Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 58 of 153
Found at i:18778343 original size:19 final size:19
Alignment explanation
Indices: 18778321--18778360 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18778311 TAACCTTGGC
*
18778321 CTCTCCTTTTTCTTTTTCT
1 CTCTCCTTTTTCTTCTTCT
* *
18778340 CTCTCTTTTTTGTTCTTCT
1 CTCTCCTTTTTCTTCTTCT
18778359 CT
1 CT
18778361 GTTTTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.68
Consensus pattern (19 bp):
CTCTCCTTTTTCTTCTTCT
Found at i:18785107 original size:25 final size:25
Alignment explanation
Indices: 18785057--18785112 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
18785047 TGTGTATATC
*
18785057 TATATATATTATAAAATATGGAAAATG
1 TATAAATATTATAAAATAT-G-AAATG
18785084 TATAAATATTATAAAAATAT-AAATG
1 TATAAATATTAT-AAAATATGAAATG
18785109 TATA
1 TATA
18785113 TACGTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
27 11 0.41
28 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (25 bp):
TATAAATATTATAAAATATGAAATG
Found at i:18785261 original size:3 final size:3
Alignment explanation
Indices: 18785253--18785353 Score: 80
Period size: 3 Copynumber: 33.7 Consensus size: 3
18785243 TATGTATTGA
** * * *
18785253 AAT AAT AAT AAT AAT AGC AAT AAA AAT AAA AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** *
18785301 AAT ACAGT AAT AAT AAT -AC AAT -AT AAC AGC ATT AAT AAT AAT AAT
1 AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18785346 AAT AAT AA
1 AAT AAT AA
18785354 AACTAAAATA
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
2 3 0.04
3 70 0.91
4 2 0.03
5 2 0.03
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:18786154 original size:17 final size:17
Alignment explanation
Indices: 18786124--18786157 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18786114 TTTTTACAAC
*
18786124 CTTTTCTCCGTTTTTTT
1 CTTTTCTCCCTTTTTTT
*
18786141 CTTTTTTCCCTTTTTTT
1 CTTTTCTCCCTTTTTTT
18786158 GCTTGCTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (17 bp):
CTTTTCTCCCTTTTTTT
Found at i:18790673 original size:22 final size:21
Alignment explanation
Indices: 18790639--18790680 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18790629 TGCGTCGGGA
* *
18790639 TAAAAAAATTAAAAATTAAAG
1 TAAAAAAAGTAAAAACTAAAG
18790660 TAAAAAATAGTAAAAACTAAA
1 TAAAAAA-AGTAAAAACTAAA
18790681 ATAATACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
TAAAAAAAGTAAAAACTAAAG
Found at i:18790897 original size:7 final size:7
Alignment explanation
Indices: 18790882--18790933 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
18790872 ATTTAACGCC
18790882 CTCCATG
1 CTCCATG
*
18790889 CTCCGTG
1 CTCCATG
*
18790896 CTCCGTG
1 CTCCATG
18790903 CTCCATG
1 CTCCATG
18790910 CTCCATG
1 CTCCATG
18790917 CTCCATG
1 CTCCATG
18790924 CTCCATG
1 CTCCATG
18790931 CTC
1 CTC
18790934 TCTCTCTCTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.10, C:0.44, G:0.17, T:0.29
Consensus pattern (7 bp):
CTCCATG
Found at i:18793586 original size:46 final size:46
Alignment explanation
Indices: 18793533--18793622 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
18793523 CTGGTTCTGC
18793533 AATTGAGAACAAGCAACAAATGAGAATCCTTTAAATTAAAGAATTT
1 AATTGAGAACAAGCAACAAATGAGAATCCTTTAAATTAAAGAATTT
18793579 AATTGAGAACAAGCAACAAATGAGAATCCTTTAAATTAAAGAAT
1 AATTGAGAACAAGCAACAAATGAGAATCCTTTAAATTAAAGAAT
18793623 CTTCTGGTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.24
Consensus pattern (46 bp):
AATTGAGAACAAGCAACAAATGAGAATCCTTTAAATTAAAGAATTT
Found at i:18809995 original size:12 final size:12
Alignment explanation
Indices: 18809978--18810003 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18809968 AATTATTTCT
18809978 AAAATATTTAGG
1 AAAATATTTAGG
18809990 AAAATATTTAGG
1 AAAATATTTAGG
18810002 AA
1 AA
18810004 TTAATTAAGA
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
AAAATATTTAGG
Found at i:18811038 original size:23 final size:23
Alignment explanation
Indices: 18810982--18811027 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
18810972 TTAAATAAAT
* *
18810982 AAATAAATGTTATATAATATTTAA
