Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 24 of 216
Found at i:7071369 original size:41 final size:41
Alignment explanation
Indices: 7071319--7071400 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
7071309 ATATGAAGAG
7071319 ATTTATGTCTTTTGGATATTGGATGTGAGATGTGATGAAGC
1 ATTTATGTCTTTTGGATATTGGATGTGAGATGTGATGAAGC
7071360 ATTTATGTCTTTTGGATATTGGATGTGAGATGTGATGAAGC
1 ATTTATGTCTTTTGGATATTGGATGTGAGATGTGATGAAGC
7071401 TGATCATCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.41
Consensus pattern (41 bp):
ATTTATGTCTTTTGGATATTGGATGTGAGATGTGATGAAGC
Found at i:7073794 original size:21 final size:21
Alignment explanation
Indices: 7073739--7073794 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
7073729 ATATTAAATT
7073739 TTACAACACCAAAATAGCATA
1 TTACAACACCAAAATAGCATA
** * **
7073760 TTTTAAAAAGAAAATAGCATA
1 TTACAACACCAAAATAGCATA
7073781 TTACAACACCAAAA
1 TTACAACACCAAAA
7073795 AAGTTTTACC
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.21
Consensus pattern (21 bp):
TTACAACACCAAAATAGCATA
Found at i:7078243 original size:23 final size:22
Alignment explanation
Indices: 7078200--7078243 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
7078190 TTCTAAGTCG
7078200 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
7078223 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
7078244 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:7078352 original size:45 final size:45
Alignment explanation
Indices: 7078288--7078376 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
7078278 AACAGATACT
* *
7078288 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
7078333 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAGTGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
7078377 TCGTAGTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:7090838 original size:41 final size:41
Alignment explanation
Indices: 7090769--7090854 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
7090759 TCAGCATTAA
* *
7090769 ATTTTTTTAATCTTTTTGTTCTCGAAGAATTGAGAAAGTTC
1 ATTTTTTTAATCTTTTTGTTCCCAAAGAATTGAGAAAGTTC
*
7090810 ATTTTTTTAAT-TTTGTTTTTCCCAAAGAATTGAGAAAGTTC
1 ATTTTTTTAATCTTT-TTGTTCCCAAAGAATTGAGAAAGTTC
7090851 ATTT
1 ATTT
7090855 GTTTCTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 3 0.07
41 38 0.93
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (41 bp):
ATTTTTTTAATCTTTTTGTTCCCAAAGAATTGAGAAAGTTC
Found at i:7091284 original size:22 final size:22
Alignment explanation
Indices: 7091258--7091313 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
7091248 TATGTAATTT
*
7091258 ATATTATTATTTAAAACAACAA
1 ATATTATTATTTAAAACAAAAA
*
7091280 ATATT-TT-TATAAAACAAAAA
1 ATATTATTATTTAAAACAAAAA
7091300 ATATATATATATTT
1 ATAT-TAT-TATTT
7091314 TAAGGGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 15 0.56
21 3 0.11
22 6 0.22
23 1 0.04
24 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATTATTATTTAAAACAAAAA
Found at i:7093519 original size:31 final size:31
Alignment explanation
Indices: 7093484--7093585 Score: 156
Period size: 31 Copynumber: 3.4 Consensus size: 31
7093474 ACTACAAAAA
7093484 TAGTCACTTTTATTTGTATCAAATTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTT
* *
7093515 TAGTCACTTTTGTTTG-A--AATGTTACATTT
1 TAGTCACTTTTATTTGTATCAA-ATTACATTT
7093544 TAGTCACTTTTATTTGTATCAAATTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTT
7093575 TAGTCACTTTT
1 TAGTCACTTTT
7093586 GTTTAAATGT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.03
29 23 0.37
30 2 0.03
31 34 0.54
32 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.52
Consensus pattern (31 bp):
TAGTCACTTTTATTTGTATCAAATTACATTT
Found at i:7093546 original size:29 final size:29
Alignment explanation
Indices: 7093507--7093611 Score: 151
Period size: 29 Copynumber: 3.6 Consensus size: 29
7093497 TTGTATCAAA
7093507 TTACATTTTAGTCACTTTTGTTTGAAATG
1 TTACATTTTAGTCACTTTTGTTTGAAATG
* *
7093536 TTACATTTTAGTCACTTTTATTTGTATCAA-A
1 TTACATTTTAGTCACTTTTGTTTG-A--AATG
7093567 TTACATTTTAGTCACTTTTGTTT-AAATG
1 TTACATTTTAGTCACTTTTGTTTGAAATG
7093595 TTACATTTTAGTCACTT
1 TTACATTTTAGTCACTT
7093612 ACATTATTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.03
28 17 0.25
29 24 0.35
30 1 0.01
31 22 0.32
32 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (29 bp):
TTACATTTTAGTCACTTTTGTTTGAAATG
Found at i:7093555 original size:60 final size:59
Alignment explanation
Indices: 7093484--7093611 Score: 247
Period size: 60 Copynumber: 2.2 Consensus size: 59
7093474 ACTACAAAAA
7093484 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTT-AAATGTTACATTT
7093544 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTAAATGTTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTAAATGTTACATTT
7093603 TAGTCACTT
1 TAGTCACTT
7093612 ACATTATTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 22 0.32
60 46 0.68
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (59 bp):
TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTAAATGTTACATTT
Found at i:7095102 original size:72 final size:72
Alignment explanation
Indices: 7094963--7095094 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
7094953 TTATAAAATA
*
7094963 AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTATTTTTGCCCAAACTTTAAA
1 AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTAATTTTGCCCAAACTTTAAA
7095028 AAATGAT
66 AAATGAT
* * * *
7095035 AAACGTAGTTTTCTTGCTACCCTTTTCTTCTTT-AATTTTC-TTTAATTTTGCCCTAACTTT
1 AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTAATTTTGCCCAAACTTT
7095095 TCTAAAAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 18 0.33
71 6 0.11
72 31 0.56
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (72 bp):
AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTAATTTTGCCCAAACTTTAAA
AAATGAT
Found at i:7101959 original size:33 final size:34
Alignment explanation
Indices: 7101899--7101971 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
7101889 AAACTATCAT
*
7101899 ATAATAATAGTATGATAAATAAAAATGATATA-G
1 ATAATAATAGTATGATAAATAAAAATGATAAATG
* * *
7101932 ATAATAATATTATGA-ATAATGATAATGATAAATG
1 ATAATAATAGTATGATA-AATAAAAATGATAAATG
7101966 ATAATA
1 ATAATA
7101972 CATTGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 26 0.76
34 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (34 bp):
ATAATAATAGTATGATAAATAAAAATGATAAATG
Found at i:7103952 original size:44 final size:43
Alignment explanation
Indices: 7103807--7104375 Score: 237
Period size: 44 Copynumber: 12.8 Consensus size: 43
7103797 ATCTGACACG
* * * *
7103807 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCC-TAATTTTA
** * * * * ** * *
7103851 ATCCACTCTACTGAAATCTCAGGGGGATAGGATAGT-GTCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAAT-TTTA
*
7103894 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTAAATTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-AATTTTA
* * *
7103938 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATTATCGGCTTCAATCTGATGTG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATA--A-GATC--C-T-AAT-T--T-TA
* * * *
7103992 ATCTACTCCACTGTAA-CTCCAGAGAGATAAGATCATTTATTTTA
1 ATCTGCTCCACTGTAATCT-CAGGGAGATAAGATC-CTAATTTTA
* * * *
7104036 ATCCGCTCCACTATAATTTCAGGGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCC-TAATTTTA
* * *
7104080 ATCTGCTCCACTGTAATTTCAGGGAGATAGGAT--TACTGTCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAAT-T-TT-A
* *
7104124 ATCTGCTCCGCTGTAATCTTAGGGAGATAAGAT-CTGAATTTT-
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-AATTTTA
* * * * ***
7104166 TTCGGTCTACTACATTGTAACCTCAGGGAGATAAGA-CC-AGA-TGCG
1 ATCTG-CT-C--CACTGTAATCTCAGGGAGATAAGATCCTA-ATTTTA
* * * * * *
7104211 ATTTACTCTACTGTAACCTCAGAGAGATAAGATCTTAAATTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-AATTTTA
* * ** * **
7104255 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATAGT-GTCTTGG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTAAT-TTTA
* * *** *
7104298 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC-CTAATTTTA
*
7104342 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
7104376 TAAAATTCTT
Statistics
Matches: 395, Mismatches: 91, Indels: 78
0.70 0.16 0.14
Matches are distributed among these distances:
41 23 0.06
42 7 0.02
43 68 0.17
44 220 0.56
45 9 0.02
46 24 0.06
47 4 0.01
48 2 0.01
49 2 0.01
50 4 0.01
51 4 0.01
52 1 0.00
53 2 0.01
54 25 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAATTTTA
Found at i:7104305 original size:87 final size:86
Alignment explanation
