Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 59 of 427
Found at i:14474645 original size:6 final size:6
Alignment explanation
Indices: 14474640--14474704 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
14474630 TATTACTTTC
* * *
14474640 TTTTTC TTTTTTA TTTTTA TTTTTA TTTTTT TCTTTTA TCTTTA TTTATT-
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTT-TTA
14474690 TATTTTA -TTTTA TTT
1 T-TTTTA TTTTTA TTT
14474705 ATTTATTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.10
6 29 0.60
7 14 0.29
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:14474662 original size:13 final size:13
Alignment explanation
Indices: 14474640--14474700 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
14474630 TATTACTTTC
*
14474640 TTTTTCTTTTTTA
1 TTTTTATTTTTTA
14474653 TTTTTA-TTTTTA
1 TTTTTATTTTTTA
14474665 TTTTT-TTCTTTTA
1 TTTTTATT-TTTTA
*
14474678 TCTTTATTTATTTA
1 TTTTTATTT-TTTA
14474692 -TTTTATTTT
1 TTTTTATTTT
14474701 ATTTATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 13 0.32
13 22 0.54
14 6 0.15
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:14474663 original size:14 final size:14
Alignment explanation
Indices: 14474646--14474708 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 14
14474636 TTTCTTTTTC
14474646 TTTTTTATTTTTA-
1 TTTTTTATTTTTAT
14474659 -TTTTTATTTTT-T
1 TTTTTTATTTTTAT
* *
14474671 TCTTTTATCTTTAT
1 TTTTTTATTTTTAT
*
14474685 TTATTTA-TTTTAT
1 TTTTTTATTTTTAT
14474698 TTTATTTATTT
1 TTT-TTTATTT
14474709 ATTTATGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 11 0.28
13 16 0.41
14 10 0.26
15 2 0.05
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:14474668 original size:19 final size:20
Alignment explanation
Indices: 14474640--14474712 Score: 84
Period size: 19 Copynumber: 3.9 Consensus size: 20
14474630 TATTACTTTC
*
14474640 TTTTTCTTT-TTTATTTTTA
1 TTTTTATTTATTTATTTTTA
14474659 TTTTTATTT-TTT-TCTTTTA
1 TTTTTATTTATTTAT-TTTTA
*
14474678 TCTTTATTTATTTA-TTTTA
1 TTTTTATTTATTTATTTTTA
14474697 -TTTTATTTATTTATTT
1 TTTTTATTTATTTATTT
14474713 ATGATTAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 13 0.28
19 31 0.66
20 3 0.06
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTATTTATTTATTTTTA
Found at i:14474689 original size:4 final size:4
Alignment explanation
Indices: 14474680--14474714 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
14474670 TTCTTTTATC
14474680 TTTA TTTA TTTA TTTTA TTTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA TTTA T
14474715 GATTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 21 0.70
5 9 0.30
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:14474691 original size:27 final size:25
Alignment explanation
Indices: 14474640--14474695 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
14474630 TATTACTTTC
*
14474640 TTTTTCTTTTTTATTTTTATTTTTA
1 TTTTTCTTTTTTATCTTTATTTTTA
14474665 TTTTT-TTCTTTTATCTTTATTTATTTA
1 TTTTTCTT-TTTTATCTTTA-TT-TTTA
14474692 TTTT
1 TTTT
14474696 ATTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 15 0.56
26 2 0.07
27 8 0.30
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTCTTTTTTATCTTTATTTTTA
Found at i:14474762 original size:23 final size:23
Alignment explanation
Indices: 14474736--14474780 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
14474726 AAAAAATTGA
14474736 AATATA-TATTTGAAATATTTTAT
1 AATATATTATTT-AAATATTTTAT
14474759 AATATATTTATTTAAATATTTT
1 AATATA-TTATTTAAATATTTT
14474781 TCTAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AATATATTATTTAAATATTTTAT
Found at i:14474786 original size:12 final size:11
Alignment explanation
Indices: 14474748--14474843 Score: 51
Period size: 12 Copynumber: 8.6 Consensus size: 11
14474738 TATATATTTG
*
14474748 AAATATTTTAT
1 AAATATTTTTT
14474759 AATATATTTATTT
1 AA-ATATTT-TTT
14474772 AAATATTTTTCT
1 AAATATTTTT-T
14474784 -AA-A--TTTT
1 AAATATTTTTT
14474791 AAATTATTATTTT
1 AAA-TATT-TTTT
**
14474804 TTATATTTTTT
1 AAATATTTTTT
14474815 AAA-ATTTTAATT
1 AAATATTTT--TT
*
14474827 -ATTATTTTTT
1 AAATATTTTTT
14474837 AAATATT
1 AAATATT
14474844 AAATATATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 26
0.66 0.07 0.27
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
10 9 0.14
11 17 0.26
12 24 0.37
13 9 0.14
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:14474802 original size:31 final size:31
Alignment explanation
Indices: 14474752--14474843 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 31
14474742 TATTTGAAAT
14474752 ATTTTATAATATATTTATTTAAATATTTTTCT-AA
1 ATTTTA-AAT-TA-TTATTTAAATATTTTT-TAAA
**
14474786 ATTTTAAATTATTATTTTTTATATTTTTTAAA
1 ATTTTAAATTATTA-TTTAAATATTTTTTAAA
*
14474818 ATTTTAATTATTATTTTTTAAATATT
1 ATTTTAA--ATTATTATTTAAATATT
14474844 AAATATATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 4 0.08
32 22 0.45
33 11 0.22
34 12 0.24
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTAAATTATTATTTAAATATTTTTTAAA
Found at i:14474811 original size:32 final size:31
Alignment explanation
Indices: 14474774--14474837 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 31
14474764 ATTTATTTAA
14474774 ATATTTTTCT-AAATTTTAAATTATTATTTTTT
1 ATATTTTT-TAAAATTTT-AATTATTATTTTTT
14474806 ATATTTTTTAAAATTTTAATTATTATTTTTT
1 ATATTTTTTAAAATTTTAATTATTATTTTTT
14474837 A
1 A
14474838 AATATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (31 bp):
ATATTTTTTAAAATTTTAATTATTATTTTTT
Found at i:14474831 original size:24 final size:23
Alignment explanation
Indices: 14474787--14474855 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 23
14474777 TTTTTCTAAA
* *
14474787 TTTTAAATTATTATTTTTTATATT
1 TTTTAAATTATTAATTATTAT-TT
14474811 TTTTAAAATT-TTAATTATTA-TT
1 TTTT-AAATTATTAATTATTATTT
*
14474833 TTTTAAA-TATTAAATA-TATTT
1 TTTTAAATTATTAATTATTATTT
14474854 TT
1 TT
14474856 AGTAATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.08
21 13 0.33
22 6 0.15
24 12 0.31
25 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTAAATTATTAATTATTATTT
Found at i:14474832 original size:22 final size:20
Alignment explanation
Indices: 14474805--14474855 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
14474795 TATTATTTTT
* *
14474805 TATATTTTTTAAAATTTTAAT
1 TATATTTTTT-AAATATTAAA
14474826 TATTATTTTTTAAATATTAAA
1 TA-TATTTTTTAAATATTAAA
14474847 TATATTTTT
1 TATATTTTT
14474856 AGTAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 12 0.44
22 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATTTTTTAAATATTAAA
Found at i:14474834 original size:21 final size:20
Alignment explanation
Indices: 14474805--14474870 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
14474795 TATTATTTTT
* *
14474805 TATATTTTTTAAAATTTTAAT
1 TATA-TTTTTAAAATATTAAA
*
14474826 TATTATTTTTTAAATATTAAA
1 TA-TATTTTTAAAATATTAAA
* *
14474847 TATATTTTTAGTAATATAAAA
1 TATATTTTTA-AAATATTAAA
14474868 TAT
1 TAT
14474871 TTAAATATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 7 0.19
21 28 0.76
22 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATATTTTTAAAATATTAAA
Found at i:14475051 original size:90 final size:88
Alignment explanation
Indices: 14474881--14475060 Score: 242
Period size: 90 Copynumber: 2.0 Consensus size: 88
14474871 TTAAATATTC
* * *
14474881 TAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATTATTTAAGTTGTTT
1 TAAAGATATGACATTTCAAATTTATTATTAGTTTTATAATATTTTAAATATAATTTAAATTGTTT
14474946 TATAATATTTAAAATATATTATTTT
66 TATAATATTTAAAATATA--ATTTT
*
14474971 TAAAGATATGACATTTCAAATTTATTATTTGTTTTATAATATTTTAATAATATAATTTTAAATAT
1 TAAAGATATGACATTTCAAATTTATTATTAGTTTTATAATATTTT-A-AATATAA-TTTAAAT-T
14475036 -TTTTA-AAT-TTT-AAATATAATTTT
62 GTTTTATAATATTTAAAATATAATTTT
14475059 TA
1 TA
14475061 TAAATTATTA
Statistics
Matches: 82, Mismatches: 4, Indels: 10
0.85 0.04 0.10
Matches are distributed among these distances:
88 7 0.09
90 50 0.61
91 4 0.05
92 9 0.11
93 11 0.13
94 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (88 bp):
TAAAGATATGACATTTCAAATTTATTATTAGTTTTATAATATTTTAAATATAATTTAAATTGTTT
TATAATATTTAAAATATAATTTT
Found at i:14475054 original size:29 final size:27
Alignment explanation
Indices: 14475019--14475090 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 27
14475009 ATATTTTAAT
*
14475019 AATATAATTTTAAATATTTTTAAATTTTA
1 AATATAATTTTAAA-ATTATT-AATTTTA
14475048 AATATAATTTTTATAAATTATTAATTTTA
1 AATATAA-TTTTA-AAATTATTAATTTTA
14475077 AA-ATTAATTTTAAA
1 AATA-TAATTTTAAA
14475091 GATATTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 19 0.49
30 10 0.26
31 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AATATAATTTTAAAATTATTAATTTTA