1 AAATAATTTTTATATAA-ATTTAA
18811006 AAATAATTTTTATATAAATTTA
1 AAATAATTTTTATATAAATTTA
18811028 TTAATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATAATTTTTATATAAATTTAA
Found at i:18811527 original size:16 final size:16
Alignment explanation
Indices: 18811479--18811530 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
18811469 ATACTGTATC
18811479 AATAAATAATTTAAA-A
1 AATAAA-AATTTAAATA
**
18811495 ATTATAAAAATAAAAATA
1 A--ATAAAAATTTAAATA
18811513 AATAAAAATTTAAATA
1 AATAAAAATTTAAATA
18811529 AA
1 AA
18811531 ATTAAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 16 0.55
17 6 0.21
18 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAAATTTAAATA
Found at i:18811946 original size:40 final size:40
Alignment explanation
Indices: 18811891--18811969 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
18811881 GATGTCAGGG
* * * *
18811891 GACGTGTCAGCAAATCGCGTCCACGTCAACGCGTTTTGTT
1 GACGTGGCAGAAAATCGCGTCCACGTAAACGCGATTTGTT
18811931 GACGTGGCAGAAAATCGCGTCCACGTAAACGCGATTTGT
1 GACGTGGCAGAAAATCGCGTCCACGTAAACGCGATTTGT
18811970 GTCTACGTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
GACGTGGCAGAAAATCGCGTCCACGTAAACGCGATTTGTT
Found at i:18812076 original size:9 final size:9
Alignment explanation
Indices: 18812058--18812095 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
18812048 GTTTCCCACA
*
18812058 TTAGGTTTT
1 TTAGGGTTT
18812067 TTAGGGTTT
1 TTAGGGTTT
*
18812076 TTAGGATTT
1 TTAGGGTTT
18812085 TTAGGGTTT
1 TTAGGGTTT
18812094 TT
1 TT
18812096 GGAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (9 bp):
TTAGGGTTT
Found at i:18812085 original size:18 final size:18
Alignment explanation
Indices: 18812058--18812095 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18812048 GTTTCCCACA
*
18812058 TTAGGTTTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
18812076 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
18812094 TT
1 TT
18812096 GGAGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (18 bp):
TTAGGATTTTTAGGGTTT
Found at i:18812448 original size:126 final size:125
Alignment explanation
Indices: 18812219--18812661 Score: 595
Period size: 126 Copynumber: 3.5 Consensus size: 125
18812209 GATAAAATTA
* * * * * * *
18812219 AAGTAGGATGAT-TTATGAGAAGGATTTTTGAAGTCGTGCCCATGTGTACGCGCTTTTGCTACAG
1 AAGTAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
18812283 TAGGTCCTAAAAAAATAATTTCGAGTTAACGTTTCTGAGCAAATAGTATAAAAAAGCGCTGC
65 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAA-CGCTGC
* *
18812345 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCATTTGCTACAGT
1 AAGTAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
18812410 AGATCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAATGCTGC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTGC
*
18812471 AAGTAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGTAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *** * * * *
18812536 AGGTCCTGGAAAAATAATTTCGACTTGGTATTTCTAAGTAAATAGTAT-AAAATCGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGC
* *
18812595 TAGTAGGATG-TTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
1 AAGTAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
18812659 TAG
65 TAG
18812662 CATGTTTGGG
Statistics
Matches: 282, Mismatches: 32, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
123 3 0.01
124 65 0.23
125 3 0.01
126 207 0.73
127 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
AAGTAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGC
Found at i:18815907 original size:22 final size:21
Alignment explanation
Indices: 18815821--18816593 Score: 497
Period size: 22 Copynumber: 35.0 Consensus size: 21
18815811 TCAAATTATA
* *
18815821 TTTAAGTTTAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
18815842 TTAAAGTTAA-GTGTTAGGGTT
1 TTTAAGTTAAGGT-TTAGGGTT
* * * ***
18815863 TTTTATTTAAGATTTACAATT
1 TTTAAGTTAAGGTTTAGGGTT
*
18815884 TTAAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
18815906 TTTAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGG-TTTAGGGTT
18815928 TTTAAGTTAAGGGTTTTAGCTTAAGGGTT