Indices: 7104049--7104370 Score: 285
Period size: 87 Copynumber: 3.7 Consensus size: 86
7104039 CGCTCCACTA
* * ** *
7104049 TAATTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATTTCAGGGAGATAGGATT
1 TAATCTCAGGGAGATAAGAT-CTTAATTTTAATCTGCTCCACTGTAACCTCAGGGAGATAGGACT
* * *
7104114 ACTGTCTTCAATCTGCTCCGCTG
65 AGTGTCTT-GATCTACTCCGCTG
* * * * * *
7104137 TAATCTTAGGGAGATAAGATCTGAATTTT-TTCGGTCTACTACATTGTAACCTCAGGGAGATAAG
1 TAATCTCAGGGAGATAAGATCTTAATTTTAATCTG-CT-C--CACTGTAACCTCAGGGAGATAGG
* * **
7104201 ACCAGATG-C--GATTTACTCTACTG
62 ACTAG-TGTCTTGATCTACTCCGCTG
* * * *
7104224 TAACCTCAGAGAGATAAGATCTTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-T
1 TAATCTCAGGGAGATAAGATCTT-AATTTTAATCTGCTCCACTGTAACCTCAGGGAGATAGGACT
7104288 AGTGTCTTGGATCTACTCCGCTG
65 AGTGTCTT-GATCTACTCCGCTG
*** *
7104311 TAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
1 TAATCTCAGGGAGATAAGATCT-TAATTTTAATCTGCTCCACTGTAACCTCAGGGAGATA
7104371 AGATCTAAAA
Statistics
Matches: 183, Mismatches: 39, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
83 2 0.01
84 3 0.02
85 21 0.11
86 3 0.02
87 99 0.54
88 28 0.15
89 3 0.02
90 22 0.12
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (86 bp):
TAATCTCAGGGAGATAAGATCTTAATTTTAATCTGCTCCACTGTAACCTCAGGGAGATAGGACTA
GTGTCTTGATCTACTCCGCTG
Found at i:7104390 original size:218 final size:219
Alignment explanation
Indices: 7103986--7104392 Score: 543
Period size: 218 Copynumber: 1.9 Consensus size: 219
7103976 GCTTCAATCT
* *
7103986 GATGTGATCTACTCCACTGTAACTCCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTATA
1 GATGCGATCTACTCCACTGTAACTCCAGAGAGATAAGATCATTAATTTTAATCCGCTCCACTATA
* * * * * * * *
7104051 ATTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATTTCAGGGAGATAGGATTAC
66 ACTTCAGGGAGATAAGATACTGTACTTGAATCTACTCCACTGTAATCTCAGGGAGATAAGATTAC
* * * * * * *
7104116 TGTCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAATTTTTTCGGTCTACTACAT
131 TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTACAT
7104181 TGTAACCTCAGGGAGATAAGACCA
196 TGTAACCTCAGGGAGATAAGACCA
* * *
7104205 GATGCGATTTACTCTACTGTAAC-CTCAGAGAGATAAGATC-TTAAATTTTAATCCGCTCCACTG
1 GATGCGATCTACTCCACTGTAACTC-CAGAGAGATAAGATCATT-AATTTTAATCCGCTCCACTA
* * * *
7104268 TAACTTCAGGGAGATAGGATAGTGT-CTTGGATCTACTCCGCTGTAATCTCAGGGAGATAAGATC
64 TAACTTCAGGGAGATAAGATACTGTACTTGAATCTACTCCACTGTAATCTCAGGGAGATAAGAT-
7104332 T-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTA
128 TACTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTA
7104393 TTACCTAGGG
Statistics
Matches: 161, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
218 87 0.54
219 74 0.46
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (219 bp):
GATGCGATCTACTCCACTGTAACTCCAGAGAGATAAGATCATTAATTTTAATCCGCTCCACTATA
ACTTCAGGGAGATAAGATACTGTACTTGAATCTACTCCACTGTAATCTCAGGGAGATAAGATTAC
TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTACAT
TGTAACCTCAGGGAGATAAGACCA
Found at i:7116723 original size:50 final size:50
Alignment explanation
Indices: 7116608--7116856 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
7116598 GATAATAACA
* * ** * *
7116608 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
7116659 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7116709 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7116759 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* * *
7116814 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7116857 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.20
53 4 0.02
54 1 0.01
55 2 0.01
56 37 0.22
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7116794 original size:100 final size:104
Alignment explanation
Indices: 7116607--7116856 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 104
7116597 TGATAATAAC
** * *
7116607 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
7116672 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
7116709 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
7116773 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* * *
7116814 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7116857 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.28
103 4 0.03
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:7116972 original size:13 final size:13
Alignment explanation
Indices: 7116951--7116981 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7116941 GCTTAGATCA
*
7116951 TCATCAAATAAAT
1 TCATAAAATAAAT
7116964 TCATAAAATAAAT
1 TCATAAAATAAAT
7116977 TCATA
1 TCATA
7116982 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7117229 original size:30 final size:30
Alignment explanation
Indices: 7117194--7117251 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7117184 CCTCGACTCT
*
7117194 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
7117224 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7117252 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7124130 original size:50 final size:50
Alignment explanation
Indices: 7124006--7124254 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
7123996 GATAATAACA
* * ** * *
7124006 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7124057 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7124107 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7124157 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7124212 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7124255 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7124184 original size:100 final size:104
Alignment explanation
Indices: 7124005--7124254 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
7123995 TGATAATAAC
**
7124005 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7124070 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
7124107 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7124170 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
7124212 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7124255 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7124370 original size:13 final size:13
Alignment explanation
Indices: 7124349--7124380 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7124339 GCTTGGATCA
*
7124349 TCATCAAATAAAT
1 TCATAAAATAAAT
7124362 TCATAAAATAAAT
1 TCATAAAATAAAT
7124375 TCATAA
1 TCATAA
7124381 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7124627 original size:30 final size:30
Alignment explanation
Indices: 7124592--7124649 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7124582 CCTCGACTCT
*
7124592 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
7124622 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7124650 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7127066 original size:33 final size:34
Alignment explanation
Indices: 7127006--7127078 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
7126996 AAACTATCAT
*
7127006 ATAATAATAGTATGATAAATAAAAATGATATA-G
1 ATAATAATAGTATGATAAATAAAAATGATAAATG
* * *
7127039 ATAATAATATTATGA-ATAATGATAATGATAAATG
1 ATAATAATAGTATGATA-AATAAAAATGATAAATG
7127073 ATAATA
1 ATAATA
7127079 CATTGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 26 0.76
34 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (34 bp):
ATAATAATAGTATGATAAATAAAAATGATAAATG
Found at i:7132099 original size:46 final size:46
Alignment explanation
Indices: 7132035--7132257 Score: 275
Period size: 52 Copynumber: 4.6 Consensus size: 46
7132025 TTTGAGTACT
* * *
7132035 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
7132081 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
7132127 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
7132179 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
**
7132231 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
7132258 GCTACACTTA
Statistics
Matches: 162, Mismatches: 9, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
46 70 0.43
52 92 0.57
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:7132154 original size:98 final size:99
Alignment explanation
Indices: 7132049--7132240 Score: 314
Period size: 98 Copynumber: 1.9 Consensus size: 99
7132039 ATCAAGTGAT
*
7132049 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAAGTGATAAGTGATAGC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAAGTGATAAGTGATAGC
7132113 TTCAGCTACACTTATCTGATCAAGTGACAAGTGG
66 TTCAGCTACACTTATCTGATCAAGTGACAAGTGG
7132147 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-----AAAAGTGATAAGTG
*
7132212 ATAGCTTTAGCTACACTTATCTGATCAAG