Found at i:14475058 original size:12 final size:13
Alignment explanation
Indices: 14475019--14475090 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 13
14475009 ATATTTTAAT
14475019 AATA-TAATTTTA
1 AATATTAATTTTA
14475031 AATATTTTTAAATTTTA
1 AATA---TT-AATTTTA
14475048 AATA-TAATTTTTATA
1 AATATTAA--TTT-TA
14475063 AATTATTAATTTTA
1 AA-TATTAATTTTA
14475077 AA-ATTAATTTTA
1 AATATTAATTTTA
14475089 AA
1 AA
14475091 GATATTCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 20
0.71 0.00 0.29
Matches are distributed among these distances:
12 18 0.36
13 1 0.02
14 7 0.14
15 7 0.14
16 3 0.06
17 14 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTAATTTTA
Found at i:14480578 original size:4 final size:4
Alignment explanation
Indices: 14480563--14480597 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
14480553 TTCTCGTATG
14480563 TTAT TATAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TT
14480598 TTCATATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:14480639 original size:12 final size:12
Alignment explanation
Indices: 14480622--14480647 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14480612 TGCGATTTTA
14480622 GTATTATTATAT
1 GTATTATTATAT
14480634 GTATTATTATAT
1 GTATTATTATAT
14480646 GT
1 GT
14480648 TATTTAGTGT
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:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (12 bp):
GTATTATTATAT
Found at i:14482035 original size:46 final size:46
Alignment explanation
Indices: 14481966--14482221 Score: 309
Period size: 46 Copynumber: 5.5 Consensus size: 46
14481956 GCCATAGTGC
* * * *
14481966 CTTTTAACTATGGTCTTACTCATTTTCTGTTATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTAT
* ** * *
14482012 CTTTCAACCATCGTCTTATTCATTTCCCTGTCATGTTGTCATGGTAT
1 CTTTCAACCATGGTCTTACACATTT-TCTGTCATGTTGCCATGGTAT
* *
14482059 CTTTTAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTTC-TGTCATGTTGCCATGGTAT
* *
14482105 CTTTCAACCATGGTTTTACACA-TTTCGTATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTTC-TGTCATGTTGCCATGGTAT
* * * *
14482151 CTTTCAACCATGGTCTTACAGATTTTGTATGATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTAT
*
14482197 CTTTTAACCATGGTCTTACACATTT
1 CTTTCAACCATGGTCTTACACATTT
14482222 CATTTCAGAA
Statistics
Matches: 184, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 144 0.78
47 39 0.21
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTAT
Found at i:14496931 original size:16 final size:17
Alignment explanation
Indices: 14496896--14496928 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14496886 AACATTTTCT
14496896 TTTAACATATTTAAAAA
1 TTTAACATATTTAAAAA
*
14496913 TTTAATATATTTAAAA
1 TTTAACATATTTAAAA
14496929 TTTTTTAAGT
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):
TTTAACATATTTAAAAA
Found at i:14497114 original size:59 final size:60
Alignment explanation
Indices: 14497047--14497160 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
14497037 TATATTGAAC
*
14497047 ATATTAAAATTTTAAAATTAATTATACTTAACATTTTTTAATATATAT-ATTTTTAAAAT
1 ATATTAAAATATTAAAATTAATTATACTTAACATTTTTTAATATATATAATTTTTAAAAT
** *
14497106 ATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATATATTTAATTTTT
1 ATATTAAAATATTAAAATTAATTATACTTAACATTTTTTAATATATATAATTTTT
14497161 TTAAGTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 44 0.88
60 6 0.12
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (60 bp):
ATATTAAAATATTAAAATTAATTATACTTAACATTTTTTAATATATATAATTTTTAAAAT
Found at i:14497895 original size:12 final size:11
Alignment explanation
Indices: 14497862--14497948 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
14497852 TTTTAAATAG
14497862 AATTTAAAAAAT
1 AATTT-AAAAAT
* *
14497874 AATTTGAATAT
1 AATTTAAAAAT
*
14497885 -CTTTAAAAAT
1 AATTTAAAAAT
14497895 AATTTAAAAAT
1 AATTTAAAAAT
*
14497906 AATAATTTAAAAT
1 AAT--TTAAAAAT
14497919 -A-TTATAAAAT
1 AATTTA-AAAAT
*
14497929 AAATTAAATAAT
1 AATTTAAA-AAT
14497941 -ATTTAAAA
1 AATTTAAAA
14497949 TATTATAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
9 2 0.03
10 13 0.22
11 25 0.42
12 12 0.20
13 7 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (11 bp):
AATTTAAAAAT
Found at i:14497980 original size:20 final size:20
Alignment explanation
Indices: 14497955--14497996 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14497945 AAAATATTAT
*
14497955 AAAACTAATAATAAATTTGA
1 AAAACTAATAATAAACTTGA
14497975 AAAACTAATAATAAACTTGA
1 AAAACTAATAATAAACTTGA
14497995 AA
1 AA
14497997 GGTCATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAACTAATAATAAACTTGA
Found at i:14498046 original size:21 final size:20
Alignment explanation
Indices: 14498001--14498089 Score: 80
Period size: 19 Copynumber: 4.5 Consensus size: 20
14497991 TTGAAAGGTC
*
14498001 ATATATTTAAAATATTT--AA
1 ATATATTTAATAT-TTTAAAA
14498020 ATAT-TTT-ATATTATTAAAA
1 ATATATTTAATATT-TTAAAA
14498039 ATATATTTAATATTTTAAAAA
1 ATATATTTAATATTTT-AAAA
* *
14498060 ATAATATGTAAAATTTTAAAA
1 AT-ATATTTAATATTTTAAAA
14498081 A-ATATTTAA
1 ATATATTTAA
14498090 AAATAATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.02
17 5 0.08
18 3 0.05
19 17 0.29
20 5 0.08
21 16 0.27
22 12 0.20
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
ATATATTTAATATTTTAAAA
Found at i:14498066 original size:22 final size:22
Alignment explanation
Indices: 14498019--14498084 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
14498009 AAAATATTTA
*
14498019 AATATTTTATATTATT-AAAAAT
1 AATATTTAATATT-TTAAAAAAT
14498041 -ATATTTAATATTTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
* *
14498062 AATATGTAAAATTTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
14498084 A
1 A
14498085 TTTAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 17 0.44
22 20 0.51
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:14498090 original size:19 final size:19
Alignment explanation
Indices: 14498018--14498091 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 19
14498008 TAAAATATTT
* *
14498018 AAATATTTTATATTATTAAA
1 AAATATTTAAAATT-TTAAA
*
14498038 AATATATTTAATATTTTAAA
1 AA-ATATTTAAAATTTTAAA
14498058 AAATAATATGTAAAATTTTAAA
1 AAAT-AT-T-TAAAATTTTAAA
14498080 AAATATTTAAAA
1 AAATATTTAAAA
14498092 ATAATATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
19 7 0.15
20 12 0.25
21 14 0.29
22 15 0.31
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
AAATATTTAAAATTTTAAA
Found at i:14498097 original size:32 final size:34
Alignment explanation
Indices: 14498047--14498140 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 34
14498037 AAATATATTT
*
14498047 AATATTTTAAAAAATAATATGTAAAATTTTA-AAA
1 AATA-TTTAAAAAATAATATTTAAAATTTTAGAAA
14498081 AATATTT-AAAAATAATATTTAAAA-TTTAGAAA
1 AATATTTAAAAAATAATATTTAAAATTTTAGAAA
*
14498113 AATAATTTCAAAAATATATATTTAAAAT
1 AAT-ATTTAAAAAATA-ATATTTAAAAT
14498141 ATAAAAATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
31 4 0.07
32 22 0.41
33 7 0.13
34 11 0.20
35 10 0.19
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (34 bp):
AATATTTAAAAAATAATATTTAAAATTTTAGAAA
Found at i:14498120 original size:20 final size:21
Alignment explanation
Indices: 14498084--14498125 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
14498074 TTTAAAAAAT
14498084 ATTTAAAAATAATATTT-AAA
1 ATTTAAAAATAATATTTCAAA
*
14498104 ATTTAGAAA-AATAATTTCAAA
1 ATTTAAAAATAAT-ATTTCAAA
14498125 A
1 A
14498126 ATATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTTAAAAATAATATTTCAAA
Found at i:14498147 original size:21 final size:22
Alignment explanation
Indices: 14498122--14498164 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
14498112 AAATAATTTC
14498122 AAAAATATATATT-TAAAATAT
1 AAAAATATATATTATAAAATAT
*
14498143 AAAAATATATATTATAATATAT
1 AAAAATATATATTATAAAATAT
14498165 TTCAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATATATATTATAAAATAT
Found at i:14498221 original size:14 final size:15
Alignment explanation
Indices: 14498204--14498236 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14498194 TTAATCATAA
14498204 AAAATAAATAAA-AT
1 AAAATAAATAAAGAT
14498218 AAAATAAATAAAGAT
1 AAAATAAATAAAGAT
14498233 AAAA
1 AAAA
14498237 GACAATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAAGAT
Found at i:14498265 original size:10 final size:10
Alignment explanation
Indices: 14498200--14498265 Score: 60
Period size: 10 Copynumber: 6.1 Consensus size: 10
14498190 AAAATTAATC
14498200 ATAAAAAATAA
1 ATAAAAAA-AA
*
14498211 ATAAAATAAA
1 ATAAAAAAAA
* *
14498221 ATAAATAAAG
1 ATAAAAAAAA