1 TTTAAGTTAA-GG---T---TT-AGGGTT
* *
18815957 TATAATTTTTAAGTTAAGGGTTATGGTT
1 T-------TTAAGTTAAGGTTTAGGGTT
* * * ***
18815985 TTTTATTTAAGGGTTATTATT
1 TTTAAGTTAAGGTTTAGGGTT
*
18816006 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
** *
18816028 TTTATTTTAAGAG-TTATGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
18816049 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
18816071 TTTAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
18816093 TAGGGTT--TTTAA-GTTAAGGGTT
1 T----TTAAGTTAAGGTTTAGGGTT
*
18816115 TTTAGGTTAAGGGTTTAGGG-T
1 TTTAAGTTAA-GGTTTAGGGTT
18816136 TTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
*
18816157 TTTAGGTTAAGAGTTTAGGG-T
1 TTTAAGTTAAG-GTTTAGGGTT
*
18816178 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
18816200 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
18816222 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
18816243 TTTAGGTTAAAGG-TTAGTGTT
1 TTTAAGTT-AAGGTTTAGGGTT
*
18816264 TTTAAATT-AGGTGTTAGGGTT
1 TTTAAGTTAAGGT-TTAGGGTT
* * **
18816285 TTTTATTTAAAGG-TTACAGTT
1 TTTAAGTT-AAGGTTTAGGGTT
* **
18816306 TTAAAGTTAAGGGTTTAGAATT
1 TTTAAGTTAA-GGTTTAGGGTT
** * *
18816328 TTTATTTTAAGGGTTACGGTT
1 TTTAAGTTAAGGTTTAGGGTT
18816349 TTTAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGG-TTTAGGGTT
* *
18816371 TTTAAGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
18816392 TTTAAGTTAAGGCTTTATGATT
1 TTTAAGTTAAGG-TTTAGGGTT
18816414 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
18816436 TTTAAGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * * *
18816457 TGTAGGTTAAGAGTTTATGATT
1 TTTAAGTTAAG-GTTTAGGGTT
18816479 TTTAAGTTAAGGGTTAAGGGTTAGGGTT
1 TTTAAGTTAA-GG-T-----TTAGGGTT
*
18816507 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
18816529 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
18816551 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
18816572 TTCAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
18816594 AGGGTTTTTA
Statistics
Matches: 596, Mismatches: 102, Indels: 107
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.00
19 3 0.01
20 14 0.02
21 245 0.41
22 268 0.45
23 9 0.02
24 4 0.01
25 1 0.00
26 2 0.00
27 1 0.00
28 27 0.05
29 9 0.02
35 2 0.00
36 9 0.02
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGTTTAGGGTT
Found at i:18815916 original size:43 final size:43
Alignment explanation
Indices: 18815840--18815922 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
18815830 AGGGTTAGGG
* *
18815840 TTTTAAAGTTAAGTGTTAGGGTTTTTTATTTAA-GATTTACAA
1 TTTTAAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGATTTACAA
18815882 TTTTAAAGTTAA-TGGTTTAGGGTTTTTAAGTTAAGGATTTA
1 TTTTAAAGTTAAGT-G-TTAGGGTTTTTAAGTTAAGGATTTA
18815923 GGGTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 1 0.03
42 13 0.36
43 16 0.44
44 6 0.17
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.49
Consensus pattern (43 bp):
TTTTAAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGATTTACAA
Found at i:18815985 original size:122 final size:121
Alignment explanation
Indices: 18815840--18816429 Score: 356
Period size: 122 Copynumber: 4.9 Consensus size: 121
18815830 AGGGTTAGGG
* * *
18815840 TTTTAAAGTTAAGTGTTAGGGTTTTTTATTTAAGATTTACAATTTTAAAGTTAATGGTTTAGGGT
1 TTTTAAAGTTAAGGGTTAGGGTTTTTTATTTAAGAGTTACAATTTTAAAGTTAAGGGTTTAGGGT
*
18815905 TTTTAAGTTAAGGATTTAGGGTTTTTAAGTTAAGGGTTTTAGCTTAAGGGTTTATAA
66 TTTTAAGTTAA-GAGTTAGGGTTTTTAAGTTAAGGGTTTTAGCTTAAGGGTTTATAA
* * * **
18815962 TTTTTAAGTTAAGGGTTATGGTTTTTTATTTAAGGGTTATTATTTTAAAGTTAAGGGTTTAGGGT
1 TTTTAAAGTTAAGGGTTAGGGTTTTTTATTTAAGAGTTACAATTTTAAAGTTAAGGGTTTAGGGT
** * *
18816027 TTTTATTTTAAGAGTTATGGTTTTTAAGTTAAGGG---T---TT-AGGGTTTTTAA
66 TTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTTAGCTTAAGGGTTTATAA
* * * * * *
18816076 -GTTAAGGGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGT----TTTT-AGGTTAAGGGTTTAGG
1 TTTTAA-AGTTAAGGG-TTAGGGTTTTTTATTTAAGAGTTACAATTTTAAAGTTAAGGGTTTAGG
* *
18816134 G-TTTTAAGTTAAGAGTTAGGGTTTTTAGGTTAAGAGTTTAGGGTTTTAAG-TTAAGGGTTTATG