61 ATAGCTTCAGCTACACTTATCTGATCAAG
7132241 AAACAAAGTG
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
98 45 0.52
104 41 0.48
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (99 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAAGTGATAAGTGATAGC
TTCAGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:7132265 original size:37 final size:37
Alignment explanation
Indices: 7132221--7132329 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
7132211 GATAGCTTTA
7132221 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
7132258 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
7132295 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
7132330 ATCATACGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:7138770 original size:17 final size:17
Alignment explanation
Indices: 7138741--7138773 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7138731 TTTATAAAAA
7138741 TATTATTTTAATTTTTT
1 TATTATTTTAATTTTTT
7138758 TATT-TTTTAAATTTTT
1 TATTATTTT-AATTTTT
7138774 AAACTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTATTTTAATTTTTT
Found at i:7138960 original size:10 final size:10
Alignment explanation
Indices: 7138945--7138985 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
7138935 ATTTTTAAAA
7138945 ATTAAAAATC
1 ATTAAAAATC
7138955 ATT-AAAATC
1 ATTAAAAATC
7138964 ATTAAAAAT-
1 ATTAAAAATC
* *
7138973 ATAAAAAAAC
1 ATTAAAAATC
7138983 ATT
1 ATT
7138986 TTTTAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 16 0.62
10 10 0.38
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (10 bp):
ATTAAAAATC
Found at i:7138962 original size:39 final size:39
Alignment explanation
Indices: 7138896--7138971 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
7138886 CATTTAATTA
* * *
7138896 ATTTTTTAAATTTAAAAAATCAAAAAATTATAAAAAAAT
1 ATTTTTAAAAATTAAAAAATCAAAAAATCATAAAAAAAT
* *
7138935 ATTTTTAAAAATT-AAAAATCATTAAAATCATTAAAAA
1 ATTTTTAAAAATTAAAAAATCA-AAAAATCATAAAAAA
7138972 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (39 bp):
ATTTTTAAAAATTAAAAAATCAAAAAATCATAAAAAAAT
Found at i:7139008 original size:48 final size:47
Alignment explanation
Indices: 7138893--7139009 Score: 114
Period size: 48 Copynumber: 2.5 Consensus size: 47
7138883 CATCATTTAA
* * *
7138893 TTAAT-TTTTTAAATTTAAAAAATCAAAAAATTATAAAAAAATATTTT
1 TTAATATTATTAAATTT-TAAAATCAAAAAATTATAAAAAAACATTTT
* * * *
7138940 TAAAAATTA-AAAATCATTAAAATCATTAAAAA-TATAAAAAAACATTTT
1 TTAATATTATTAAAT-TTTAAAATCA--AAAAATTATAAAAAAACATTTT
7138988 TTAATATTATTAAATTTTAAAA
1 TTAATATTATTAAATTTTAAAA
7139010 AATAATTAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
47 14 0.26
48 31 0.57
49 9 0.17
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (47 bp):
TTAATATTATTAAATTTTAAAATCAAAAAATTATAAAAAAACATTTT
Found at i:7140513 original size:17 final size:17
Alignment explanation
Indices: 7140477--7140883 Score: 191
Period size: 18 Copynumber: 22.7 Consensus size: 17
7140467 GAAACAATTT
*
7140477 TTTTTTAAACACGAAAAA
1 TTTTTAAAACACG-AAAA
* *
7140495 TTTTTAAAACATGAGAA
1 TTTTTAAAACACGAAAA
*
7140512 -TTTTAGAGACACGAAAA
1 TTTTTA-AAACACGAAAA
* *
7140529 TTCTTAAAAATACGAAAA
1 TT-TTTAAAACACGAAAA
*
7140547 TTTTTGAAAACACGGAAA
1 TTTTT-AAAACACGAAAA
* *
7140565 TTTTTAAAACACGGGAAT
1 TTTTTAAAACAC-GAAAA
*
7140583 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
* **
7140601 TTTTTGAAACA--AATTTT
1 TTTTTAAAACACGAA--AA
*
7140618 TTTTTGAAAACACAAAAA
1 TTTTT-AAAACACGAAAA
*
7140636 TTTTTAAAACACCG-GAA
1 TTTTTAAAACA-CGAAAA
**
7140653 TTTTTGAAAACACGAGGA
1 TTTTT-AAAACACGAAAA
*
7140671 TTTTTGAAACAC-AAAA
1 TTTTTAAAACACGAAAA
*
7140687 TTTTCCTTGAAAACAC-AAAT
1 -TTT--TT-AAAACACGAAAA
** * *
7140707 TTTTTTTATCACCAGAAA
1 TTTTTAAAACACGA-AAA
*
7140725 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * *
7140742 TTTTTGAAATATCG-GAA
1 TTTTTAAAACA-CGAAAA
*
7140759 TTTTTGAAAACACGGAAA
1 TTTTT-AAAACACGAAAA
*
7140777 TTTATAAAACACGGAAAA
1 TTTTTAAAACAC-GAAAA
*
7140795 TTTTTTTCTGAAAACAAGAAAA
1 ---TTTT-T-AAAACACGAAAA
* * **
7140817 -TTTTGAAATACGGGAA
1 TTTTTAAAACACGAAAA
7140833 TTTTTGAAAACACGAGAAA
1 TTTTT-AAAACACGA-AAA
7140852 TTTTTTTGAAAACACGAAAA
1 --TTTTT-AAAACACGAAAA
7140872 TTTTTAAAACAC
1 TTTTTAAAACAC
7140884 AATTTTATTT
Statistics
Matches: 296, Mismatches: 59, Indels: 69
0.70 0.14 0.16
Matches are distributed among these distances:
15 2 0.01
16 18 0.06
17 96 0.32
18 120 0.41
19 16 0.05
20 14 0.05
21 18 0.06
22 6 0.02
23 6 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:7140645 original size:71 final size:70
Alignment explanation
Indices: 7140450--7140750 Score: 258
Period size: 71 Copynumber: 4.3 Consensus size: 70
7140440 TTTAAAAAAA
* **
7140450 AAAACACGAAGATTTTTGAAAC-AATTTTTTTTT--AAACACGAAAAATTTTTAAAACATGAGAA
1 AAAACACGAAAATTTTTGAAACAAATTTTTTTTTGAAAACAC-AAAAATTTTTAAAACACCAGAA
*
7140512 TTTTAG
65 TTTTTG
* ** * ** **
7140518 -AGACACGAAAATTCTTAAAAATACGAAA---ATTTTTGAAAACACGGAAATTTTTAAAACACGG
1 AAAACACGAAAATT-TT-TGAA-AC-AAATTTTTTTTTGAAAACACAAAAATTTTTAAAACACCA
7140579 GAATTTTTTG
62 GAA-TTTTTG
* *
7140589 AAAACATGAAAATTTTTGAAACAAATTTTTTTTTGAAAACACAAAAATTTTTAAAACACCGGAAT
1 AAAACACGAAAATTTTTGAAACAAATTTTTTTTTGAAAACACAAAAATTTTTAAAACACCAGAAT
7140654 TTTTG
66 TTTTG
** * ** * ** *
7140659 AAAACACGAGGATTTTTGAAACACAAAATTTTCCTTGAAAACAC-AAATTTTTTTTATCACCAGA
1 AAAACACGAAAATTTTTG-AA-ACAAATTTTTTTTTGAAAACACAAAAATTTTTAAAACACCAGA
*
7140723 AATTTTG
64 ATTTTTG
7140730 AAAACACGAAAATTTTTGAAA
1 AAAACACGAAAATTTTTGAAA
7140751 TATCGGAATT
Statistics
Matches: 187, Mismatches: 32, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
67 11 0.06
68 5 0.03
69 10 0.05
70 45 0.24
71 84 0.45
72 32 0.17
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (70 bp):
AAAACACGAAAATTTTTGAAACAAATTTTTTTTTGAAAACACAAAAATTTTTAAAACACCAGAAT
TTTTG
Found at i:7140843 original size:57 final size:55
Alignment explanation
Indices: 7140760--7140883 Score: 153
Period size: 56 Copynumber: 2.2 Consensus size: 55
7140750 ATATCGGAAT
7140760 TTTTGAAAACACGGAAATTTATAAAACACG-GAAAATTTTTTTCTGAAAACAAGAAAA
1 TTTTGAAAACACGGAAATTTATAAAACACGAG-AAA-TTTTTT-TGAAAACAAGAAAA
* * * *
7140817 TTTTG-AAATACGGGAATTTTTGAAAACACGAGAAATTTTTTTGAAAACACGAAAA
1 TTTTGAAAACACGGAAATTTAT-AAAACACGAGAAATTTTTTTGAAAACAAGAAAA
*
7140872 TTTTTAAAACAC
1 TTTTGAAAACAC
7140884 AATTTTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
55 17 0.29
56 24 0.41
57 16 0.28
58 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (55 bp):
TTTTGAAAACACGGAAATTTATAAAACACGAGAAATTTTTTTGAAAACAAGAAAA
Found at i:7140855 original size:35 final size:34
Alignment explanation
Indices: 7140483--7140855 Score: 178
Period size: 35 Copynumber: 10.4 Consensus size: 34
7140473 ATTTTTTTTT
* * * *
7140483 AAACACGAAAAATTTTTAAAACATGAGAATTTTAG-
1 AAACACG-AAAA-TTTTGAAACACGGGAATTTTTGA
* * * **
7140518 AGACACGAAAATTCTTAAAAATACGAAAATTTTTGA
1 AAACACGAAAATT-TT-GAAACACGGGAATTTTTGA
* *
7140554 AAACACGGAAATTTTTAAAACACGGGAATTTTTTGA
1 AAACAC-GAAAATTTTGAAACACGGGAA-TTTTTGA
* ******
7140590 AAACATGAAAATTTTTGAAACAAATTTTTTTTTGA
1 AAACACGAAAA-TTTTGAAACACGGGAATTTTTGA
* * *
7140625 AAACACAAAAATTTTTAAAACACCGGAATTTTTGA
1 AAACACGAAAA-TTTTGAAACACGGGAATTTTTGA
* * **
7140660 AAACACGAGGATTTTTGAAACAC-AAAATTTTCCTTGA
1 AAACACGA-AAATTTTGAAACACGGGAA-TTT--TTGA
* ** * ** *
7140697 AAACAC-AAATTTTTTTTATCACCAGAAATTTTGA
1 AAACACGAAA-ATTTTGAAACACGGGAATTTTTGA
*
7140731 AAACACGAAAATTTTTGAAATATC-GGAATTTTTGA
1 AAACACGAAAA-TTTTGAAACA-CGGGAATTTTTGA
* * *
7140766 AAACACGGAAATTTATAAAACACGGAAAATTTTTTTCTGA
1 AAACACGAAAATTT-TGAAACACGG-GAA---TTTT-TGA
* *
7140806 AAACAAGAAAATTTTGAAATACGGGAATTTTTGA
1 AAACACGAAAATTTTGAAACACGGGAATTTTTGA
7140840 AAACACGAGAAATTTT
1 AAACACGA-AAATTTT
7140856 TTTGAAAACA
Statistics
Matches: 258, Mismatches: 57, Indels: 46
0.71 0.16 0.13
Matches are distributed among these distances:
33 2 0.01
34 32 0.12
35 132 0.51
36 44 0.17
37 19 0.07
38 2 0.01
39 12 0.05
40 15 0.06
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (34 bp):
AAACACGAAAATTTTGAAACACGGGAATTTTTGA
Found at i:7140858 original size:21 final size:20
Alignment explanation
Indices: 7140759--7140876 Score: 83
Period size: 21 Copynumber: 6.2 Consensus size: 20
7140749 AATATCGGAA
*
7140759 TTTTTGAAAACACGGAAA--
1 TTTTTGAAAACACGAAAATT
*
7140777 TTTAT-AAAACACGGAAAATTT
1 TTTTTGAAAACAC-GAAAA-TT
*
7140798 TTTTCTGAAAACAAGAAAA--
1 TTTT-TGAAAACACGAAAATT
* **
7140817 -TTTTG-AAATACGGGAA--
1 TTTTTGAAAACACGAAAATT
7140833 TTTTTGAAAACACGAGAAATT
1 TTTTTGAAAACACGA-AAATT
7140854 TTTTTGAAAACACGAAAATT