14498231 ATAAAAGACAATA
1 ATAAAA-A-AA-A
14498244 CATAAAAAAAA
1 -ATAAAAAAAA
14498255 ATAAAAAAAA
1 ATAAAAAAAA
14498265 A
1 A
14498266 AGAAAAAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 25 0.56
11 9 0.20
12 4 0.09
13 1 0.02
14 6 0.13
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (10 bp):
ATAAAAAAAA
Found at i:14510385 original size:27 final size:26
Alignment explanation
Indices: 14510347--14510436 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
14510337 TCATATCAGT
*
14510347 CTTTGTTT-TTTTATTTTATTTTTTGA
1 CTTTATTTATTTTATTTTATTTTTT-A
* * *
14510373 CTTT-TTTACTTTTCTTTTGTTTTTTT
1 CTTTATTTA-TTTTATTTTATTTTTTA
*
14510399 CTTTATTTATTTTATTTTATTTATTA
1 CTTTATTTATTTTATTTTATTTTTTA
*
14510425 --TTATTAATTTTA
1 CTTTATTTATTTTA
14510437 AAAATTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
24 11 0.21
25 3 0.06
26 21 0.40
27 18 0.34
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.76
Consensus pattern (26 bp):
CTTTATTTATTTTATTTTATTTTTTA
Found at i:14510501 original size:35 final size:36
Alignment explanation
Indices: 14510461--14510543 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 36
14510451 GATATTTGAA
*
14510461 ATATTTTATTAATATATATTTTT-AATTTTAATTAT
1 ATATTTTATTAATATATATTTTTAAATTTTAAATAT
* *
14510496 ATATTTTA-AAAT-TATTTTTTTAAATTTTAAATAT
1 ATATTTTATTAATATATATTTTTAAATTTTAAATAT
14510530 -TATTTT-TTAA-ATAT
1 ATATTTTATTAATATAT
14510544 TTAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
33 19 0.46
34 14 0.34
35 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (36 bp):
ATATTTTATTAATATATATTTTTAAATTTTAAATAT
Found at i:14510534 original size:22 final size:21
Alignment explanation
Indices: 14510498--14510552 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
14510488 TTAATTATAT
14510498 ATTTTAAA-ATTATTTTTTTAA
1 ATTTTAAATATTA-TTTTTTAA
14510519 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
14510540 ATATTTAAATATT
1 AT-TTTAAATATT
14510553 TTAAACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:14510556 original size:17 final size:17
Alignment explanation
Indices: 14510534--14510566 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14510524 AAATATTATT
14510534 TTTTAAA-TATTTAAATA
1 TTTTAAACT-TTTAAATA
14510551 TTTTAAACTTTTAAAT
1 TTTTAAACTTTTAAAT
14510567 TTGTTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAAACTTTTAAATA
Found at i:14511466 original size:145 final size:145
Alignment explanation
Indices: 14511274--14511707 Score: 604
Period size: 145 Copynumber: 3.0 Consensus size: 145
14511264 ATTATATTAA
* *
14511274 TTTAATAAAATAATATACGAAAATAAAAATACGAATAAAGTACTAAAATCAAGGTTATTTATTAA
1 TTTAA-AAAATAAGATACG--AA-AAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAA
14511339 AAAAATATAAAAAACACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAAT
62 AAAAATATAAAAAACACTTAAATAATACATTTGAAATATTATGTACTAAAATAATAT-AAGAAAT
14511404 AAAATACGAAAATAATATAT
126 AAAATACGAAAATAATATAT
* * *
14511424 TTTAAAAAATAAGGTAC-AAAAAAATATGAATAAAGTGCTAAAATC-AGGATTATTTATTGAAAA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAAGG-TTATTTATTAAAAA
* *
14511487 AATATAAAAAATACTTAAATAATACATTTGAAATATTATGTATTAAAATAATATGAAGAAATAAA
65 AATATAAAAAACACTTAAATAATACATTTGAAATATTATGTACTAAAATAATAT-AAGAAATAAA
*
14511552 ATATGAAAATAATATAT
129 ATACGAAAATAATATAT
* * * **
14511569 TTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTTAAAATCAAGGTTATTTATTAAATTA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAA
* * * * * *
14511634 ATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAA-AAATAATA
66 ATAT-AAAAAACACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAGAAATAAAA
14511698 TACGAAAATA
130 TACGAAAATA
14511708 TTTTATTTAT
Statistics
Matches: 254, Mismatches: 26, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
144 3 0.01
145 147 0.58
146 44 0.17
147 45 0.18
149 10 0.04
150 5 0.02
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (145 bp):
TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAA
ATATAAAAAACACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAGAAATAAAAT
ACGAAAATAATATAT
Found at i:14511891 original size:18 final size:18
Alignment explanation
Indices: 14511851--14511894 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14511841 CTTTTTTTTA
*
14511851 TTTTTTTTCGTTTTCAGT
1 TTTTTTTTCGTTTTCAAT
* * *
14511869 GTTTTTTTCTTTTTTAAT
1 TTTTTTTTCGTTTTCAAT
14511887 TTTTTTTT
1 TTTTTTTT
14511895 ACTGTTGCAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTTTTTCGTTTTCAAT
Found at i:14512356 original size:35 final size:33
Alignment explanation
Indices: 14512291--14512356 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 33
14512281 TTTTAAATAG
* *
14512291 AATTTAAAAAATAATTTGAATATCTTTAAAAAT
1 AATTTAAAAAATAATTTAAATATCTATAAAAAT
14512324 AATTTAAAAATCATAATTTAAAATAT-TATAAAA
1 AATTTAAAAA--ATAATTT-AAATATCTATAAAA
14512357 CAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 10 0.36
35 13 0.46
36 5 0.18
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (33 bp):
AATTTAAAAAATAATTTAAATATCTATAAAAAT
Found at i:14512376 original size:13 final size:13
Alignment explanation
Indices: 14512358--14512386 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14512348 ATTATAAAAC
14512358 AAAATAAATAAAT
1 AAAATAAATAAAT
14512371 AAAATAAATAAAT
1 AAAATAAATAAAT
14512384 AAA
1 AAA
14512387 GAAAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:14512381 original size:17 final size:17
Alignment explanation
Indices: 14512359--14512391 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14512349 TTATAAAACA
*
14512359 AAATAAATAAATAAAAT
1 AAATAAATAAAGAAAAT
14512376 AAATAAATAAAGAAAA
1 AAATAAATAAAGAAAA
14512392 AACAAAAGAA
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:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAATAAAGAAAAT
Found at i:14512409 original size:18 final size:17
Alignment explanation
Indices: 14512384--14512419 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
14512374 ATAAATAAAT
*
14512384 AAAGAAAAAACAAAAGA
1 AAAGAAAAAAAAAAAGA
14512401 AAAGTAAAAAAAAAAAGA
1 AAAG-AAAAAAAAAAAGA
14512419 A
1 A
14512420 CTGGCATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAAAAGA
Found at i:14513559 original size:17 final size:17
Alignment explanation
Indices: 14513539--14513590 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
14513529 TATTTATATC
*
14513539 TATTGTTTATATTATTA
1 TATTATTTATATTATTA
*
14513556 TATTAAATTTCATATTA-TG
1 TATT--ATTT-ATATTATTA
14513575 TATTATTTATATTATT
1 TATTATTTATATTATT
14513591 GAATTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 6 0.21
17 9 0.31
19 8 0.28
20 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TATTATTTATATTATTA
Found at i:14513761 original size:18 final size:18
Alignment explanation
Indices: 14513727--14513762 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14513717 TTAAAAAAAT
*
14513727 TATATTTTTTACCTTTAA
1 TATATTTTTTAACTTTAA
*
14513745 TATATTTTTTAATTTTAA
1 TATATTTTTTAACTTTAA
14513763 AATAAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTTTTAACTTTAA
Found at i:14518118 original size:30 final size:30
Alignment explanation
Indices: 14518077--14518137 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
14518067 AATTTTAAGT
14518077 AAAACAATTACTGTAAAAAAAGTGAATTTC
1 AAAACAATTACTGTAAAAAAAGTGAATTTC
* *
14518107 AAAAGAATTACTGTAGAAAAAGTGAATTTC
1 AAAACAATTACTGTAAAAAAAGTGAATTTC
14518137 A
1 A
14518138 CATCTACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.26
Consensus pattern (30 bp):
AAAACAATTACTGTAAAAAAAGTGAATTTC
Found at i:14518156 original size:18 final size:18
Alignment explanation
Indices: 14518133--14518169 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14518123 AAAAAGTGAA
14518133 TTTCACATCTACTAACAT
1 TTTCACATCTACTAACAT
14518151 TTTCACATCTACTAACAT
1 TTTCACATCTACTAACAT
14518169 T
1 T
14518170 GTGAATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTCACATCTACTAACAT
Found at i:14520013 original size:18 final size:17
Alignment explanation
Indices: 14519992--14520033 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
14519982 AATTATAAAT
14519992 TGAAATGAAAATAAAAAC
1 TGAAATGAAAA-AAAAAC
*
14520010 TGAAATGAAAAAAAAAT
1 TGAAATGAAAAAAAAAC
14520027 TGAAATG
1 TGAAATG
14520034 GGAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.19
Consensus pattern (17 bp):
TGAAATGAAAAAAAAAC
Found at i:14520030 original size:17 final size:17
Alignment explanation
Indices: 14519988--14520105 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 17
14519978 AATAAATTAT