64 GTTTTTAAGTTAAGAGTTAGGG--TTT---TT-A-AGTTAAGGGTTTT-AGCTTAAGGGTTTATA
*
18816197 G
121 A
* * * * *** * * * *
18816198 TTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAAGG-TTAGTG
1 TTTTAAAGTTAAGGG-TTAGGGTTTTTTATTTAAGAGTTACAATTTTAAAGTTAAGGGTTTAGGG
* * * * * *
18816262 TTTTTAAATTAGGTGTTAGGGTTTTTTATTTAAAGGTTACAGTTTTAAAG-TTAAGGGTTTAGAA
65 TTTTTAAGTTAAGAGTTAGGGTTTTTAAGTT-AAGG-----GTTTT--AGCTTAAGGGTTTATAA
* ** * * * * *** * *
18816326 TTTTTATTTTAAGGGTTACGGTTTTTAAGTTAAGGATTTAGGGTTTTTAAGTTAAGGG-TTAGAG
1 TTTTAAAGTTAAGGGTTAGGGTTTTTTATTTAA-GAGTTACAATTTTAAAGTTAAGGGTTTAGGG
* *
18816390 TTTTTAAGTTAAG-GCTTTATGATTTTTAAGTTAAGGGTTT
65 TTTTTAAGTTAAGAG--TTAGGGTTTTTAAGTTAAGGGTTT
18816430 AGGGTTTTTA
Statistics
Matches: 377, Mismatches: 57, Indels: 67
0.75 0.11 0.13
Matches are distributed among these distances:
108 17 0.05
109 16 0.04
110 7 0.02
113 5 0.01
114 21 0.06
115 26 0.07
118 2 0.01
121 27 0.07
122 105 0.28
123 11 0.03
126 3 0.01
127 32 0.08
128 93 0.25
129 12 0.03
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (121 bp):
TTTTAAAGTTAAGGGTTAGGGTTTTTTATTTAAGAGTTACAATTTTAAAGTTAAGGGTTTAGGGT
TTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTTAGCTTAAGGGTTTATAA
Found at i:18815996 original size:43 final size:43
Alignment explanation
Indices: 18815941--18816586 Score: 409
Period size: 43 Copynumber: 14.9 Consensus size: 43
18815931 AAGTTAAGGG
**
18815941 TTTTAGCTTAAGGGTTTATAATTTTTAAGTTAAGGGTTATGGTT
1 TTTTAG-TTAAGGGTTTATGGTTTTTAAGTTAAGGGTTATGGTT
* ** * *
18815985 TTTTATTTAAGGG-TTATTATTTTAAAGTTAAGGGTT-TAGGGT
1 TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAT-GGTT
* * *
18816027 TTTTATTTTAAGAG-TTATGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTTA-GTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTATGGTT
* * * * * *
18816071 TTTAAGTTAAGGGTTAAGGGTTTAGGGTT--TTTAA--GTTAAGGGT
1 TTTTAGTTAAGGGTTTATGGTTT----TTAAGTTAAGGGTTATGGTT
* * *
18816114 TTTTAGGTTAAGGGTTTA-GGGTTTTAAGTTAAGAGTTA-GGGT
1 TTTTA-GTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTATGGTT
* *
18816156 TTTTAGGTTAAGAGTTTA-GGGTTTTAAGTTAAGGGTTTATGGTT
1 TTTTA-GTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTATGGTT
* * *
18816200 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA-GGGT
1 TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTATGGTT
* * *
18816242 TTTTAGGTTAAAGG-TTA-GTGTTTTTAAATT-AGGTGTTAGGGTT
1 TTTTA-GTTAAGGGTTTATG-GTTTTTAAGTTAAGG-GTTATGGTT
* * ** * **
18816285 TTTTATTTAAAGG-TTACAGTTTTAAAGTTAAGGGTT-TAGAAT
1 TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAT-GGTT
* * * *
18816327 TTTTATTTTAAGGG-TTACGGTTTTTAAGTTAAGGATTTAGGGTT
1 TTTTA-GTTAAGGGTTTATGGTTTTTAAGTTAAGG-GTTATGGTT
* * *
18816371 TTTAAGTTAAGGG-TTA-GAGTTTTTAAGTTAAGGCTTTATGATT
1 TTTTAGTTAAGGGTTTATG-GTTTTTAAGTTAAGG-GTTATGGTT
* *
18816414 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA-GAG-T
1 TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTATG-GTT
* * *
18816456 TTGTAGGTTAAGAGTTTATGATTTTTAAGTTAAGGGTTAAGGGTTAGGGTT
1 TTTTA-GTTAAGGGTTTATGGTTTTTAAGTTAAGGGTT-A----T--GGTT
* *
18816507 TTTAAGTTAAGGGTTTATGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTATGGTT
* * * *
18816551 TTTAAGTTAAGGG-TTAGGGTTTTCAGGTTAAGGGTT
1 TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTT
18816587 TAGGGTTAGG
Statistics
Matches: 494, Mismatches: 66, Indels: 86
0.76 0.10 0.13
Matches are distributed among these distances:
39 2 0.00
41 9 0.02
42 127 0.26
43 212 0.43
44 100 0.20
45 1 0.00
46 5 0.01
48 2 0.00
50 29 0.06
51 7 0.01
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (43 bp):
TTTTAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTATGGTT
Found at i:18816065 original size:29 final size:28
Alignment explanation
Indices: 18816033--18816115 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
18816023 GGGTTTTTAT
18816033 TTTAAGAGTTATGGTTTTTAAGTTAAGGG
1 TTTAAGAGTTA-GGTTTTTAAGTTAAGGG
18816062 TTT---AG---GGTTTTTAAGTTAAGGG
1 TTTAAGAGTTAGGTTTTTAAGTTAAGGG
*
18816084 -TTAAGGGTTTAGGGTTTTTAAGTTAAGGG
1 TTTAAGAG-TTA-GGTTTTTAAGTTAAGGG
18816113 TTT
1 TTT