1 TTTTTGAAAACACGAAAATT
7140874 TTT
1 TTT
7140877 AAAACACAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
16 7 0.09
17 14 0.18
18 17 0.22
19 2 0.03
20 8 0.10
21 18 0.23
22 6 0.08
23 6 0.08
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (20 bp):
TTTTTGAAAACACGAAAATT
Found at i:7141021 original size:16 final size:17
Alignment explanation
Indices: 7140979--7141025 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
7140969 TTATTATTAT
7140979 TTTTGAAACACGAGAAA
1 TTTTGAAACACGAGAAA
*
7140996 TTTTGAAAACATGA-AAA
1 TTTTG-AAACACGAGAAA
7141013 TTTTGAAACACGA
1 TTTTGAAACACGA
7141026 TTAGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 7 0.26
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (17 bp):
TTTTGAAACACGAGAAA
Found at i:7141540 original size:13 final size:13
Alignment explanation
Indices: 7141522--7141547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7141512 CCTTTTCCCC
7141522 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
7141535 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
7141548 GCTTGCTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:7141859 original size:10 final size:10
Alignment explanation
Indices: 7141829--7141885 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 10
7141819 TTTTGTTTTA
*
7141829 TTTTTT-TTA
1 TTTTTTCTTC
*
7141838 TTTTTT-TCC
1 TTTTTTCTTC
*
7141847 TTTCTTCTTC
1 TTTTTTCTTC
7141857 TTTTTTCTTC
1 TTTTTTCTTC
7141867 -TTTTTCTT-
1 TTTTTTCTTC
7141875 TTTTTTCTTC
1 TTTTTTCTTC
7141885 T
1 T
7141886 CCTTCGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 28 0.70
10 12 0.30
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:7142419 original size:30 final size:29
Alignment explanation
Indices: 7142382--7142558 Score: 151
Period size: 30 Copynumber: 6.0 Consensus size: 29
7142372 TAAACGTAGT
* *
7142382 AAAAGTTTTGGGGCCGAAATGTAATTTTG
1 AAAAGTTTTGGGGTCAAAATGTAATTTTG
** * *
7142411 ATAAAGTTTAAGGGTCAAAATATAA-TTTC
1 A-AAAGTTTTGGGGTCAAAATGTAATTTTG
* * *
7142440 AAGAAATTTTAAGGGTCAAAATGTAATTTAG
1 AA-AAGTTTT-GGGGTCAAAATGTAATTTTG
**
7142471 AAAA-TTTTAGGGGTTGAAATGTAATTTTG
1 AAAAGTTTT-GGGGTCAAAATGTAATTTTG
*
7142500 AAAAAGTTTAGGGGTCAAAATGTAATTTTAG
1 -AAAAGTTTTGGGGTCAAAATGTAATTTT-G
* * *
7142531 AAAAATTTAGGGGTCAAAATGCAATTTT
1 AAAAGTTTTGGGGTCAAAATGTAATTTT
7142559 TTAAACACGA
Statistics
Matches: 121, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 31 0.26
30 81 0.67
31 8 0.07
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (29 bp):
AAAAGTTTTGGGGTCAAAATGTAATTTTG
Found at i:7142551 original size:60 final size:60
Alignment explanation
Indices: 7142382--7142558 Score: 198
Period size: 60 Copynumber: 3.0 Consensus size: 60
7142372 TAAACGTAGT
* * * * * *
7142382 AAAAGTTTTGGGGCCGAAATGTAATTTT-GATAAAGTTTAAGGGTCAAAATATAA-TTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAGA-AAAATTTAGGGGTCAAAATGTAATTTTCA
* * * ** *
7142441 AGAAATTTTAAGGGTCAAAATGTAA-TTTAGAAAATTTTAGGGGTTGAAATGTAATTTTGA
1 A-AAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGTAATTTTCA
*
7142501 AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGCAATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGTAATTTT
7142559 TTAAACACGA
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
59 43 0.44
60 54 0.56
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (60 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGTAATTTTCA
Found at i:7144252 original size:21 final size:21
Alignment explanation
Indices: 7144228--7144274 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
7144218 AAAATAATGG
* *
7144228 AATATATATATAATAATA-AAA
1 AATATAT-TATAACAAAATAAA
7144249 AATAT-TTATAACAAAATAAA
1 AATATATTATAACAAAATAAA
7144269 AATATA
1 AATATA
7144275 AAAAGGGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATATTATAACAAAATAAA
Found at i:7144253 original size:19 final size:20
Alignment explanation
Indices: 7144231--7144274 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7144221 ATAATGGAAT
* *
7144231 ATATATATAATAATA-AAAA
1 ATATATATAACAAAATAAAA
*
7144250 ATATTTATAACAAAATAAAA
1 ATATATATAACAAAATAAAA
7144270 ATATA
1 ATATA
7144275 AAAAGGGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATATATAACAAAATAAAA
Found at i:7144519 original size:3 final size:3
Alignment explanation
Indices: 7144511--7144542 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7144501 CGTACATGAA
7144511 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7144543 CTTTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7146453 original size:26 final size:26
Alignment explanation
Indices: 7146404--7146469 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
7146394 CATTCCAACC
* *
7146404 CACAGCTCATGTAAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
7146430 CAC-GACTCGTGTGAGCAGACCCATTT
1 CACAG-CTCGTGTGAGCAGACCCATTT
7146456 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
7146470 ACACTATTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 1 0.03
26 34 0.94
27 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:7146608 original size:16 final size:17
Alignment explanation
Indices: 7146587--7146627 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
7146577 AATGGCATGA
7146587 TATTTATACAATTGGG-
1 TATTTATACAATTGGGT
7146603 TATTTATACAATTGGGT
1 TATTTATACAATTGGGT
7146620 TATTTATA
1 TATTTATA
7146628 ATCCCAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.49
Consensus pattern (17 bp):
TATTTATACAATTGGGT
Found at i:7146945 original size:18 final size:18
Alignment explanation
Indices: 7146922--7146958 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7146912 TCATCATTAT
7146922 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
7146940 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
7146958 T
1 T
7146959 CAACATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:7147156 original size:16 final size:17
Alignment explanation
Indices: 7147130--7147162 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7147120 TACATACATT
7147130 TTTTTTAAAAAAAGAAA
1 TTTTTTAAAAAAAGAAA
7147147 TTTTTT-AAAAAAGAAA
1 TTTTTTAAAAAAAGAAA
7147163 AAAAACCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTTTTAAAAAAAGAAA
Found at i:7148812 original size:26 final size:26
Alignment explanation
Indices: 7148749--7148814 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
7148739 CATTCCAACC
* *
7148749 CACAGCTCATGTAAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
* *
7148775 CACAACTTGTGTGAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
7148801 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
7148815 ACACTATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:7150070 original size:27 final size:25
Alignment explanation
Indices: 7150039--7150108 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
7150029 TATTTATTTG
7150039 ATTAAATTCTAGAATAAAAATTTAAAT
1 ATTAAATT-TAGAATAAAAA-TTAAAT
* * *
7150066 ATTAAAATTAAGTATATAAATTAAAT
1 ATT-AAATTTAGAATAAAAATTAAAT
*
7150092 CTTAAATTT-GAATAAAA
1 ATTAAATTTAGAATAAAA
7150109 TATAGAGATC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 8 0.23
27 11 0.31
28 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTAAATTTAGAATAAAAATTAAAT
Found at i:7150979 original size:20 final size:20
Alignment explanation
Indices: 7150935--7150980 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7150925 TAAGCTGAAA
*
7150935 CTTTTAAAAATAAATATTTT
1 CTTTTAAAAATAAATATTTG
* * *
7150955 ATTTTAAAAATCAGTATTTG
1 CTTTTAAAAATAAATATTTG
7150975 CTTTTA
1 CTTTTA
7150981 TCAAACAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (20 bp):
CTTTTAAAAATAAATATTTG
Found at i:7152458 original size:20 final size:20
Alignment explanation
Indices: 7152419--7152461 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7152409 AATGTAAATA
7152419 TTAAAATATTTTAAATATTT
1 TTAAAATATTTTAAATATTT
*
7152439 TTAAATATATTTTAGA-ATTT
1 TTAAA-ATATTTTAAATATTT
7152459 TTA
1 TTA
7152462 GAATTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAAAATATTTTAAATATTT
Found at i:7158593 original size:13 final size:13
Alignment explanation
Indices: 7158577--7158601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7158567 AAAAATATTT
7158577 TAAAAATAAAAAA
1 TAAAAATAAAAAA
7158590 TAAAAATAAAAA
1 TAAAAATAAAAA
7158602 TATATATTTA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:7161285 original size:20 final size:18
Alignment explanation
Indices: 7161258--7161305 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7161248 GTTCACGTGT
7161258 ATATATATAGAGTATATAA
