTAA
*
68964 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
68983 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
69002 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
69019 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:69098 original size:21 final size:21
Alignment explanation
Indices: 69074--69130 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
69064 CATTTGTAGG
69074 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
69095 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
69116 ATGTATCGATACATT
1 ATGTATCGATACATT
69131 TGGATAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:69155 original size:8 final size:9
Alignment explanation
Indices: 69141--69165 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
69131 TGGATAATTT
69141 TTTTTTTAA
1 TTTTTTTAA
69150 TTTTTTTAA
1 TTTTTTTAA
69159 TTTTTTT
1 TTTTTTT
69166 TTTCAAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:79248 original size:3 final size:3
Alignment explanation
Indices: 79234--79272 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
79224 AGCCAACCAA
*
79234 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
79273 GAGATTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:79925 original size:75 final size:75
Alignment explanation
Indices: 79714--79925 Score: 212
Period size: 75 Copynumber: 2.8 Consensus size: 75
79704 TGAGTATTAT
* * * ** * ** * *
79714 CTACCAAGATTCTGTCTTTTTGGTGACCAGAATTTATGTAACGAGTATAAGTCT-AGCAGCTAGA
1 CTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTCTGA-CAGCTAGA
*
79778 GCGAATGTTGG
65 GCGAATGTTAG
* * * * * * *
79789 CTACCAGGATTTCGTCTTTTTTGCGACCAGGATTTATGTGGCGAGCACAGGTATGATAGCTAGAG
1 CTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTCTGACAGCTAGAG
*
79854 -TAAGTGTTAG
66 CGAA-TGTTAG
*
79864 CTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGTGAGCACAAGTCTGACAGCTA
1 CTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTCTGACAGCTA
79926 AAGTGAGTAT
Statistics
Matches: 112, Mismatches: 23, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
74 2 0.02
75 109 0.97
76 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (75 bp):
CTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTCTGACAGCTAGAG
CGAATGTTAG
Found at i:79943 original size:75 final size:75
Alignment explanation
Indices: 79788--79945 Score: 201
Period size: 75 Copynumber: 2.1 Consensus size: 75
79778 GCGAATGTTG
* * * * * * *
79788 GCTACCAGGATTTCGTCTTTTTTGCGACCAGGATTTATGTGGCGAGCACAGGTATGATAGCTAGA
1 GCTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTATGACAGCTAAA
*
79853 GTAAGTGTTA
66 GTAAGTATTA
* *
79863 GCTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGTGAGCACAAGTCTGACAGCTAAA
1 GCTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTATGACAGCTAAA
*
79928 GTGAGTATT-
66 GTAAGTATTA
79937 GACTACCAG
1 G-CTACCAG
79946 AGTTAGCTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
74 1 0.01
75 70 0.99
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (75 bp):
GCTACCAGGATTCCGTCCTTTTGGCAACCAGGATTTATGTGGCGAGCACAAGTATGACAGCTAAA
GTAAGTATTA
Found at i:79943 original size:150 final size:150
Alignment explanation
Indices: 79661--79945 Score: 329
Period size: 150 Copynumber: 1.9 Consensus size: 150
79651 CATCTTTCTA
* * * *
79661 GCGACCAAGATTTAAGTGACAAGCACAGGTATGGTAGCTGGAGTGAGTATTATCTACCAAGATTC
1 GCGACCAAGATTTAAGTGACAAGCACAGGTATGATAGCTAGAGTAAGTATTAGCTACCAAGATTC
* * ** * * * * *
79726 TGTCTTTTTGGTGACCAGAATTTATGTAACGAGTATAAGTCTAGCAGCTAGAGCGAATGTTGGCT
66 CGTCCTTTTGGCAACCAGAATTTATGTAACGAGCACAAGTCTAGCAGCTAAAGCGAATATTGACT
79791 ACCAGGATTTCGTCTTTTTT