18816116 TTAGGTTAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
21 2 0.05
22 17 0.39
24 1 0.02
26 2 0.05
29 20 0.45
30 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (28 bp):
TTTAAGAGTTAGGTTTTTAAGTTAAGGG
Found at i:18816083 original size:15 final size:15
Alignment explanation
Indices: 18816065--18816130 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
18816055 TTAAGGGTTT
18816065 AGGGTTTTTAAGTTA
1 AGGGTTTTTAAGTTA
*
18816080 AGGG---TTAAGGGTTT
1 AGGGTTTTTAA--GTTA
18816094 AGGGTTTTTAAGTTA
1 AGGGTTTTTAAGTTA
*
18816109 AGGGTTTTTAGGTTA
1 AGGGTTTTTAAGTTA
18816124 AGGGTTT
1 AGGGTTT
18816131 AGGGTTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.09
14 7 0.16
15 28 0.65
17 4 0.09
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (15 bp):
AGGGTTTTTAAGTTA
Found at i:18816246 original size:65 final size:64
Alignment explanation
Indices: 18815821--18816590 Score: 625
Period size: 65 Copynumber: 12.0 Consensus size: 64
18815811 TCAAATTATA
* * * * * * **
18815821 TTTAAGTTTAGGG-TTAGGGTTTTAAAGTTAAGTGTTAGGGTTTTTTATTTAA-GATTTACAATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGTT
* * *
18815884 TTAAAGTTAATGGTTTAGGGTTTTTAAGTTAAGGATTTAGGGTTTTTAAGTTAA--G----GG-T
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTTAGGTT
*** * * *
18815942 TTT-AGCTTAAGGGTTTATAATTTTTAAGTTAAGGGTTATGGTTTTTTATTTAAGGGTTATTA--
1 TTTAAG-TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-T-TTAGG
18816004 TT
63 TT
* ** * *
18816006 TTAAAGTTAAGGGTTTAGGGTTTTTATTTTAAGAGTTATGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGTT
* * *
18816071 TTTAAGTTAAGGGTTAAGGGTTTAGGGTT--TTTAA--GTTAAGGGTTTTTAGGTTAAGGGTTTA
1 TTTAAGTTAAGGGTTTAGGGTTT----TTAAGTTAAGGGTT-AGGGTTTTTAAGTTAAGGGTTTA
*
18816132 GGGT
61 GGTT
* * *
18816136 TTTAAGTTAAGAG-TTAGGGTTTTTAGGTTAAGAGTTTAGGG-TTTTAAGTTAAGGGTTTATGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTA-GGT
18816199 T
64 T
* *
18816200 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAAGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GTT
* * * * ** * *
18816264 TTTAAATT-A-GGTGTTAGGGTTTTTTATTTAAAGGTTACAGTTTTAAAGTTAAGGGTTTAGAAT
1 TTTAAGTTAAGGGT-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GT
18816327 T
64 T
** * *
18816328 TTTATTTTAAGGG-TTACGGTTTTTAAGTTAAGGATTTAGGGTTTTTAAGTTAAGGG-TTAGAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTTAG-GT
18816391 T
64 T
* * *
18816392 TTTAAGTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAG-GT
18816456 T
64 T
* * * **
18816457 TGTAGGTTAAGAGTTTATGATTTTTAAGTTAAGGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 TTTAAGTTAAGGGTTTA-G-GGTTT---TTAA--GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT
18816522 TATGGTT
59 TA-GGTT
* * * *
18816529 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTCAGGTTAAGGGTTTAGG
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGG
18816591 GTTAGGGTTT
Statistics
Matches: 574, Mismatches: 87, Indels: 91
0.76 0.12 0.12
Matches are distributed among these distances:
57 17 0.03
58 27 0.05
59 1 0.00
60 2 0.00
62 10 0.02
63 64 0.11
64 157 0.27
65 201 0.35
66 23 0.04
67 12 0.02
69 2 0.00
70 7 0.01
71 21 0.04
72 29 0.05
73 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (64 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGTT
Found at i:18816494 original size:29 final size:28
Alignment explanation
Indices: 18816461--18816521 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
18816451 AGAGTTTGTA
* *
18816461 GGTTAAGAGTTTATGATTTTTAAGTTAAG
1 GGTTAAG-GGTTAGGATTTTTAAGTTAAG
*
18816490 GGTTAAGGGTTAGGGTTTTTAAGTTAAG
1 GGTTAAGGGTTAGGATTTTTAAGTTAAG
18816518 GGTT
1 GGTT
18816522 TATGGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (28 bp):
GGTTAAGGGTTAGGATTTTTAAGTTAAG
Found at i:18816531 original size:115 final size:115
Alignment explanation
Indices: 18816376--18816588 Score: 347
Period size: 115 Copynumber: 1.9 Consensus size: 115
18816366 GGGTTTTTAA
18816376 GTTAAGGGTTAGAGTTTTTAAGTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAGAGTTTTTAAGTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAA
18816441 GTTAAGGGTTAGAGTTTGT-AGGTTAAGAGTTTATGATTTTTAAGTTAAGG
66 GTTAAGGGTTAGAGTTT-TCAGGTTAAGAGTTTATGATTTTTAAGTTAAGG
* * * * *
18816491 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAGGTTAAGGGTTTATGGTTTTTAA
1 GTTAAGGGTTAGAGTTTTTAAGTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAA
* *
18816556 GTTAAGGGTTAGGGTTTTCAGGTTAAGGGTTTA
66 GTTAAGGGTTAGAGTTTTCAGGTTAAGAGTTTA
18816589 GGGTTAGGGT
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 1 0.01
115 89 0.99
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (115 bp):
GTTAAGGGTTAGAGTTTTTAAGTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAA
GTTAAGGGTTAGAGTTTTCAGGTTAAGAGTTTATGATTTTTAAGTTAAGG
Found at i:18816538 original size:93 final size:93
Alignment explanation
Indices: 18816141--18816622 Score: 338
Period size: 93 Copynumber: 5.4 Consensus size: 93
18816131 AGGGTTTTAA
* * * * *
18816141 GTTAAGAGTTAGGGTTTTTAGGTTAAGAGTTT-AGGGTTTTAAGTTAAGGGTTTATGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATGGTTTGTAA
*
18816205 GTTAAGGGTTTAGG-GTTT----TTAA--
66 GTTAAGGG-TTAGGATTTTCAAGTTAAGG
* * * * *
18816227 GTTAAGGGTTAGGGTTTTTAGGTTAAAGG-TT-AGTGTTTTTAAATT-A-GGTGTTAGGGTTTTT
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAG-GTTTTTAAGTTAAGGGT-TTATGGTTTGT
* * * * *
18816288 TATTTAAAGGTTA-CAGTTTTAAAGTTAAGG
64 AAGTTAAGGGTTAGGA-TTTTCAAGTTAAGG
** ** * * * *
18816318 G-T-----TTAGAATTTTTATTTTAAGGG-TTACGGTTTTTAAGTTAAGGATTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATGGTTTGTAA
*
18816376 GTTAAGGGTTA-GAGTTT----TTAA--
66 GTTAAGGGTTAGGATTTTCAAGTTAAGG
* * * *
18816397 GTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTA-GAGTTTGT
1 GTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATG-GTTTGT
* * * *
18816460 AGGTTAAGAGTTTATGATTTTTAAGTTAAGG
64 AAGTTAAG-GGTTAGGATTTTCAAGTTAAGG
* * *
18816491 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAGGTTAAGGGTTTATGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATGGTTTGTAA
* *
18816556 GTTAAGGGTTAGGGTTTTCAGGTTAAGG
66 GTTAAGGGTTAGGATTTTCAAGTTAAGG
* *
18816584 GTTTAGGGTTAGGGTTTTTAGGTTAAGGGTTTAAGGTTT
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTT
18816623 GTCAATTAAA
Statistics
Matches: 315, Mismatches: 49, Indels: 57
0.75 0.12 0.14
Matches are distributed among these distances:
79 1 0.00
80 1 0.00
81 4 0.01
84 6 0.02
85 57 0.18
86 91 0.29
87 25 0.08
88 5 0.02
89 4 0.01
90 1 0.00
91 1 0.00
92 4 0.01
93 92 0.29
94 22 0.07
95 1 0.00
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.45
Consensus pattern (93 bp):
GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATGGTTTGTAA
GTTAAGGGTTAGGATTTTCAAGTTAAGG
Found at i:18816545 original size:72 final size:71
Alignment explanation
Indices: 18816419--18816571 Score: 238
Period size: 72 Copynumber: 2.1 Consensus size: 71
18816409 TGATTTTTAA
18816419 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTGTAGGTTAAGAGTTTATGATTTTTAA
1 GTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTGTAGGTTAAGAGTTTATGATTTTTAA
18816484 GTTAAGG
65 GTTAAGG
* * *
18816491 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTATG-GTTTTTAGGTTAAGGGTTTATGGTTTTTA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTA-GAGTTTGTAGGTTAAGAGTTTATGATTTTTA
18816555 AGTTAAGG
64 AGTTAAGG
18816563 GTT-AGGGTT
1 GTTAAGGGTT
18816572 TTCAGGTTAA
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
71 27 0.36
72 48 0.63
73 1 0.01
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (71 bp):
GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTGTAGGTTAAGAGTTTATGATTTTTAAG
TTAAGG
Found at i:18816584 original size:15 final size:13
Alignment explanation
Indices: 18816562--18816621 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 13
18816552 TTAAGTTAAG
18816562 GGTTAGGGTTTTCA
1 GGTTAGGGTTTT-A
18816576 GGTTAAGGG-TTTA
1 GGTT-AGGGTTTTA
18816589 GGGTTAGGGTTTTTA
1 -GGTTAGGG-TTTTA
*
18816604 GGTTAAGGGTTTAA
1 GGTT-AGGGTTTTA
18816618 GGTT
1 GGTT
18816622 TGTCAATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 5 0.12
14 23 0.57
15 12 0.30