1 ATATATATA-AGTATATAA
* *
7161277 ATAATATATAAGTATGTAT
1 AT-ATATATAAGTATATAA
7161296 ATATATATAA
1 ATATATATAA
7161306 AATAAGCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (18 bp):
ATATATATAAGTATATAA
Found at i:7162161 original size:3 final size:3
Alignment explanation
Indices: 7162153--7162177 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7162143 TTTCGAAAGA
7162153 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7162178 TCAATGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7163061 original size:5 final size:5
Alignment explanation
Indices: 7163053--7163084 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
7163043 CCATTCTTCG
7163053 TATTT TATTT TA-TT TA-TT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATT
7163085 ATATATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:7163076 original size:18 final size:19
Alignment explanation
Indices: 7163053--7163094 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
7163043 CCATTCTTCG
*
7163053 TATTTTATTTTATT-TATT
1 TATTTTATTTTATTATATA
7163071 TATTTTATTTTATTATATA
1 TATTTTATTTTATTATATA
7163090 TATTT
1 TATTT
7163095 AAAAATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTTTATTTTATTATATA
Found at i:7163086 original size:13 final size:13
Alignment explanation
Indices: 7163056--7163080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7163046 TTCTTCGTAT
7163056 TTTATTTTATTTA
1 TTTATTTTATTTA
7163069 TTTATTTTATTT
1 TTTATTTTATTT
7163081 TATTATATAT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:7163345 original size:32 final size:31
Alignment explanation
Indices: 7163302--7163367 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
7163292 GCTCTTAAAC
*
7163302 TTTTCTAAATTTAT-ATTTTGACCCCTAACTTT
1 TTTTCTAAATTT-TCATCTTGACCCCTAA-TTT
*
7163334 TTTTTTAAATTTTCATCTTGACCCCTAATTT
1 TTTTCTAAATTTTCATCTTGACCCCTAATTT
7163365 TTT
1 TTT
7163368 ATAAATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.23, C:0.18, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTTCTAAATTTTCATCTTGACCCCTAATTT
Found at i:7164249 original size:9 final size:8
Alignment explanation
Indices: 7164235--7164273 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
7164225 CCAGCAGAAA
7164235 AAAAAAGAG
1 AAAAAA-AG
7164244 AAAAAAAG
1 AAAAAAAG
7164252 AAGAAAAAG
1 AA-AAAAAG
7164261 -AAAAAAG
1 AAAAAAAG
7164268 AAAAAA
1 AAAAAA
7164274 GGGATTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.21
8 10 0.36
9 12 0.43
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:7164250 original size:13 final size:12
Alignment explanation
Indices: 7164232--7164273 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
7164222 AGCCCAGCAG
7164232 AAAAAAAAAGAGA
1 AAAAAAAAAGA-A
*
7164245 AAAAAAGAAGAA
1 AAAAAAAAAGAA
7164257 AAAGAAAAAAGAA
1 AAA-AAAAAAGAA
7164270 AAAA
1 AAAA
7164274 GGGATTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:7164618 original size:19 final size:18
Alignment explanation
Indices: 7164564--7164630 Score: 100
Period size: 17 Copynumber: 3.7 Consensus size: 18
7164554 GTTAAACACG
7164564 ATTCTCGTGTTTTTTTAA
1 ATTCTCGTGTTTTTTTAA
*
7164582 ATTCTCGTG-TTATTTAA
1 ATTCTCGTGTTTTTTTAA
7164599 ATTCTCGTGTTTTTTTTAA
1 ATTCTCGTG-TTTTTTTAA
*
7164618 ATTCTCATGTTTT
1 ATTCTCGTGTTTT
7164631 AATAGAATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.36
18 13 0.30
19 15 0.34
ACGTcount: A:0.18, C:0.12, G:0.10, T:0.60
Consensus pattern (18 bp):
ATTCTCGTGTTTTTTTAA
Found at i:7164770 original size:17 final size:18
Alignment explanation
Indices: 7164747--7164999 Score: 187
Period size: 18 Copynumber: 13.8 Consensus size: 18
7164737 CTTAAAAAAA
7164747 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
7164764 TCATGTTTTCAGAAAAATT
1 TCGTGTTTTCA-AAAATTT
*
7164783 TCTTGTGTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
* * * **
7164802 CCGGGTTTTTTAAAAAAAAT
1 TC--GTGTTTTCAAAAATTT
*
7164822 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
7164840 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
7164857 TCGTGTTTTC-AAAA-TT
1 TCGTGTTTTCAAAAATTT
7164873 TCAGTG-TTTCAAAAATTT
1 TC-GTGTTTTCAAAAATTT
7164891 TCGTGTTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
* *
7164910 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTTCAAAAATTT
* * *
7164929 CCGT-ATTTCGAAAATTT
1 TCGTGTTTTCAAAAATTT
*
7164946 TCTTGTTTTCAAAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
7164967 TCCGTG-TTTCATAAATTT
1 T-CGTGTTTTCAAAAATTT
*
7164985 CCGTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
7165000 AAATTCTCGT
Statistics
Matches: 184, Mismatches: 34, Indels: 35
0.73 0.13 0.14
Matches are distributed among these distances:
16 7 0.04
17 48 0.26
18 55 0.30
19 33 0.18
20 24 0.13
21 14 0.08
22 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:7164871 original size:34 final size:34
Alignment explanation
Indices: 7164821--7164904 Score: 134
Period size: 34 Copynumber: 2.4 Consensus size: 34
7164811 TTAAAAAAAA
7164821 TTCGTGTTTTCAAAAATTCTCA-TGTTTCAAAAATC
1 TTCGTGTTTTC-AAAATT-TCAGTGTTTCAAAAATC
*
7164856 TTCGTGTTTTCAAAATTTCAGTGTTTCAAAAATT
1 TTCGTGTTTTCAAAATTTCAGTGTTTCAAAAATC
7164890 TTCGTGTTTTCAAAA
1 TTCGTGTTTTCAAAA
7164905 AATTTCCCGT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 3 0.06
34 33 0.70
35 11 0.23
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (34 bp):
TTCGTGTTTTCAAAATTTCAGTGTTTCAAAAATC
Found at i:7164965 original size:21 final size:22
Alignment explanation
Indices: 7164939--7165022 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 22
7164929 CCGTATTTCG
*
7164939 AAAATTTTCTTGT-TTTCAAAA
1 AAAATTTTCTCGTCTTTCAAAA
*
7164960 AAAATTTTC-CGTGTTTC---A
1 AAAATTTTCTCGTCTTTCAAAA
* *
7164978 TAAA-TTTC-CGTGTTTTCAAAA
1 AAAATTTTCTCGT-CTTTCAAAA
7164999 AAAA--TTCTCGTCTTTCAAAA
1 AAAATTTTCTCGTCTTTCAAAA
7165019 AAAA
1 AAAA
7165023 ATCCTTGTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
17 7 0.13
18 8 0.15
20 17 0.33
21 20 0.38
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAATTTTCTCGTCTTTCAAAA
Found at i:7165080 original size:21 final size:21
Alignment explanation
Indices: 7165046--7165144 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 21
7165036 GTATTTTATC
*
7165046 CAAATTTTTATGTTTTCAAAAA
1 CAAA-TTTTGTGTTTTCAAAAA
7165068 CAAATTTTGTGTTTT----AA
1 CAAATTTTGTGTTTTCAAAAA
7165085 -AAATTTTCGTG-TTTCAAAAA
1 CAAATTTT-GTGTTTTCAAAAA
* * *
7165105 GAAAATTCGTGTTTTCAAAAA
1 CAAATTTTGTGTTTTCAAAAA
* * *
7165126 AAAATCTCGTG-TTTCAAAA
1 CAAATTTTGTGTTTTCAAAA
7165145 TTTTCGTGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
16 10 0.16
17 5 0.08
20 13 0.20
21 32 0.50
22 4 0.06
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (21 bp):
CAAATTTTGTGTTTTCAAAAA
Found at i:7165090 original size:16 final size:17
Alignment explanation
Indices: 7165069--7165181 Score: 68
Period size: 16 Copynumber: 6.3 Consensus size: 17
7165059 TTTCAAAAAC
*
7165069 AAATTTT-GTGTTTTAA
1 AAATTTTCGTGTTTCAA
7165085 AAATTTTCGTGTTTCAAAA
1 AAATTTTCGTGTTTC--AA
**
7165104 AGAAAATTCGTGTTTTCAAAAA
1 A-AATTTTCGTG-TTTC---AA
* *
7165126 AAAATCTCGTGTTTC-A
1 AAATTTTCGTGTTTCAA
*
7165142 AAATTTTCGTGTTTTTAA
1 AAATTTTCGTG-TTTCAA
* *
7165160 AAAATTTCGTGTTTCTA
1 AAATTTTCGTGTTTCAA
7165177 AAATT
1 AAATT
7165182 CTTTTATTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
16 17 0.22
17 17 0.22
18 11 0.14
19 3 0.04
20 12 0.16
21 12 0.16
22 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:7165098 original size:38 final size:38
Alignment explanation
Indices: 7165047--7165125 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
7165037 TATTTTATCC
* * *
7165047 AAATTTTTATGTTTTCAAAAACAAATTTTGTGTTTT-AA
1 AAATTTTCATG-TTTCAAAAACAAAATTCGTGTTTTCAA
* *
7165085 AAATTTTCGTGTTTCAAAAAGAAAATTCGTGTTTTCAA
1 AAATTTTCATGTTTCAAAAACAAAATTCGTGTTTTCAA
7165123 AAA
1 AAA
7165126 AAAATCTCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 21 0.60
38 14 0.40
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (38 bp):
AAATTTTCATGTTTCAAAAACAAAATTCGTGTTTTCAA
Found at i:7165115 original size:20 final size:19
Alignment explanation
Indices: 7165090--7165144 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 19
7165080 TTTAAAAATT
7165090 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTCAAAAA-AAAA
7165110 TTCGTGTTTTCAAAAAAAAA
1 TTCGTG-TTTCAAAAAAAAA
7165130 TCTCGTGTTTCAAAA
1 T-TCGTGTTTCAAAA
7165145 TTTTCGTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (19 bp):
TTCGTGTTTCAAAAAAAAA
Found at i:7165144 original size:18 final size:18