14519988 AAATTGAAATGAAAATAA
1 AAATTGAAATGAAAA-AA
*
14520006 AAACTGAAATGAAAAAA
1 AAATTGAAATGAAAAAA
14520023 AAATTGAAATGGGAAAAAA
1 AAATTGAAAT--GAAAAAA
*
14520042 TTAAATTTAAATGGAGAAAAA
1 --AAATTGAAAT-GA-AAAAA
*
14520063 ATAATTTAAATGAAATGAAA
1 A-AATTGAAATGAAA--AAA
*
14520083 ATGTAAATGAAATGAAAAAA
1 A---AATTGAAATGAAAAAA
14520103 AAA
1 AAA
14520106 AGTTGAAGGG
Statistics
Matches: 85, Mismatches: 5, Indels: 21
0.77 0.05 0.19
Matches are distributed among these distances:
17 13 0.15
18 16 0.19
19 10 0.12
20 20 0.24
21 14 0.16
22 12 0.14
ACGTcount: A:0.64, C:0.01, G:0.14, T:0.21
Consensus pattern (17 bp):
AAATTGAAATGAAAAAA
Found at i:14520068 original size:20 final size:19
Alignment explanation
Indices: 14520016--14520074 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 19
14520006 AAACTGAAAT
* *
14520016 GAAAAAAAAATTGAAATGG
1 GAAAAAATAATTTAAATGG
14520035 GAAAAAATTAAATTTAAATGG
1 GAAAAAA-T-AATTTAAATGG
14520056 AGAAAAAATAATTTAAATG
1 -GAAAAAATAATTTAAATG
14520075 AAATGAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
21 11 0.31
22 7 0.20
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (19 bp):
GAAAAAATAATTTAAATGG
Found at i:14525663 original size:39 final size:40
Alignment explanation
Indices: 14525368--14525653 Score: 431
Period size: 40 Copynumber: 7.2 Consensus size: 40
14525358 CGGATTGATA
* *
14525368 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
14525408 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
14525447 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
14525486 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
14525526 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
14525566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
14525606 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
14525646 CC-GGCTAA
1 CCGGGCTAA
14525654 ACTCCGAAGG
Statistics
Matches: 237, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
39 82 0.35
40 155 0.65
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:14527077 original size:22 final size:22
Alignment explanation
Indices: 14527046--14527120 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
14527036 ACTTTTTTTT
*
14527046 CATTTAATTTCCATTTCCATTC
1 CATTTAATTTACATTTCCATTC
* * *
14527068 CATTTCATTTACATTTCTATTT
1 CATTTAATTTACATTTCCATTC
* *
14527090 CATTTAAATTATTATTT---TTC
1 CATTTAATTTA-CATTTCCATTC
14527110 CATTTAATTTA
1 CATTTAATTTA
14527121 ATTCTTTCTC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 12 0.28
22 27 0.63
23 4 0.09
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (22 bp):
CATTTAATTTACATTTCCATTC
Found at i:14527082 original size:11 final size:10
Alignment explanation
Indices: 14527043--14527094 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
14527033 TAAACTTTTT
*
14527043 TTTCATTTAA
1 TTTCATTTCA
14527053 TTTCCATTTCCA
1 TTT-CATTT-CA
*
14527065 TTCCATTTCA
1 TTTCATTTCA
14527075 TTTACATTTCTA
1 TTT-CATTTC-A
14527087 TTTCATTT
1 TTTCATTT
14527095 AAATTATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 7 0.20
11 21 0.60
12 7 0.20
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:14527462 original size:21 final size:21
Alignment explanation
Indices: 14527420--14527462 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
14527410 TACCAAAGTC
*
14527420 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
14527441 ATTT-AAATTTTTTATCAATTT
1 ATTTAAAATTTTTCAT-AATTT
14527462 A
1 A
14527463 AATATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:14527740 original size:45 final size:46
Alignment explanation
Indices: 14527673--14527896 Score: 301
Period size: 45 Copynumber: 4.8 Consensus size: 46
14527663 TATTATTTTC
* *
14527673 ATTTCATTTAAATTATCTTTTTTTTTCATTTAAATTTAATTTTTTCTT
1 ATTTCATTTAAATTATC-TTTCTTTTCATTTTAATTTAA-TTTTTCTT
* * *
14527721 ATTTCATTTAAATTATTTTTATTTCCATTTTAATTTAATTTTTC--
1 ATTTCATTTAAATTATCTTTCTTTTCATTTTAATTTAATTTTTCTT
* *
14527765 ATGTCATTTAAATTATCTTTCTTTTCCATTTTAATTTAATTTTTTTACTC
1 ATTTCATTTAAATTATCTTTCTTTT-CATTTTAATTTAA--TTTTT-CTT
*
14527815 ATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTT-TT
1 ATTTCATTTAAATTATCTTTCTTTTCATTTTAATTTAATTTTTCTT
14527860 ATTTCATTTAAATTATCTTTCTTTTCATTTTAATTTA
1 ATTTCATTTAAATTATCTTTCTTTTCATTTTAATTTA
14527897 CGTGTTTTTC
Statistics
Matches: 158, Mismatches: 12, Indels: 15
0.85 0.06 0.08
Matches are distributed among these distances:
44 21 0.13
45 50 0.32
46 6 0.04
47 28 0.18
48 17 0.11
49 13 0.08
50 23 0.15
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.63
Consensus pattern (46 bp):
ATTTCATTTAAATTATCTTTCTTTTCATTTTAATTTAATTTTTCTT
Found at i:14527989 original size:44 final size:44
Alignment explanation
Indices: 14527940--14528076 Score: 184
Period size: 44 Copynumber: 3.1 Consensus size: 44
14527930 ATTTATTTCA
* *
14527940 TTTAATGTATTTTAAACTAAATATTTATGTATATTGTATTATAG
1 TTTAATGTATTTTAAAATAAATATGTATGTATATTGTATTATAG
*
14527984 TTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATAG
1 TTTAATGTATTTTAAAATAAATATGTATGTATATTGTATTATAG
** * * * * *
14528028 TTTAATGTCCTTTAAATTAAATATGCATGTTTATTGTACTATAA
1 TTTAATGTATTTTAAAATAAATATGTATGTATATTGTATTATAG
14528072 TTTAA
1 TTTAA
14528077 CATGTTTTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 83 1.00
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (44 bp):
TTTAATGTATTTTAAAATAAATATGTATGTATATTGTATTATAG
Found at i:14531302 original size:6 final size:6
Alignment explanation
Indices: 14531282--14531320 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
14531272 TTTGCATTTC
*
14531282 ATTTTG ATTTT- ATTTTG ATTTTG ATTTTG ATTTTC ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
14531321 GTCATGTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:14531310 original size:12 final size:11
Alignment explanation
Indices: 14531256--14531320 Score: 67
Period size: 12 Copynumber: 5.6 Consensus size: 11
14531246 TTTGAGTCTA
* *
14531256 TTTATTTTTAA
1 TTTATTTTGAT
*
14531267 TTTGTTTTGCAT
1 TTTATTTTG-AT
*
14531279 TTCATTTTGAT
1 TTTATTTTGAT
14531290 TTTATTTTGAT
1 TTTATTTTGAT
14531301 TTTGATTTTGAT
1 TTT-ATTTTGAT
14531313 TTTCATTT
1 TTT-ATTT
14531321 GTCATGTTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
11 22 0.49
12 23 0.51
ACGTcount: A:0.17, C:0.05, G:0.09, T:0.69
Consensus pattern (11 bp):
TTTATTTTGAT
Found at i:14531321 original size:11 final size:12
Alignment explanation
Indices: 14531278--14531320 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
14531268 TTGTTTTGCA
14531278 TTTCATTTTGAT
1 TTTCATTTTGAT
14531290 TTT-ATTTTGAT
1 TTTCATTTTGAT
*
14531301 TTTGATTTTGAT
1 TTTCATTTTGAT
14531313 TTTCATTT
1 TTTCATTT
14531321 GTCATGTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (12 bp):
TTTCATTTTGAT
Found at i:14531503 original size:26 final size:26
Alignment explanation
Indices: 14531467--14531518 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14531457 CAGTCGATTG
14531467 GTGCTACTCAGGAATATACAAACAAT
1 GTGCTACTCAGGAATATACAAACAAT
14531493 GTGCTACTCAGGAATATACAAACAAT
1 GTGCTACTCAGGAATATACAAACAAT
14531519 CCTATGGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (26 bp):
GTGCTACTCAGGAATATACAAACAAT
Found at i:14535505 original size:114 final size:114
Alignment explanation
Indices: 14535338--14535598 Score: 343
Period size: 114 Copynumber: 2.3 Consensus size: 114
14535328 AGTGGTGTCG
*
14535338 GCCATCAGTGCCCCAAAGT---AAAAAAATTGCCTTGGGATCCAAAAAATGTACTTGGTGCTGGC
1 GCCATCAGTGTCCCAAAGTAAAAAAAAAATTGCCTTGGGATCCAAAAAATGTACTTGGTGCTGGC
* * *
14535400 CATCTACTGGCCAGCACTCAAAA-TTTTTTTTAATTGACATTGGTGCCA
66 CATCTACTGGCCAGCACCCAAAATTTTTTTTTAATTGACACTGATGCCA
* * *
14535448 GCCATCAGTGTCTCAAAGTAAAAAAAAAAATTGCCTT-GGCTCCTGAAAAATGTACTTGGTGCTG
1 GCCATCAGTGTCCCAAAGT-AAAAAAAAAATTGCCTTGGGATCC-AAAAAATGTACTTGGTGCTG
* * * **
14535512 GCCATTTACTGGCGAGTACCCAAAATTTTTTTTTAATTGACACTGATGCTG
64 GCCATCTACTGGCCAGCACCCAAAATTTTTTTTTAATTGACACTGATGCCA
* *
14535563 GCCCTCAGTGTCCCAAAGTAAAAATAAAATTGCCTT
1 GCCATCAGTGTCCCAAAGTAAAAAAAAAATTGCCTT
14535599 AATAACGAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
110 17 0.13
113 5 0.04
114 70 0.54
115 38 0.29
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (114 bp):
GCCATCAGTGTCCCAAAGTAAAAAAAAAATTGCCTTGGGATCCAAAAAATGTACTTGGTGCTGGC
CATCTACTGGCCAGCACCCAAAATTTTTTTTTAATTGACACTGATGCCA
Found at i:14537695 original size:30 final size:30
Alignment explanation
Indices: 14537661--14537723 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
14537651 ACTTAACAAG
14537661 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