131 ACCAGGATTTCGTCTTTTTT
* * * * * *
79811 GCGACCAGGATTTATGTGGCGAGCACAGGTATGATAGCTAGAGTAAGTGTTAGCTACCAGGATTC
1 GCGACCAAGATTTAAGTGACAAGCACAGGTATGATAGCTAGAGTAAGTATTAGCTACCAAGATTC
* *** * *
79876 CGTCCTTTTGGCAACCAGGATTTATGTGGTGAGCACAAGTCT-GACAGCTAAAGTGAGTATTGAC
66 CGTCCTTTTGGCAACCAGAATTTATGTAACGAGCACAAGTCTAG-CAGCTAAAGCGAATATTGAC
79940 TACCAG
130 TACCAG
79946 AGTTAGCTAC
Statistics
Matches: 109, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
149 1 0.01
150 108 0.99
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (150 bp):
GCGACCAAGATTTAAGTGACAAGCACAGGTATGATAGCTAGAGTAAGTATTAGCTACCAAGATTC
CGTCCTTTTGGCAACCAGAATTTATGTAACGAGCACAAGTCTAGCAGCTAAAGCGAATATTGACT
ACCAGGATTTCGTCTTTTTT
Found at i:80734 original size:22 final size:21
Alignment explanation
Indices: 80696--80742 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
80686 TAAATTTAAG
*
80696 TTAATTTAAAAATATAAATTA
1 TTAATTTAAAAATATAAAATA
80717 TTAA-TTATAAAATAATAAAATA
1 TTAATTTA-AAAAT-ATAAAATA
80739 TTAA
1 TTAA
80743 AAAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATTTAAAAATATAAAATA
Found at i:80787 original size:34 final size:35
Alignment explanation
Indices: 80720--80803 Score: 109
Period size: 34 Copynumber: 2.4 Consensus size: 35
80710 TAAATTATTA
*
80720 ATTATAAAATAATAAAATATTAAAAAATATTTTTTT
1 ATTATTAAATAATAAAATATTAAAAAA-ATTTTTTT
* * *
80756 A-TATTTAATAATTAAAT-TTAAATAAATTTTTTT
1 ATTATTAAATAATAAAATATTAAAAAAATTTTTTT
80789 ATTATTAAATAATAA
1 ATTATTAAATAATAA
80804 CTTAAATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 9 0.22
34 18 0.44
35 13 0.32
36 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (35 bp):
ATTATTAAATAATAAAATATTAAAAAAATTTTTTT
Found at i:80815 original size:33 final size:33
Alignment explanation
Indices: 80739--80835 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 33
80729 TAATAAAATA
* * *
80739 TTAAAAAATATTTTTTTATATTTAATAATTAAAT
1 TTAAATAA-ATTTTTTTATATTAAATAATTAAAC
80773 TTAAATAAATTTTTTTATTATTAAATAA-T-AAC
1 TTAAATAAATTTTTTTA-TATTAAATAATTAAAC
** * *
80805 TTAAATTAAATTAATTTAAATTAAAAAATTA
1 TTAAA-TAAATTTTTTTATATTAAATAATTA
80836 TATTTAGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 15 0.29
33 21 0.40
34 16 0.31
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (33 bp):
TTAAATAAATTTTTTTATATTAAATAATTAAAC
Found at i:81520 original size:14 final size:14
Alignment explanation
Indices: 81497--81529 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
81487 TTTGAAAATC
81497 ATAT-TTTTTATAT
1 ATATGTTTTTATAT
*
81510 TTATGTTTTTATAT
1 ATATGTTTTTATAT
81524 ATATGT
1 ATATGT
81530 CACATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (14 bp):
ATATGTTTTTATAT
Found at i:85579 original size:11 final size:11
Alignment explanation
Indices: 85518--85599 Score: 66
Period size: 11 Copynumber: 7.7 Consensus size: 11
85508 ATTTTTAATA
85518 ATTTAAATTTT
1 ATTTAAATTTT
85529 -TTT--ATTTT
1 ATTTAAATTTT
85537 ATTTAAATTATT
1 ATTTAAATT-TT
**
85549 ATTTAAATAAT
1 ATTTAAATTTT
*
85560 A-TAAAATTTT
1 ATTTAAATTTT
*
85570 ATCTAAATTTT
1 ATTTAAATTTT
*
85581 ACTTT-AATATT
1 A-TTTAAATTTT
85592 ATTTAAAT
1 ATTTAAAT
85600 AATAAAGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
8 5 0.09
9 3 0.05
10 13 0.24
11 22 0.40
12 12 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTAAATTTT
Found at i:85920 original size:16 final size:17
Alignment explanation
Indices: 85898--85942 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
85888 AAATTATAAT
85898 TTTTATATTTATTTAAA
1 TTTTATATTTATTTAAA
* *
85915 -TTTATATATAATTAAA
1 TTTTATATTTATTTAAA
85931 TTTTATATTTAT
1 TTTTATATTTAT