Alignment explanation
Indices: 7165059--7165179 Score: 77
Period size: 18 Copynumber: 6.5 Consensus size: 18
7165049 ATTTTTATGT
*
7165059 TTTCAAAAACAAATTTTGTG
1 TTTC-AAAA-AAATTTCGTG
* *
7165079 TTT-TAAAAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
*
7165096 TTTCAAAAAGAAAATTCGTG
1 TTTC-AAAA-AAATTTCGTG
*
7165116 TTTTCAAAAAAAAATCTCGTG
1 -TTTC--AAAAAAATTTCGTG
*
7165137 TTTC--AAAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
**
7165153 TTTTTAAAAAATTTCGTG
1 TTTCAAAAAAATTTCGTG
*
7165171 TTTCTAAAA
1 TTTCAAAAA
7165180 TTCTTTTATT
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
16 13 0.16
17 11 0.14
18 22 0.27
19 3 0.04
20 15 0.19
21 12 0.15
22 5 0.06
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTCAAAAAAATTTCGTG
Found at i:7165151 original size:37 final size:36
Alignment explanation
Indices: 7165110--7165216 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 36
7165100 AAAAAGAAAA
7165110 TTCGTGTTTTCAAAAAAAAATCTCGTGTTTCAAAATT-
1 TTCGTGTTTT-AAAAAAAAAT-TCGTGTTTCAAAATTC
* *
7165147 TTCGTGTTTT-TAAAAAATTTCGTGTTTCTAAAATTC
1 TTCGTGTTTTAAAAAAAAATTCGTGTTTC-AAAATTC
* *
7165183 TT-TTATTTTTAAAAAAAAATTCGTGTTTTCAAAA
1 TTCGT-GTTTTAAAAAAAAATTCGTG-TTTCAAAA
7165217 AAAGAAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
34 9 0.15
35 14 0.24
36 6 0.10
37 26 0.44
38 4 0.07
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (36 bp):
TTCGTGTTTTAAAAAAAAATTCGTGTTTCAAAATTC
Found at i:7165170 original size:34 final size:35
Alignment explanation
Indices: 7165123--7165216 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 35
7165113 GTGTTTTCAA
* *
7165123 AAAAAAATCTCGTGTTTCAAAATT-TTCGTGTTTTT
1 AAAAAAATTTCGTGTTTCAAAATTCTT-GTATTTTT
*
7165158 -AAAAAATTTCGTGTTTCTAAAATTCTTTTATTTTT
1 AAAAAAATTTCGTGTTTC-AAAATTCTTGTATTTTT
*
7165193 AAAAAAAAATTCGTGTTTTCAAAA
1 -AAAAAAATTTCGTG-TTTCAAAA
7165217 AAAGAAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
34 16 0.32
35 12 0.24
36 2 0.04
37 16 0.32
38 4 0.08
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.45
Consensus pattern (35 bp):
AAAAAAATTTCGTGTTTCAAAATTCTTGTATTTTT
Found at i:7165628 original size:14 final size:14
Alignment explanation
Indices: 7165609--7165645 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7165599 CTACAAATAC
7165609 AAATATATATGTAT
1 AAATATATATGTAT
*
7165623 AAATATAAAT-TAT
1 AAATATATATGTAT
7165636 AAA-ATATATG
1 AAATATATATG
7165646 CTCATATACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.25
13 6 0.30
14 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (14 bp):
AAATATATATGTAT
Found at i:7168858 original size:36 final size:36
Alignment explanation
Indices: 7168812--7168890 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
7168802 ACTTCACAAC
* *
7168812 TTAGCCGTTCCTTCTATTTCTTCTTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
*
7168848 TTAGCTGTTCCTTCTGTTTCTTCCTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
7168884 TTAGCTG
1 TTAGCTG
7168891 CTTCACAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.54
Consensus pattern (36 bp):
TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
Found at i:7168873 original size:13 final size:13
Alignment explanation
Indices: 7168855--7168880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7168845 AGTTTAGCTG
7168855 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
7168868 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
7168881 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:7173076 original size:13 final size:13
Alignment explanation
Indices: 7173058--7173083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7173048 CCTTTTCCCC
7173058 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
7173071 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
7173084 GCTTGCTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:7173395 original size:10 final size:10
Alignment explanation
Indices: 7173365--7173421 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 10
7173355 TTTTGTTTTA
*
7173365 TTTTTT-TTA
1 TTTTTTCTTC
*
7173374 TTTTTT-TCC
1 TTTTTTCTTC
*
7173383 TTTCTTCTTC
1 TTTTTTCTTC
7173393 TTTTTTCTTC
1 TTTTTTCTTC
7173403 -TTTTTCTT-
1 TTTTTTCTTC
7173411 TTTTTTCTTC
1 TTTTTTCTTC
7173421 T
1 T
7173422 CCTTCGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 28 0.70
10 12 0.30
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:7173957 original size:30 final size:29
Alignment explanation
Indices: 7173920--7174096 Score: 151
Period size: 30 Copynumber: 6.0 Consensus size: 29
7173910 TAAACGTAGT
* *
7173920 AAAAGTTTTGGGGCCGAAATGTAATTTTG
1 AAAAGTTTTGGGGTCAAAATGTAATTTTG
** * *
7173949 ATAAAGTTTAAGGGTCAAAATATAA-TTTC
1 A-AAAGTTTTGGGGTCAAAATGTAATTTTG
* * *
7173978 AAGAAATTTTAAGGGTCAAAATGTAATTTAG
1 AA-AAGTTTT-GGGGTCAAAATGTAATTTTG
**
7174009 AAAA-TTTTAGGGGTTGAAATGTAATTTTG
1 AAAAGTTTT-GGGGTCAAAATGTAATTTTG
*
7174038 AAAAAGTTTAGGGGTCAAAATGTAATTTTAG
1 -AAAAGTTTTGGGGTCAAAATGTAATTTT-G
* * *
7174069 AAAAATTTAGGGGTCAAAATGCAATTTT
1 AAAAGTTTTGGGGTCAAAATGTAATTTT
7174097 TTAAACACGA
Statistics
Matches: 121, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 31 0.26
30 81 0.67
31 8 0.07
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (29 bp):
AAAAGTTTTGGGGTCAAAATGTAATTTTG
Found at i:7174089 original size:60 final size:60
Alignment explanation
Indices: 7173920--7174096 Score: 198
Period size: 60 Copynumber: 3.0 Consensus size: 60
7173910 TAAACGTAGT
* * * * * *
7173920 AAAAGTTTTGGGGCCGAAATGTAATTTT-GATAAAGTTTAAGGGTCAAAATATAA-TTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAGA-AAAATTTAGGGGTCAAAATGTAATTTTCA
* * * ** *
7173979 AGAAATTTTAAGGGTCAAAATGTAA-TTTAGAAAATTTTAGGGGTTGAAATGTAATTTTGA
1 A-AAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGTAATTTTCA
*
7174039 AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGCAATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGTAATTTT
7174097 TTAAACACGA
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
59 43 0.44
60 54 0.56
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (60 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAATTTAGGGGTCAAAATGTAATTTTCA
Found at i:7175789 original size:21 final size:21
Alignment explanation
Indices: 7175765--7175811 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
7175755 AAAATAATGG
* *
7175765 AATATATATATAATAATA-AAA
1 AATATAT-TATAACAAAATAAA
7175786 AATAT-TTATAACAAAATAAA
1 AATATATTATAACAAAATAAA
7175806 AATATA
1 AATATA
7175812 AAAAGGGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATATTATAACAAAATAAA
Found at i:7175790 original size:19 final size:20
Alignment explanation
Indices: 7175768--7175811 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7175758 ATAATGGAAT
* *
7175768 ATATATATAATAATA-AAAA
1 ATATATATAACAAAATAAAA
*
7175787 ATATTTATAACAAAATAAAA
1 ATATATATAACAAAATAAAA
7175807 ATATA
1 ATATA
7175812 AAAAGGGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATATATAACAAAATAAAA
Found at i:7176056 original size:3 final size:3
Alignment explanation
Indices: 7176048--7176076 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7176038 CGTACATGAA
7176048 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7176077 CTTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7177989 original size:26 final size:26
Alignment explanation
Indices: 7177940--7178005 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
7177930 CATTCCAACC
* *
7177940 CACAGCTCATGTAAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
7177966 CAC-GACTCGTGTGAGCAGACCCATTT
1 CACAG-CTCGTGTGAGCAGACCCATTT
7177992 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
7178006 ACACTATTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 1 0.03
26 34 0.94
27 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:7178144 original size:16 final size:17
Alignment explanation
Indices: 7178123--7178163 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
7178113 AATGGCATGA
7178123 TATTTATACAATTGGG-
1 TATTTATACAATTGGGT
7178139 TATTTATACAATTGGGT
1 TATTTATACAATTGGGT
7178156 TATTTATA
1 TATTTATA
7178164 ATCCCAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.49
Consensus pattern (17 bp):
TATTTATACAATTGGGT
Found at i:7178481 original size:18 final size:18
Alignment explanation
Indices: 7178458--7178494 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7178448 TCATCATTAT
7178458 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
7178476 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