14537691 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
14537721 CAA
1 CAA
14537724 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:14539185 original size:26 final size:26
Alignment explanation
Indices: 14539148--14539283 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
14539138 TGATACAAAT
* *
14539148 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14539174 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
14539200 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14539226 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14539252 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14539278 TGATAA
1 TGATAA
14539284 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14545085 original size:26 final size:26
Alignment explanation
Indices: 14545048--14545183 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
14545038 TGATACAAAT
* *
14545048 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14545074 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
14545100 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14545126 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14545152 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14545178 TGATAA
1 TGATAA
14545184 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14547206 original size:136 final size:136
Alignment explanation
Indices: 14546961--14547245 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
14546951 GAGTAGTCTC
14546961 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
14547026 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
14547091 CTGTTA
131 CTGTTA
*
14547097 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
14547162 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
14547227 CTGTTA
131 CTGTTA
**
14547233 CCTGAATGGGCTT
1 CCCAAATGGGCTT
14547246 AGCCCAATAG
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:14550234 original size:56 final size:56
Alignment explanation
Indices: 14550172--14550338 Score: 271
Period size: 56 Copynumber: 3.0 Consensus size: 56
14550162 ACCATGGCAT
14550172 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * * * *
14550228 CGATATATGTGTACAAGTAAGACCACATTTAATACGTTGGTATCGATATGTGATTT
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
14550284 CGATATATATGTGCGAGTAAGACCACGTTTAGTACGTTGGCATCGATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
14550339 ACATGTAAGA
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 100 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:14550547 original size:16 final size:16
Alignment explanation
Indices: 14550523--14550553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14550513 TGGTTATTTG
*
14550523 ATATTTGATGCAAATA
1 ATATATGATGCAAATA
14550539 ATATATGATGCAAAT
1 ATATATGATGCAAAT
14550554 GAAAAGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (16 bp):
ATATATGATGCAAATA
Found at i:14555289 original size:4 final size:4
Alignment explanation
Indices: 14555280--14555406 Score: 254
Period size: 4 Copynumber: 31.8 Consensus size: 4
14555270 TTACTACCAA
14555280 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14555328 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14555376 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
14555407 CTTTGTTTTT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 123 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:14556425 original size:24 final size:24
Alignment explanation
Indices: 14556393--14556448 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
14556383 TGGTGGCTAT
14556393 GGTCGTGGTCGAGCATGACATGGC
1 GGTCGTGGTCGAGCATGACATGGC
14556417 GGTCGTGGTCGAGCATGACATGGC
1 GGTCGTGGTCGAGCATGACATGGC
*
14556441 AGTCGTGG
1 GGTCGTGG
14556449 ATGATTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.20, G:0.43, T:0.21
Consensus pattern (24 bp):
GGTCGTGGTCGAGCATGACATGGC
Found at i:14556663 original size:11 final size:11
Alignment explanation
Indices: 14556647--14556672 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14556637 AAGAAATGCC
14556647 AAAATAAAAAG
1 AAAATAAAAAG
14556658 AAAATAAAAAG
1 AAAATAAAAAG
14556669 AAAA
1 AAAA
14556673 GCAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:14565076 original size:26 final size:27
Alignment explanation
Indices: 14565047--14565099 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
14565037 AAGAAAATTT
*
14565047 AGTAATTT-AAGCAAAATTAAAAAAAA
1 AGTAATTTGAAGCAAAAATAAAAAAAA
* *
14565073 AGTAATTTGCAGTAAAAATAAAAAAAA
1 AGTAATTTGAAGCAAAAATAAAAAAAA
14565100 TAGCTAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (27 bp):
AGTAATTTGAAGCAAAAATAAAAAAAA
Found at i:14568130 original size:23 final size:22
Alignment explanation
Indices: 14568090--14568179 Score: 99
Period size: 22 Copynumber: 3.9 Consensus size: 22
14568080 TGCTACTTTT
14568090 CAGAGAATATATTCACTGTTCATGC
1 CAGAGAAT-T-TT-ACTGTTCATGC
**
14568115 CAGAGAATATTTACTGTTCATTT
1 CAGAGAAT-TTTACTGTTCATGC
*
14568138 CAGAGAATTTCACTGTTCATGC
1 CAGAGAATTTTACTGTTCATGC
* *
14568160 TAGAGAATTTTATTGTTCAT
1 CAGAGAATTTTACTGTTCAT
14568180 TCGTCTTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 28 0.49
23 17 0.30
24 2 0.04
25 10 0.18
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (22 bp):
CAGAGAATTTTACTGTTCATGC
Found at i:14568155 original size:22 final size:23
Alignment explanation
Indices: 14568087--14568157 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 23
14568077 AATTGCTACT
14568087 TTTCAGAGAATATATTCACTGTTCA
1 TTTCAGAG-A-ATATTCACTGTTCA
** *
14568112 TGCCAGAGAATATTTACTGTTCA
1 TTTCAGAGAATATTCACTGTTCA
14568135 TTTCAGAGAAT-TTCACTGTTCA
1 TTTCAGAGAATATTCACTGTTCA
14568157 T
1 T
14568158 GCTAGAGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.28
23 22 0.55
24 1 0.03
25 6 0.15
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (23 bp):
TTTCAGAGAATATTCACTGTTCA
Found at i:14568156 original size:45 final size:47
Alignment explanation
Indices: 14568087--14568180 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 47
14568077 AATTGCTACT
14568087 TTTCAGAGAATATATTCACTGTTCATGCCAGAGAATATTTACTGTTCA
1 TTTCAGAGAATATATTCACTGTTCATGCCAGAGAAT-TTTACTGTTCA
* *
14568135 TTTCAGAG-A-AT-TTCACTGTTCATGCTAGAGAATTTTATTGTTCA
1 TTTCAGAGAATATATTCACTGTTCATGCCAGAGAATTTTACTGTTCA
14568179 TT
1 TT
14568181 CGTCTTTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 12 0.27
45 21 0.48
46 2 0.05
47 1 0.02
48 8 0.18
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (47 bp):
TTTCAGAGAATATATTCACTGTTCATGCCAGAGAATTTTACTGTTCA
Found at i:14576254 original size:15 final size:15
Alignment explanation
Indices: 14576234--14576264 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14576224 AGATGTTGTA
*
14576234 TGTAATTCATTTATT
1 TGTAATTCATCTATT
14576249 TGTAATTCATCTATT
1 TGTAATTCATCTATT
14576264 T
1 T
14576265 CAATAGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (15 bp):
TGTAATTCATCTATT
Found at i:14579456 original size:4 final size:4
Alignment explanation
Indices: 14579449--14579481 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
14579439 AGGTTTTAAG
*
14579449 TATT TATT TATT TATT TAGT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
14579482 TGATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:14579490 original size:16 final size:16
Alignment explanation
Indices: 14579455--14579505 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
14579445 TAAGTATTTA
*
14579455 TTTATTTATTTAG-TT
1 TTTATTTATTTTGATT
14579470 ATTTATTTATTTTGATT
1 -TTTATTTATTTTGATT
*
14579487 TTTAACTTATTTT-ATT
1 TTT-ATTTATTTTGATT
14579503 TTT
1 TTT
14579506 GGAAGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 21 0.68
17 10 0.32
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTATTTATTTTGATT
Found at i:14599566 original size:20 final size:20
Alignment explanation
Indices: 14599528--14599566 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14599518 TGGTCCGTAA
*
14599528 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
14599548 GCCCATTGAGGCCC-CTTTT
1 GCCCATTG-GGCCCACTTTT
14599567 TTCGAAGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.33, G:0.26, T:0.31
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:14606623 original size:20 final size:20
Alignment explanation
Indices: 14606585--14606623 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14606575 TGGTCCGTAA
*
14606585 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
14606605 GCCCATTGAGGCCC-CTTTT
1 GCCCATTG-GGCCCACTTTT