ACGTcount: A:0.18, C:0.02, G:0.38, T:0.42
Consensus pattern (13 bp):
GGTTAGGGTTTTA
Found at i:18816587 original size:43 final size:44
Alignment explanation
Indices: 18816011--18816593 Score: 435
Period size: 43 Copynumber: 13.4 Consensus size: 44
18816001 TTATTTTAAA
** * * * *
18816011 GTTAAGGGTTTAGGGTTTTTATTTTAAGAG-TTATGGTTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
*
18816054 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAAGGG-TTT-AGG
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCA-G
* * *
18816097 GTTTTTAA--GTTAAGGGTTTTTAGGTTAAGGGTTTAGGGTTTT-AA
1 G---TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * * *
18816141 GTTAAGAG-TTAGGGTTTTTAGGTTAAGAGTTTAGGGTTTT-AA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * *
18816183 GTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * * * *
18816227 GTTAAGGG-TTAGGGTTTTTAGGTTAAAGG-TTAGTGTTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * * * ** * *
18816269 ATT-A-GGTGTTAGGGTTTTTTATTTAAAGG-TTACAGTTTTAAA
1 GTTAAGGGT-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
** ** * * *
18816311 GTTAAGGGTTTAGAATTTTTATTTTAAGGG-TTACGGTTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * * *
18816354 GTTAAGGATTTAGGGTTTTTAAGTTAAGGG-TTAGAGTTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * * * *
18816397 GTTAAGGCTTTATGATTTTTAAGTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* * * * * * * *
18816441 GTTAAGGG-TTAGAGTTTGTAGGTTAAGAGTTTATGATTTTTAA
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
* *
18816484 GTTAAGGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAG
1 GTTAAGGG-T-----TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
*
18816534 GTTAAGGGTTTATGGTTTTTAAGTTAAGGG-TTAGGGTTTTCAG
1 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
18816577 GTTAAGGGTTTAGGGTT
1 GTTAAGGGTTTAGGGTT
18816594 AGGGTTTTTA
Statistics
Matches: 453, Mismatches: 65, Indels: 44
0.81 0.12 0.08
Matches are distributed among these distances:
40 2 0.00
41 5 0.01
42 84 0.19
43 232 0.51
44 84 0.19
45 4 0.01
46 4 0.01
49 1 0.00
50 37 0.08
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (44 bp):
GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAG
Found at i:18816591 original size:28 final size:28
Alignment explanation
Indices: 18816560--18816621 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
18816550 TTTTAAGTTA
18816560 AGGGTTAGGGTTTTCAGGTTAAGGGTTT
1 AGGGTTAGGGTTTTCAGGTTAAGGGTTT
*
18816588 AGGGTTAGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTAGGGTTTTCAGGTTAAGGGTTT
*
18816616 AAGGTT
1 AGGGTT
18816622 TGTCAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.02, G:0.39, T:0.40
Consensus pattern (28 bp):
AGGGTTAGGGTTTTCAGGTTAAGGGTTT
Found at i:18817864 original size:7 final size:7
Alignment explanation
Indices: 18817854--18817886 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18817844 TTATATACAT
18817854 AATACTA
1 AATACTA
18817861 AATACTA
1 AATACTA
18817868 AATACTA
1 AATACTA
18817875 AATACTA
1 AATACTA
18817882 AATAC
1 AATAC
18817887 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:18818092 original size:20 final size:20
Alignment explanation
Indices: 18818055--18818092 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18818045 TTTATTTTTA
*
18818055 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
18818075 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
18818093 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:18819092 original size:11 final size:12
Alignment explanation
Indices: 18819078--18819152 Score: 72
Period size: 11 Copynumber: 6.7 Consensus size: 12
18819068 TTAAATATTG
18819078 ATTTGAGA-GAA
1 ATTTGAGAGGAA
18819089 ATTTG-GAAGG-A
1 ATTTGAG-AGGAA
*
18819100 ATTTGAGAGTAA
1 ATTTGAGAGGAA
18819112 A-TTGAGAGGAA
1 ATTTGAGAGGAA
18819123 ATTT-AGAGGAA
1 ATTTGAGAGGAA
* *
18819134 A-ATGAGATGAA
1 ATTTGAGAGGAA
18819145 ATTTGAGA
1 ATTTGAGA
18819153 AAGGGTTAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.04
11 39 0.75
12 11 0.21
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:18819147 original size:33 final size:34