7178494 T
1 T
7178495 CAACATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:7178685 original size:18 final size:17
Alignment explanation
Indices: 7178665--7178698 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7178655 TACATACATT
7178665 TTTTTTAAAAAAAGAAA
1 TTTTTTAAAAAAAGAAA
7178682 TTTTTTAAAAAAAGAAA
1 TTTTTTAAAAAAAGAAA
7178699 AAAAACCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTTTTAAAAAAAGAAA
Found at i:7180348 original size:26 final size:26
Alignment explanation
Indices: 7180285--7180350 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
7180275 CATTCCAACC
* *
7180285 CACAGCTCATGTAAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
* *
7180311 CACAACTTGTGTGAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
7180337 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
7180351 ACACTATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:7181606 original size:27 final size:25
Alignment explanation
Indices: 7181575--7181644 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
7181565 TATTTATTTG
7181575 ATTAAATTCTAGAATAAAAATTTAAAT
1 ATTAAATT-TAGAATAAAAA-TTAAAT
* * *
7181602 ATTAAAATTAAGTATATAAATTAAAT
1 ATT-AAATTTAGAATAAAAATTAAAT
*
7181628 CTTAAATTT-GAATAAAA
1 ATTAAATTTAGAATAAAA
7181645 TATAGAGATC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 8 0.23
27 11 0.31
28 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTAAATTTAGAATAAAAATTAAAT
Found at i:7182515 original size:20 final size:20
Alignment explanation
Indices: 7182471--7182516 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7182461 TAAGCTGAAA
*
7182471 CTTTTAAAAATAAATATTTT
1 CTTTTAAAAATAAATATTTG
* * *
7182491 ATTTTAAAAATCAGTATTTG
1 CTTTTAAAAATAAATATTTG
7182511 CTTTTA
1 CTTTTA
7182517 TCAAACAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (20 bp):
CTTTTAAAAATAAATATTTG
Found at i:7183583 original size:36 final size:36
Alignment explanation
Indices: 7183537--7183615 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
7183527 ACTTCACAAC
* *
7183537 TTAGCCGTTCCTTCTATTTCTTCTTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
*
7183573 TTAGCTGTTCCTTCTGTTTCTTCCTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
7183609 TTAGCTG
1 TTAGCTG
7183616 CTTCACAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.54
Consensus pattern (36 bp):
TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
Found at i:7183598 original size:13 final size:13
Alignment explanation
Indices: 7183580--7183605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7183570 AGTTTAGCTG
7183580 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
7183593 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
7183606 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:7189531 original size:120 final size:120
Alignment explanation
Indices: 7189365--7189888 Score: 996
Period size: 120 Copynumber: 4.4 Consensus size: 120
7189355 TTTGATGTTC
*
7189365 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
7189430 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
66 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
7189485 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA-TTTACAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
* *
7189549 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
*
7189604 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
7189669 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
66 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
7189724 AAATTATATATTTTAATTAAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
1 AAATTATATATTTTAATT-AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
7189789 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
65 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
7189845 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
7189889 TAAATATGAT
Statistics
Matches: 395, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 116 0.29
120 159 0.40
121 120 0.30
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
Found at i:7190078 original size:44 final size:45
Alignment explanation
Indices: 7190013--7190103 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7190003 ACCTCTATTC
* * *
7190013 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
7190057 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
7190102 CA
1 CA
7190104 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:7190105 original size:16 final size:16
Alignment explanation
Indices: 7190084--7190152 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
7190074 GATTAGCTAT
7190084 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7190100 TACACCTCTAATCCTAA
1 TACACCTCTAATCC-AA
7190117 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
7190133 TACGCCTTTAATCCAA
1 TACACCTCTAATCCAA
7190149 TACA
1 TACA
7190153 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.36, C:0.35, G:0.01, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7190126 original size:33 final size:32
Alignment explanation
Indices: 7190084--7190152 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
7190074 GATTAGCTAT
7190084 TACACCTCTAATCCAATACACCTCTAATCCTAA
1 TACACCTCTAATCCAATACACCTCTAATCC-AA
* *
7190117 TACACCTCTAATCCAATACGCCTTTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
7190149 TACA
1 TACA
7190153 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.36, C:0.35, G:0.01, T:0.28
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:7191527 original size:11 final size:11
Alignment explanation
Indices: 7191511--7191545 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
7191501 TCCTACTTTA
7191511 TTTTATTT-TT
1 TTTTATTTCTT
7191521 CTTTTATTTCTT
1 -TTTTATTTCTT
7191533 TTTTATTTCTT
1 TTTTATTTCTT
7191544 TT
1 TT
7191546 CTAGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 21 0.91
12 2 0.09
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTCTT
Found at i:7196874 original size:21 final size:22
Alignment explanation
Indices: 7196848--7196893 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
7196838 AATTTTACTG
* *
7196848 TTTAAAAATAATTTTATA-AAT
1 TTTAAAAATAAATTTAAATAAT
*
7196869 TTTAAAATTAAATTTAAATAAT
1 TTTAAAAATAAATTTAAATAAT
7196891 TTT
1 TTT
7196894 TTAGTTCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAAATAAATTTAAATAAT
Found at i:7197924 original size:17 final size:17
Alignment explanation
Indices: 7197902--7197934 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7197892 ATATTTAATA
7197902 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
7197919 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
7197935 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:7198798 original size:22 final size:22
Alignment explanation
Indices: 7198756--7198798 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7198746 TGATGCTGTT
*
7198756 TTGCTATCATTTTGTTATTATA
1 TTGCTATCATTTTATTATTATA
*
7198778 TTGCTA-CTATTTTATTGTTAT
1 TTGCTATC-ATTTTATTATTAT
7198799 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTGCTATCATTTTATTATTATA
Found at i:7206489 original size:22 final size:22
Alignment explanation
Indices: 7206463--7206505 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7206453 AGATTTCAAT
*
7206463 AAATAAAAAAATATTAATATTA
1 AAATAAAAAAATATAAATATTA
* *
7206485 AAATAATATAATATAAATATT
1 AAATAAAAAAATATAAATATT
7206506 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAAAAATATAAATATTA
Found at i:7206510 original size:25 final size:26
Alignment explanation
Indices: 7206482--7206530 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
7206472 AATATTAATA
* *
7206482 TTAAAATAATATAATATA-AATATTT
1 TTAAAAAAATATAAAATATAATATTT
*
7206507 TTAAAAAAATCTAAAATATAATAT
1 TTAAAAAAATATAAAATATAATAT
7206531 GAATAGGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAAAAAAATATAAAATATAATATTT
Found at i:7206955 original size:23 final size:24
Alignment explanation
Indices: 7206928--7206975 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
7206918 TATCCATTTC
7206928 ATTATTTAAAACATAATTA-AAAA
1 ATTATTTAAAACATAATTATAAAA
**
7206951 ATTATTTAAAATTTAATTATAAAA
1 ATTATTTAAAACATAATTATAAAA
7206975 A
1 A
7206976 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTATTTAAAACATAATTATAAAA
Found at i:7208108 original size:31 final size:30
Alignment explanation
Indices: 7208049--7208142 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
7208039 TTGATACATG
*
7208049 AATTTTGATTTGGTAT-AATTATATATATAT
1 AATTTTGATTTGGT-TCAATTGTATATATAT