14606624 TTCGAAGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.33, G:0.26, T:0.31
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:14611523 original size:1 final size:1
Alignment explanation
Indices: 14611517--14611564 Score: 60
Period size: 1 Copynumber: 48.0 Consensus size: 1
14611507 TTAGTACTTA
* * * *
14611517 TTTTTTTCTTCTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14611565 AAATTTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:14611540 original size:9 final size:9
Alignment explanation
Indices: 14611517--14611564 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
14611507 TTAGTACTTA
14611517 TTTTTTTCT
1 TTTTTTTCT
14611526 TCTTTTTTCT
1 T-TTTTTTCT
14611536 TTTTTTTCT
1 TTTTTTTCT
14611545 TTTTTTT-T
1 TTTTTTTCT
14611553 TTTTTTT-T
1 TTTTTTTCT
14611561 TTTT
1 TTTT
14611565 AAATTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
8 13 0.34
9 16 0.42
10 9 0.24
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:14611541 original size:19 final size:17
Alignment explanation
Indices: 14611517--14611564 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 17
14611507 TTAGTACTTA
14611517 TTTTTTTCTTCTTTTTTCT
1 TTTTTTTCTT-TTTTTT-T
14611536 TTTTTTTCTTTTTTTTT
1 TTTTTTTCTTTTTTTTT
14611553 TTTTTTT-TTTTT
1 TTTTTTTCTTTTT
14611565 AAATTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 6 0.21
19 10 0.34
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTTT
Found at i:14611848 original size:118 final size:118
Alignment explanation
Indices: 14611689--14611919 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
14611679 TTATTTCCGT
14611689 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
14611754 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
14611807 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
14611872 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
14611920 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:14612878 original size:5 final size:5
Alignment explanation
Indices: 14612868--14612938 Score: 74
Period size: 5 Copynumber: 13.8 Consensus size: 5
14612858 AATATTTAAC
* *
14612868 TAAAA TAAAA TAAAA TAAAA TAAAA TAATAA -ATAA TAAAA TAAAA AAATAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAA-AA
14612919 T-AAA TAAAAA TAAAAA TAAA
1 TAAAA T-AAAA T-AAAA TAAA
14612939 GATTGGGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
4 5 0.09
5 38 0.67
6 14 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:14612893 original size:20 final size:21
Alignment explanation
Indices: 14612868--14612933 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 21
14612858 AATATTTAAC
14612868 TAAAATAA-AATAAAATAAAA
1 TAAAATAATAATAAAATAAAA
*
14612888 TAAAATAATAA-ATAATAAAA
1 TAAAATAATAATAAAATAAAA
*
14612908 TAAAAAAATAAT-AAATAAAAA
1 TAAAATAATAATAAAAT-AAAA
14612929 TAAAA
1 TAAAA
14612934 ATAAAGATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 29 0.73
21 11 0.28
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAATAATAATAAAATAAAA
Found at i:14612902 original size:7 final size:7
Alignment explanation
Indices: 14612890--14612937 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
14612880 AAATAAAATA
14612890 AAATAAT
1 AAATAAT
14612897 AAATAAT
1 AAATAAT
*
14612904 AAAATAAAA
1 -AAAT-AAT
14612913 AAATAAT
1 AAATAAT
14612920 AAATAA-
1 AAATAAT
14612926 AAATAA-
1 AAATAAT
14612932 AAATAA
1 AAATAA
14612938 AGATTGGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 12 0.32
7 15 0.41
8 8 0.22
9 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAATAAT
Found at i:14612934 original size:20 final size:20
Alignment explanation
Indices: 14612875--14612934 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
14612865 AACTAAAATA
*
14612875 AAATAAAATAAAATAAAATAAT
1 AAATAAAA-ATAA-AAAATAAT
14612897 AAATAATAAAATAAAAAAATAAT
1 AAAT-A-AAAAT-AAAAAATAAT
14612920 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
14612935 TAAAGATTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 5 0.15
23 14 0.41
24 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
AAATAAAAATAAAAAATAAT
Found at i:14624222 original size:15 final size:16
Alignment explanation
Indices: 14624204--14624233 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14624194 ATAAGTTCAA
14624204 AAAAAATAAA-AAAAT
1 AAAAAATAAATAAAAT
14624219 AAAAAATAAATAAAA
1 AAAAAATAAATAAAA
14624234 CAAAGTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAATAAATAAAAT
Found at i:14624382 original size:19 final size:19
Alignment explanation
Indices: 14624358--14624423 Score: 118
Period size: 19 Copynumber: 3.6 Consensus size: 19
14624348 TCTTTAAGGT
14624358 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
14624377 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
14624396 TA--CAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
14624413 TATGCAATCTT
1 TATGCAATCTT
14624424 GAAGATACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.38
19 28 0.62
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:14624392 original size:14 final size:15
Alignment explanation
Indices: 14624375--14624412 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
14624365 TCTTAGATAT
14624375 GATATG-CAATCTTA
1 GATATGACAATCTTA
14624389 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
14624406 GATATGA
1 GATATGA
14624413 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:14625073 original size:19 final size:19
Alignment explanation
Indices: 14625040--14625077 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
14625030 TTTTCTTTTA
*
14625040 GTTTACTTATGTTTTTATTT
1 GTTTACTTAT-CTTTTATTT
14625060 GTTTA-TTATCTTTTATTT
1 GTTTACTTATCTTTTATTT
14625078 ACCCTAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (19 bp):
GTTTACTTATCTTTTATTT
Found at i:14630885 original size:45 final size:45
Alignment explanation
Indices: 14630849--14630997 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 45
14630839 TGTTTATAGG
*
14630849 GAAACAGATCGAAGATAGCAGATCTGACACTAC-TGTGCTTACATC
1 GAAACAGATCGAAGATAGCAGATCTGACA-TACATGTGCTTACAGC
* ** * * * * *
14630894 GAAGCAGATCGAAGATTTCAG--CATGGCATCCTTGTGTTTATAG-
1 GAAACAGATCGAAGATAGCAGATC-TGACATACATGTGCTTACAGC
* *
14630937 GGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGC
1 GAAACAGATCGAAGATAGCAGATCTGACATACATGTGCTTACAGC
*
14630982 GAAACAGATCAAAGAT
1 GAAACAGATCGAAGAT
14630998 TTTAACATGG
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
43 20 0.25
44 27 0.34
45 33 0.41
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (45 bp):
GAAACAGATCGAAGATAGCAGATCTGACATACATGTGCTTACAGC
Found at i:14630978 original size:88 final size:88
Alignment explanation
Indices: 14630828--14631047 Score: 327
Period size: 88 Copynumber: 2.5 Consensus size: 88
14630818 AAATAAGATT
*
14630828 TGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGACACTACTGTGCTTACAT
1 TGGCATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACACTACTGTGCTTACAG
* * *
14630893 CGAAGCAGATCGAAGATTTCAGCA
65 CGAAACAGATCAAAGATTTCAACA
* *
14630917 TGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACA-TTCATGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTAC-TGTGCTTACAG
*
14630981 CGAAACAGATCAAAGATTTTAACA
65 CGAAACAGATCAAAGATTTCAACA
*
14631005 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGAT
14631048 TTGGCATCCC
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
87 3 0.03
88 96 0.80
89 21 0.17
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (88 bp):
TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTACTGTGCTTACAGC
GAAACAGATCAAAGATTTCAACA
Found at i:14631055 original size:44 final size:45
Alignment explanation
Indices: 14630823--14631093 Score: 155
Period size: 44 Copynumber: 6.1 Consensus size: 45
14630813 CAAAAAAATA
* *
14630823 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAG-ATAGC
1 AGATTTGGCATCCCTGTGTTTACAGGG-AACAAATCGAAGAATAGC
* * * * ** * **
14630868 AGATCTGACA-CTACTGTGCTTACATCGAAGCAGATCGAAG-ATTTC
1 AGATTTGGCATC-CCTGTGTTTACAGGGAA-CAAATCGAAGAATAGC
* * *
14630913 AGCA--TGGCATCCTTGTGTTTATAGGGAACAGATCGAAG-ATAGC
1 AG-ATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGAATAGC
* * * * * * * * ***
14630956 AGATCTGACATTCATGTGCTTACAGCGAAACAGATCAAAG-ATTTT
1 AGATTTGGCATCCCTGTGTTTACAG-GGAACAAATCGAAGAATAGC
** * * *
14631001 A-ACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG-ATAGC
1 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGAATAGC
14631044 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGA-ATAGC
14631090 AGAT
1 AGAT
14631094 CTGATTTCCA
Statistics