85943 ATTATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATATTTATTTAAA
Found at i:85949 original size:16 final size:17
Alignment explanation
Indices: 85898--85946 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
85888 AAATTATAAT
85898 TTTTATATTTAT-TTAA
1 TTTTATATTTATATTAA
* *
85914 ATTTATATATA-ATTAAA
1 TTTTATATTTATATT-AA
85931 TTTTATATTTATATTA
1 TTTTATATTTATATTA
85947 TTTATTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 11 0.42
17 12 0.46
18 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATATTTATATTAA
Found at i:89205 original size:26 final size:27
Alignment explanation
Indices: 89159--89221 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
89149 TTTTAAATTT
*
89159 ATTTATTTATTTAATAATTAAATTAAA
1 ATTTTTTTATTTAATAATTAAATTAAA
*
89186 ATTTTTTTA-TTAATCATTAAATTAAA
1 ATTTTTTTATTTAATAATTAAATTAAA
*
89212 TTTTATTTTA
1 ATTT-TTTTA
89222 ATAAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTTTTATTTAATAATTAAATTAAA
Found at i:89246 original size:20 final size:21
Alignment explanation
Indices: 89201--89247 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
89191 TTTATTAATC
* **
89201 ATTAAATTAAATTTTATTTTA
1 ATTAAATTAAATTTGATTAAA
89222 A-TAAATT-AATTTGATTAAA
1 ATTAAATTAAATTTGATTAAA
89241 ATTAAAT
1 ATTAAAT
89248 AGTGAACTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 10 0.45
20 11 0.50
21 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTAAATTAAATTTGATTAAA
Found at i:89890 original size:47 final size:47
Alignment explanation
Indices: 89833--89993 Score: 243
Period size: 47 Copynumber: 3.4 Consensus size: 47
89823 AATATGTTTA
* *
89833 TATAAACTCGAATTATCATATTCGTTGATTTATTTTCATATTTAATT
1 TATAAACTCGAATTATCATATTCGTTGATTCATTTTCATATTTAATC
* *
89880 TATAAACTCGAATTATCA-AATCTATTGATTCATTTTCATATTTAATC
1 TATAAACTCGAATTATCATATTC-GTTGATTCATTTTCATATTTAATC
* * *
89927 TATAAACTCAAATTATCATTTTTGTTGATTCATTTTCATATTTAATC
1 TATAAACTCGAATTATCATATTCGTTGATTCATTTTCATATTTAATC
89974 TATAAACTCGAATTATCATA
1 TATAAACTCGAATTATCATA
89994 CCAATTTAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
46 3 0.03
47 97 0.96
48 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (47 bp):
TATAAACTCGAATTATCATATTCGTTGATTCATTTTCATATTTAATC
Found at i:90628 original size:17 final size:16
Alignment explanation
Indices: 90581--90633 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
90571 TTTAAATTTT
90581 ATTTTGTATTTAAATAA
1 ATTTT-TATTTAAATAA
* *
90598 ATTTTTAATATAAATTA
1 ATTTTT-ATTTAAATAA
90615 ATATTTTATTTAAAATAA
1 AT-TTTTATTT-AAATAA
90633 A
1 A
90634 AATTTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 18 0.62
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTTATTTAAATAA
Found at i:91206 original size:28 final size:28
Alignment explanation
Indices: 91126--91208 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
91116 TCTTAATCTT
* *
91126 TTTATAATTATATTTAAGA-TA-TTATGTA
1 TTTAT-ATTATTTTTAA-ATTATTTATATA
* * *
91154 TTTATAATATTTTTTTAATAAATTTATATA
1 TTTATATTA-TTTTTAAAT-TATTTATATA
91184 TTTATATTATTTTTAAATTATTTAT
1 TTTATATTATTTTTAAATTATTTAT
91209 GTTATATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
27 4 0.09
28 16 0.37
29 9 0.21
30 14 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTATATTATTTTTAAATTATTTATATA
Found at i:91207 original size:20 final size:20
Alignment explanation
Indices: 91182--91235 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
91172 TAAATTTATA
91182 TATTTATATTAT-TTTTAAAT
1 TATTTATATTATATTTT-AAT
*
91202 TATTTATGTTATATTTTAAT
1 TATTTATATTATATTTTAAT
*
91222 TTTTTATATTATAT
1 TATTTATATTATAT
91236 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTATATTATATTTTAAT
Found at i:91230 original size:15 final size:17
Alignment explanation
Indices: 91205--91256 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
91195 TTTAAATTAT
*
91205 TTATGTTATATTT-TAA
1 TTATATTATATTTATAA
*
91221 TT-TTTTATATTATATAA
1 TTATATTATATT-TATAA
*
91238 TTATATTATATTTAAAA
1 TTATATTATATTTATAA
91255 TT
1 TT
91257 GTTAAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 11 0.37
18 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATATTATATTTATAA
Found at i:91617 original size:16 final size:16
Alignment explanation
Indices: 91580--91635 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
91570 AAAAATATTT
*
91580 TATTAAAAT-T-TAAT
1 TATTAAAATATATAAA
91594 TA-TAAAATATATAAA
1 TATTAAAATATATAAA
91609 TATTAAAATATTATAAA
1 TATTAAAATA-TATAAA
*
91626 T-TAAAAATAT
1 TATTAAAATAT
91636 TTTTTAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
13 6 0.17
14 3 0.08
15 6 0.17
16 14 0.39
17 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAAATATATAAA
Found at i:91636 original size:16 final size:16
Alignment explanation
Indices: 91591--91636 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
91581 ATTAAAATTT
91591 AATTATAAAATA-TATA
1 AATTA-AAAATATTATA
*
91607 AATATTAAAATATTATA
1 AAT-TAAAAATATTATA
91624 AATTAAAAATATT
1 AATTAAAAATATT
91637 TTTTAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAAAATATTATA
Found at i:93370 original size:22 final size:22
Alignment explanation
Indices: 93342--93386 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
93332 TTAGTCAAAG
93342 CTTATCTTTCAAAAGCTAGAAA
1 CTTATCTTTCAAAAGCTAGAAA
*
93364 CTTATCTTTCGAAAGCTAGAAA
1 CTTATCTTTCAAAAGCTAGAAA
93386 C
1 C
93387 ACTTTCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (22 bp):
CTTATCTTTCAAAAGCTAGAAA
Found at i:94584 original size:27 final size:28
Alignment explanation
Indices: 94537--94589 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
94527 ATGACAGAGT
94537 TATTGCATATTTGTTGTAAATAACTTGC
1 TATTGCATATTTGTTGTAAATAACTTGC
94565 TATTGCATA-TTGTTGTAAATAACTT
1 TATTGCATATTTGTTGTAAATAACTT
94590 AATCTTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (28 bp):
TATTGCATATTTGTTGTAAATAACTTGC
Found at i:98863 original size:25 final size:23
Alignment explanation
Indices: 98835--98884 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
98825 ATAATATTTT
98835 TATTTAAATTTAATTATAA-AAATAA
1 TATTTAAA--TAA-TATAATAAATAA
*
98860 TATTTTAATAATATAATAAATAA
1 TATTTAAATAATATAATAAATAA
98883 TA
1 TA
98885 AAATAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
23 11 0.48
25 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTAAATAATATAATAAATAA
Found at i:98868 original size:20 final size:22
Alignment explanation
Indices: 98843--98884 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
98833 TTTATTTAAA
98843 TTTAAT-TATAA-AAATAATAT
1 TTTAATATATAATAAATAATAT
98863 TTTAATAATATAATAAATAATA
1 TTTAAT-ATATAATAAATAATA
98885 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATATATAATAAATAATAT
Found at i:104563 original size:13 final size:13
Alignment explanation
Indices: 104547--104602 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
104537 ATTTAATAAT
104547 TTATATATT-TATA
1 TTATAT-TTATATA
104560 TTATATTTATATA
1 TTATATTTATATA
104573 TT-TA-TTATA-A
1 TTATATTTATATA
*
104583 TCATATTTATAATA
1 TTATATTTAT-ATA
104597 TTATAT
1 TTATAT
104603 AATAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 2 0.06
11 7 0.19
12 8 0.22
13 13 0.36
14 6 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATATTTATATA
Found at i:104976 original size:5 final size:5
Alignment explanation