* *
7208079 AATTTTGATTGTGGTTCAAATGTATATATAA
1 AATTTTGATT-TGGTTCAATTGTATATATAT
* * * *
7208110 AATTTTAATTTTGATTCAGTTGCATATATAT
1 AATTTTGA-TTTGGTTCAATTGTATATATAT
7208141 AA
1 AA
7208143 AGGAATAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
30 11 0.21
31 39 0.75
32 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (30 bp):
AATTTTGATTTGGTTCAATTGTATATATAT
Found at i:7208630 original size:15 final size:15
Alignment explanation
Indices: 7208610--7208639 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7208600 GGCAGTGATG
7208610 TGACATCTTAGGATA
1 TGACATCTTAGGATA
*
7208625 TGACATTTTAGGATA
1 TGACATCTTAGGATA
7208640 ATTGGGCAAT
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:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (15 bp):
TGACATCTTAGGATA
Found at i:7212060 original size:23 final size:23
Alignment explanation
Indices: 7212016--7212061 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7212006 ACAATTCCTT
* *
7212016 AAAATTTTGGCCTCCTCTTGTGG
1 AAAAATTTGGCCTCCTCATGTGG
7212039 AAAAATTTGGCCT-CTGCATGTGG
1 AAAAATTTGGCCTCCT-CATGTGG
7212062 CTTTGATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (23 bp):
AAAAATTTGGCCTCCTCATGTGG
Found at i:7224140 original size:16 final size:16
Alignment explanation
Indices: 7224119--7224151 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7224109 AAATAAAGTA
*
7224119 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
7224135 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
7224151 A
1 A
7224152 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:7227133 original size:31 final size:32
Alignment explanation
Indices: 7227098--7227166 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
7227088 TCAAATCATC
*
7227098 AAAATCAATATTAAGTGATAAAATTTAA-TT-A
1 AAAATCAATATT-AGTGACAAAATTTAATTTGA
* *
7227129 AAAATAAATATTAGTGACAAATTTTAATTTGA
1 AAAATCAATATTAGTGACAAAATTTAATTTGA
7227161 AAAATC
1 AAAATC
7227167 TCATTATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 13 0.41
31 13 0.41
32 6 0.19
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (32 bp):
AAAATCAATATTAGTGACAAAATTTAATTTGA
Found at i:7228795 original size:13 final size:13
Alignment explanation
Indices: 7228779--7228818 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
7228769 GGTGGTAGGA
7228779 TTCTGTATATCTG
1 TTCTGTATATCTG
*
7228792 TTCTGTTTATCTG
1 TTCTGTATATCTG
7228805 ATTCTG-ATATCTG
1 -TTCTGTATATCTG
7228818 T
1 T
7228819 ATCTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.75
14 5 0.21
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:7228827 original size:26 final size:27
Alignment explanation
Indices: 7228777--7228827 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
7228767 ATGGTGGTAG
*
7228777 GATTCTGTATATCTGTTCTGTTTATCT
1 GATTCTGTATATCTGTTCTGATTATCT
7228804 GATTCTG-ATATCTGTATCT-ATTAT
1 GATTCTGTATATCTGT-TCTGATTAT
7228828 GGACTTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (27 bp):
GATTCTGTATATCTGTTCTGATTATCT
Found at i:7233083 original size:20 final size:21
Alignment explanation
Indices: 7233058--7233098 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7233048 CTTTTTTAAA
7233058 TATATAATATA-AATTATTTT
1 TATATAATATATAATTATTTT
* *
7233078 TATATATTATATTATTATTTT
1 TATATAATATATAATTATTTT
7233099 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATAATATATAATTATTTT
Found at i:7233084 original size:22 final size:21
Alignment explanation
Indices: 7233057--7233098 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7233047 ACTTTTTTAA
7233057 ATATATAATATAAATTATTTTT
1 ATATATAATAT-AATTATTTTT
* *
7233079 ATATATTATATTATTATTTT
1 ATATATAATATAATTATTTT
7233099 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATAATATAATTATTTTT
Found at i:7236131 original size:42 final size:42
Alignment explanation
Indices: 7236072--7236155 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
7236062 AATCCTAATT
*
7236072 GGGAAAATAATTCCCTTATTCTAATCAACCACTAAAACATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
* *
7236114 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
7236156 AATAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
Found at i:7236163 original size:42 final size:42
Alignment explanation
Indices: 7236074--7236168 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
7236064 TCCTAATTGG
* **
7236074 GAAAATAATTCCCTTATTCTAATCAACCACTAAAACATAAGG
1 GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
* *
7236116 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
*
7236158 TAAAAT-ATTCC
1 GAAAATAATTCC
7236169 TAGAATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 5 0.11
42 42 0.89
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.28
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
Found at i:7236200 original size:19 final size:19
Alignment explanation
Indices: 7236176--7236221 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
7236166 TCCTAGAATA
7236176 TGAATAAAACTTATCTACC
1 TGAATAAAACTTATCTACC
* *
7236195 TGAATAAGATTTATCTACC
1 TGAATAAAACTTATCTACC
*
7236214 TAAATAAA
1 TGAATAAA
7236222 TTTAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (19 bp):
TGAATAAAACTTATCTACC
Found at i:7245481 original size:41 final size:39
Alignment explanation
Indices: 7245408--7245484 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 39
7245398 GGGATTTAAG
7245408 GTTTAAGGTTTGAGTTCGGGTTTTGGGCTCAAGGTTCAA
1 GTTTAAGGTTTGAGTTCGGGTTTTGGGCTCAAGGTTCAA
* *
7245447 GTTTAGGGTTTGAGATTACGGG-TTTGAGGTTCAAGGTT
1 GTTTAAGGTTTGAG-TT-CGGGTTTTG-GGCTCAAGGTT
7245485 TGAGTTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 13 0.39
40 6 0.18
41 14 0.42
ACGTcount: A:0.18, C:0.08, G:0.35, T:0.39
Consensus pattern (39 bp):
GTTTAAGGTTTGAGTTCGGGTTTTGGGCTCAAGGTTCAA
Found at i:7252587 original size:17 final size:17
Alignment explanation
Indices: 7252551--7252595 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
7252541 CCGATATAAT
* *
7252551 AAATATATTT-ATTTTT
1 AAATATTTTTAATTTTA
*
7252567 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
7252584 AAATATTTTTAA
1 AAATATTTTTAA
7252596 AATACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:7252626 original size:20 final size:21
Alignment explanation
Indices: 7252589--7252627 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7252579 TTTTAAAATA
**
7252589 TTTTTAAAATACTTTTTTTAT
1 TTTTTAAAATACAATTTTTAT
7252610 TTTTTAAAATA-AATTTTT
1 TTTTTAAAATACAATTTTT
7252628 GGTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTAAAATACAATTTTTAT
Found at i:7252627 original size:23 final size:23
Alignment explanation
Indices: 7252589--7252645 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
7252579 TTTTAAAATA
* *
7252589 TTTTTAAAAT-ACTTTTT-TTAT
1 TTTTTAAAATAAATTTTTGGTAT
7252610 TTTTTAAAATAAATTTTTGGTAT
1 TTTTTAAAATAAATTTTTGGTAT
*
7252633 TTATTAAAA-AAAT
1 TTTTTAAAATAAAT
7252646 AGGCCGGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.32
22 10 0.32
23 11 0.35
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTTAAAATAAATTTTTGGTAT
Found at i:7257169 original size:4 final size:4
Alignment explanation
Indices: 7257147--7257267 Score: 52
Period size: 4 Copynumber: 30.8 Consensus size: 4
7257137 TTTTTATTAT
* * * * * *
7257147 TTTA TTCA TTCA TTCA TTTA TTTA CTTA TTTA TTTA TTTA TTCA -TAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * * *
7257194 TTCA TTTTA TTTTA TTCA TTTA TTTA CTCA TATA CTTA TCTA TTTA TATA
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
7257244 -TTA TTCA CTTA TTT- TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
7257268 TAATCCTTTT
Statistics
Matches: 87, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
3 10 0.11
4 69 0.79
5 8 0.09
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:7257390 original size:14 final size:13
Alignment explanation
Indices: 7257371--7257409 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
7257361 CGTGCTTTTA
7257371 TTATTATTACTAT
1 TTATTATTACTAT
7257384 GTTATTATTATCTAT
1 -TTATTATTA-CTAT
7257399 TTATTTATTAC
1 TTA-TTATTAC
7257410 CTCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (13 bp):
TTATTATTACTAT
Found at i:7258070 original size:17 final size:18
Alignment explanation
Indices: 7258048--7258081 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7258038 TCATTTATTT
*
7258048 ATTATTACTA-TAATATG
1 ATTATTAATATTAATATG
7258065 ATTATTAATATTAATAT
1 ATTATTAATATTAATAT
7258082 TATCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTATTAATATTAATATG
Done.