Matches: 168, Mismatches: 48, Indels: 19
0.71 0.20 0.08
Matches are distributed among these distances:
42 1 0.01
43 27 0.16
44 81 0.48
45 49 0.29
46 10 0.06
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (45 bp):
AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGAATAGC
Found at i:14631366 original size:175 final size:175
Alignment explanation
Indices: 14631045--14631803 Score: 1171
Period size: 175 Copynumber: 4.3 Consensus size: 175
14631035 GAAGATAGCA
* * * *
14631045 GATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGA-TTTCCAGATGT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTT-CAGATGT
*
14631109 TCTCACACCAAAGTAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACA
65 TCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACA
* *
14631174 TAGCAAGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCATGAT
130 TAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* * *
14631220 GATTTGACATTCTGGTGTTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT
* * * *
14631285 CTCACACCAAAGTAGATCCACGATAACAGATCTGGCATCTCCATTTCGACGGAGAGGAGGTATAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
*
14631350 AGCAGGTCTTACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
131 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* * *
14631395 GATTTGGCATTCTTGTGTTTACAAGGAACAAATTGATGACATAGCAGATTTGACTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT
* *
14631460 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAGTAGGTACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
*
14631525 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
131 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* *
14631570 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGAAGATTTGACTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT
* * * * *
14631635 CTTACACCAAAGCAGATCGAAGATAACAGATCTGGCATCTCTATTTCAACGGAGAGCAGATACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
* *
14631700 AGCAGATCTAACTTTCAGATGATTT-TACTGAAGCAGATCCAAGAT
131 AGCAGGTCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGAT
* * * * *
14631745 GATTTGGCATCCTTGTGTTCACAAGGAGCAAATCAAAGACATAGCAGATTTGGCTTTCA
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCA
14631804 CCTGTTTACG
Statistics
Matches: 538, Mismatches: 44, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
175 532 0.99
176 6 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (175 bp):
GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT
CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
Found at i:14632292 original size:19 final size:20
Alignment explanation
Indices: 14632268--14632310 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
14632258 AATCTTTAAG
14632268 GATATGCAATCTT-AGATAT
1 GATATGCAATCTTAAGATAT
14632287 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT-AAGATAT
14632308 GAT
1 GAT
14632311 CTTATAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
GATATGCAATCTTAAGATAT
Found at i:14632308 original size:16 final size:17
Alignment explanation
Indices: 14632258--14632308 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
14632248 ATGGAAATAT
*
14632258 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
14632275 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
14632294 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
14632309 ATCTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:14646859 original size:20 final size:20
Alignment explanation
Indices: 14646834--14646871 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14646824 GTTTATTCGT
*
14646834 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
14646854 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
14646872 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:14648532 original size:28 final size:28
Alignment explanation
Indices: 14648500--14648558 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
14648490 GCGTAGATCA
14648500 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
14648528 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
14648556 CGA
1 CGA
14648559 TATATCCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:14652250 original size:20 final size:20
Alignment explanation
Indices: 14652225--14652262 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14652215 GTTTATTCGC
*
14652225 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
14652245 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
14652263 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:14652797 original size:12 final size:12
Alignment explanation
Indices: 14652780--14652804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14652770 ACCTTAGGGT
14652780 TTTTTTCCTCTC
1 TTTTTTCCTCTC
14652792 TTTTTTCCTCTC
1 TTTTTTCCTCTC
14652804 T
1 T
14652805 AGCCGAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTCCTCTC
Found at i:14653921 original size:28 final size:28
Alignment explanation
Indices: 14653889--14653943 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
14653879 CGTAGATCAC
14653889 GAAATTACCCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACT
14653917 GAAATTACCCCTAAAGAGCAAAATTAC
1 GAAATTACCCCTAAAGAGCAAAATTAC
14653944 CGATATACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACT
Found at i:14656348 original size:2 final size:2
Alignment explanation
Indices: 14656324--14656369 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
14656314 ATATTTTCAC
*
14656324 AT AT AT -T AT AT TT AT -T A- AT -T 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
14656362 AT AT AT AT
1 AT AT AT AT
14656370 TGTTTTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:14656535 original size:2 final size:2
Alignment explanation
Indices: 14656523--14656554 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14656513 TATTTATGTT
14656523 TA TA T- 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
14656555 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14661197 original size:51 final size:49
Alignment explanation
Indices: 14661074--14661269 Score: 232
Period size: 49 Copynumber: 4.0 Consensus size: 49
14661064 GTAGCTGAAG
* * *
14661074 CTATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
14661123 TTATCCT-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTAT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * *
14661173 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
14661223 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
14661270 TCACAATAGC
Statistics
Matches: 123, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
49 76 0.62
50 9 0.07
51 38 0.31
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:14661253 original size:100 final size:100
Alignment explanation
Indices: 14661070--14661267 Score: 335
Period size: 100 Copynumber: 2.0 Consensus size: 100
14661060 ACTTGTAGCT
* * **
14661070 GAAGCTATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCTGTACA
1 GAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCTGTACA
14661135 CGTAGTAGCCTGCACTTAGTACTACACACGTGATC
66 CGTAGTAGCCTGCACTTAGTACTACACACGTGATC
*
14661170 GAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAAT-CTGGTAC
1 GAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCT-GTAC
14661234 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
65 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
14661268 CCTCACAATA
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 2 0.02
100 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
GAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCTGTACA
CGTAGTAGCCTGCACTTAGTACTACACACGTGATC
Found at i:14661950 original size:30 final size:30
Alignment explanation
Indices: 14661916--14661976 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
14661906 CCTTTAATAC
14661916 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* * *
14661946 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
14661976 A
1 A
14661977 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:14667183 original size:32 final size:32
Alignment explanation
Indices: 14667141--14667206 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
14667131 ATAGCCCCAT
* *
14667141 ACCAGTAGGCTTATTCTAATATGAATTAACAA
1 ACCAGCAGGCTCATTCTAATATGAATTAACAA
*
14667173 ACCAGCAGGCTCATTCTGATATGAATTAACAA
1 ACCAGCAGGCTCATTCTAATATGAATTAACAA
14667205 AC
1 AC
14667207 AATTTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
ACCAGCAGGCTCATTCTAATATGAATTAACAA
Found at i:14667797 original size:41 final size:41