Indices: 104966--105046 Score: 69
Period size: 5 Copynumber: 16.2 Consensus size: 5
104956 AAATAATATA
* * *
104966 TAAAT TAAAT TAAAT TAATT TAAAT TAAAAT T--TT TAAAT TAAAT TTAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT T-AAAT TAAAT TAAAT TAAAT TAAAT
* *
105015 TAAAAT TAAAT T-TAT CAAAT TAAAAT TAAAT T
1 T-AAAT TAAAT TAAAT TAAAT T-AAAT TAAAT T
105047 TATCGAATCA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 42 0.70
6 14 0.23
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (5 bp):
TAAAT
Found at i:104991 original size:20 final size:21
Alignment explanation
Indices: 104966--105046 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 21
104956 AAATAATATA
104966 TAAATT-AAATTAAATTAATT
1 TAAATTAAAATTAAATTAATT
104986 TAAATTAAAATTTTTAAATTAAATT
1 TAAATTAAAA---TTAAATT-AATT
*
105011 T-AATTAAAATTAAATTTA-T
1 TAAATTAAAATTAAATTAATT
*
105030 CAAATTAAAATTAAATT
1 TAAATTAAAATTAAATT
105047 TATCGAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.02
20 22 0.42
21 10 0.19
24 15 0.28
25 5 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATTAAAATTAAATTAATT
Found at i:105007 original size:24 final size:24
Alignment explanation
Indices: 104975--105021 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
104965 ATAAATTAAA
104975 TTAAATT-AATTTAAATTAAAATTT
1 TTAAATTAAATTT-AATTAAAATTT
104999 TTAAATTAAATTTAATTAAAATT
1 TTAAATTAAATTTAATTAAAATT
105022 AAATTTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAATTAAATTTAATTAAAATTT
Found at i:105021 original size:30 final size:29
Alignment explanation
Indices: 104969--105043 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 29
104959 TAATATATAA
*
104969 ATTAAATTAAATTAATTTAAATTAAAATTT
1 ATTAAATTAAATTAATTAAAATT-AAATTT
104999 -TTAAATTAAATTTAATTAAAATTAAATTT
1 ATTAAATTAAA-TTAATTAAAATTAAATTT
*
105028 ATCAAATTAAAATTAA
1 ATTAAATT-AAATTAA
105044 ATTTATCGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 16 0.40
30 21 0.52
31 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTAAATTAAATTAATTAAAATTAAATTT
Found at i:105047 original size:20 final size:20
Alignment explanation
Indices: 105012--105050 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
105002 AATTAAATTT
105012 AATTAAAATTAAATTTATCA
1 AATTAAAATTAAATTTATCA
105032 AATTAAAATTAAATTTATC
1 AATTAAAATTAAATTTATC
105051 GAATCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTAAAATTAAATTTATCA
Found at i:105694 original size:21 final size:21
Alignment explanation
Indices: 105664--105704 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105654 TTTAAATTTA
* *
105664 ATATTGTTATCTAAATTTTTT
1 ATATTATTATATAAATTTTTT
105685 ATATTATTATATAAATTTTT
1 ATATTATTATATAAATTTTT
105705 AGACTTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATTATTATATAAATTTTTT
Found at i:105987 original size:22 final size:21
Alignment explanation
Indices: 105945--105997 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
105935 ATTTAAATTG
105945 ATTTAAATTATTATTAATT-A
1 ATTTAAATTATTATTAATTAA
* *
105965 ATTTAAATAATATTTTTATTTAA
1 ATTTAAAT--TATTATTAATTAA
105988 ATTT-AATTAT
1 ATTTAAATTAT
105998 AAAAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 11 0.39
22 12 0.43
23 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTAAATTATTATTAATTAA
Found at i:106041 original size:8 final size:8
Alignment explanation
Indices: 106024--106052 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
106014 TAAAAAATAA
106024 TAAT-TTT
1 TAATATTT
106031 TAATATTT
1 TAATATTT
106039 TAATATTT
1 TAATATTT
106047 TAATAT
1 TAATAT
106053 AATTTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATATTT
Done.