Alignment explanation
Indices: 14667735--14667818 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
14667725 TAATTTTGTA
* *
14667735 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTCTCTT
1 TTCCTACTTCAATTTGAAATTGAATTATTCTCTCTTCTCTT
* * * * *
14667776 TTCCTATTTCTATTTGAAATTGAATTATTTTCTTTTCTTTT
1 TTCCTACTTCAATTTGAAATTGAATTATTCTCTCTTCTCTT
14667817 TT
1 TT
14667819 TCAATTTGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.18, C:0.17, G:0.07, T:0.58
Consensus pattern (41 bp):
TTCCTACTTCAATTTGAAATTGAATTATTCTCTCTTCTCTT
Found at i:14671063 original size:38 final size:35
Alignment explanation
Indices: 14671002--14671120 Score: 137
Period size: 31 Copynumber: 3.5 Consensus size: 35
14670992 CTCAATCATG
*
14671002 TACTGGGCCGTAGCCCTTTTCATATTTCATATTTCAT
1 TACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT
14671039 AATACTGGGCCGAAGCCTTTTCATATTTC--A--TAT
1 --TACTGGGCCGAAGCCTTTTCATATTTCATATTTAT
14671072 TACTGGGCCGAAGCCTTTTCATATTTC--A--TAT
1 TACTGGGCCGAAGCCTTTTCATATTTCATATTTAT
14671103 TACTGGGCCGAAGCCTTT
1 TACTGGGCCGAAGCCTTT
14671121 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 12 0.15
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
TACTGGGCCGAAGCCTTTTCATATTTCATATTTAT
Found at i:14671064 original size:31 final size:31
Alignment explanation
Indices: 14671026--14671120 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
14671016 CCTTTTCATA
*
14671026 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
14671057 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
14671088 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
14671119 TT
1 TT
14671121 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:14671363 original size:24 final size:24
Alignment explanation
Indices: 14671312--14671454 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
14671302 GCTTTATCAT
*
14671312 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
14671337 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
14671361 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
14671384 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
14671408 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
14671432 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
14671455 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 74 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:14671391 original size:47 final size:48
Alignment explanation
Indices: 14671312--14671453 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
14671302 GCTTTATCAT
* *
14671312 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
14671361 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
* *
14671408 ATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
14671454 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:14671412 original size:71 final size:72
Alignment explanation
Indices: 14671311--14671454 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
14671301 TGCTTTATCA
* *
14671311 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
14671376 GCCCTTT
66 GCCCTTT
* * **
14671383 TATAACTGG-GGCATAAGCC-CTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATA
14671446 AGCCCTTT
65 AGCCCTTT
14671454 T
1 T
14671455 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:14671530 original size:20 final size:20
Alignment explanation
Indices: 14671505--14671564 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
14671495 TATGATTACC
14671505 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
14671525 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
14671545 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
14671565 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:14671535 original size:11 final size:11
Alignment explanation
Indices: 14671505--14671559 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
14671495 TATGATTACC
14671505 TCATGTGCATA
1 TCATGTGCATA
*
14671516 TCA--TACATA
1 TCATGTGCATA
14671525 TCATGTGCATA
1 TCATGTGCATA
* *
14671536 TCA--TACATT
1 TCATGTGCATA
14671545 TCATGTGCATA
1 TCATGTGCATA
14671556 TCAT
1 TCAT
14671560 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:14671639 original size:25 final size:25
Alignment explanation
Indices: 14671607--14671654 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14671597 ATACATAAAC
* * *
14671607 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
14671632 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
14671655 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:14672840 original size:27 final size:26
Alignment explanation
Indices: 14672810--14672887 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
14672800 AGGCATATTC
14672810 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
14672837 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
14672864 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
14672888 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:14673041 original size:27 final size:26
Alignment explanation
Indices: 14673015--14673142 Score: 141
Period size: 27 Copynumber: 4.8 Consensus size: 26
14673005 CTTTGTAAAT
14673015 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
** * *
14673041 TTGAGGGTATTTCGGTAATTTCACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
* *
14673068 CCAAGGGTATTTTGATAA-TTTACAAA
1 -CAGGGGTATTTTGGTAATTTTACAAA
14673094 CTAGGGGTATTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
* *
14673121 CTAAGGGTATTTTAGTAATTTT
1 C-AGGGGTATTTTGGTAATTTT
14673143 GTAAATCGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 22 0.26
27 61 0.73
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
CAGGGGTATTTTGGTAATTTTACAAA
Found at i:14673111 original size:53 final size:53
Alignment explanation
Indices: 14673018--14673141 Score: 162
Period size: 53 Copynumber: 2.3 Consensus size: 53
14673008 TGTAAATCAG
* *
14673018 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGATAA-TTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
14673072 GGGTATTTTGATAATTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGATAATTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACCAA
14673125 GGGTATTTT-AGTAATTT
1 GGGTATTTTGA-TAATTT
14673142 TGTAAATCGA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 47 0.75
54 15 0.24
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGATAATTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:14673154 original size:27 final size:27
Alignment explanation
Indices: 14672905--14673210 Score: 129
Period size: 27 Copynumber: 11.3 Consensus size: 27
14672895 TTTCATCCTA
* * * * * *
14672905 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
14672932 CAAGGGTATTTCAGTAATTTTGTAGAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
14672959 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
14672988 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
14673015 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * * *
14673042 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
14673069 CAAGGGTATTTT-GATAA-TTTACAAA-
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* * *
14673094 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
14673121 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* **** * *
14673149 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** * *
14673176 CAAGGGTAAAATAGTAGTTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
14673203 CGAGGGTA
1 CAAGGGTA
14673211 AAACTGTAAT
Statistics
Matches: 221, Mismatches: 48, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.00
26 22 0.10
27 169 0.76
28 14 0.06
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:14673211 original size:27 final size:27
Alignment explanation
Indices: 14673134--14673345 Score: 250
Period size: 27 Copynumber: 7.9 Consensus size: 27
14673124 AGGGTATTTT
*
14673134 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
14673161 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
14673188 AGTAGTTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
14673215 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
14673242 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
14673269 -GATAATTATGTAAAT-TAGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
14673296 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
14673323 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
14673346 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 158 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Done.