Alignment explanation
Indices: 18819078--18819152 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
18819068 TTAAATATTG
* **
18819078 ATTTGAGAGAAATTTGGAAGGAATTTGAGAGTAA
1 ATTTGAGAGAAATTTAGAAGGAAAATGAGAGTAA
18819112 A-TTGAGAGGAAATTTAG-AGGAAAATGAGA-TGAA
1 ATTTGAGA-GAAATTTAGAAGGAAAATGAGAGT-AA
18819145 ATTTGAGA
1 ATTTGAGA
18819153 AAGGGTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 1 0.03
33 19 0.54
34 15 0.43
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (34 bp):
ATTTGAGAGAAATTTAGAAGGAAAATGAGAGTAA
Found at i:18824662 original size:6 final size:6
Alignment explanation
Indices: 18824653--18824678 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18824643 AATGCAAGCG
18824653 AGAGAC AGAGAC AGAGAC AGAGAC AG
1 AGAGAC AGAGAC AGAGAC AGAGAC AG
18824679 GGTGATGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.35, T:0.00
Consensus pattern (6 bp):
AGAGAC
Found at i:18825005 original size:4 final size:4
Alignment explanation
Indices: 18824998--18825029 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
18824988 CACGCATGCA
18824998 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
18825030 CATGGCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:18826388 original size:91 final size:91
Alignment explanation
Indices: 18826245--18826416 Score: 292
Period size: 91 Copynumber: 1.9 Consensus size: 91
18826235 AAGAGAGTTT
* *
18826245 TGTGAGTTTTGGGGAATTTTGGGTTTTAGTTAGAGTACTTTGTTCTTTCGAGATTTCA-GATTTA
1 TGTGAATTTTGGGGAATTTTGGATTTTAGTTAGAGTACTTTGTTCTTTCGAGATTT-AGGATTTA
18826309 TTTGTTGAGATTATCTTAAGGGAATTC
65 TTTGTTGAGATTATCTTAAGGGAATTC
* *
18826336 TGTGAATTTTGGGGAATTTTGGATTTTATTTAGAGTACTTTGTTCTTTCGAGATTTAGGGTTTAT
1 TGTGAATTTTGGGGAATTTTGGATTTTAGTTAGAGTACTTTGTTCTTTCGAGATTTAGGATTTAT
18826401 TTGTTGAGATTATCTT
66 TTGTTGAGATTATCTT
18826417 TATCTTATAC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 1 0.01
91 75 0.99
ACGTcount: A:0.20, C:0.06, G:0.24, T:0.49
Consensus pattern (91 bp):
TGTGAATTTTGGGGAATTTTGGATTTTAGTTAGAGTACTTTGTTCTTTCGAGATTTAGGATTTAT
TTGTTGAGATTATCTTAAGGGAATTC
Found at i:18837863 original size:5 final size:5
Alignment explanation
Indices: 18837853--18837881 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18837843 GATATGTCAT
18837853 ATCTA ATCTA ATCTA ATCTA ATCTA ATCT
1 ATCTA ATCTA ATCTA ATCTA ATCTA ATCT
18837882 TTACAAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
ATCTA
Found at i:18838196 original size:24 final size:25
Alignment explanation
Indices: 18838134--18838197 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 25
18838124 ATTTTTAATA
* *
18838134 AAAATAC-ATAAATTAAAATTCATT
1 AAAATACTATAAATGAAAAGTCATT
*
18838158 AAAATACTTATTATAAAGAAAAGTCATT
1 AAAATAC-TA-TA-AATGAAAAGTCATT
18838186 AAAATACTATAA
1 AAAATACTATAA
18838198 TATACTTGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 7 0.21
25 1 0.03
26 3 0.09
27 4 0.12
28 18 0.55
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (25 bp):
AAAATACTATAAATGAAAAGTCATT
Found at i:18838628 original size:21 final size:20
Alignment explanation
Indices: 18838588--18838632 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
18838578 TAGAAAATTC
*
18838588 TAAAAATTAAATAAAGTAGA
1 TAAAAATTAAATAAAATAGA
18838608 TAAAAATTTCAAA-AAAATAGA
1 TAAAAA-TT-AAATAAAATAGA
18838629 TAAA
1 TAAA
18838633 GTGAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 13 0.59
22 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (20 bp):
TAAAAATTAAATAAAATAGA
Found at i:18838632 original size:30 final size:30
Alignment explanation
Indices: 18838581--18838644 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
18838571 TAAAATTTAG
* *
18838581 AAAA-TTCTAAAAATTAAATAAAGT-AGATA
1 AAAATTTCAAAAAAATAAATAAAGTGAGA-A
*
18838610 AAAATTTCAAAAAAATAGATAAAGTGAGAA
1 AAAATTTCAAAAAAATAAATAAAGTGAGAA
18838640 AAAAT
1 AAAAT
18838645 GAATCCTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 4 0.13
30 23 0.77
31 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.23
Consensus pattern (30 bp):
AAAATTTCAAAAAAATAAATAAAGTGAGAA
Found at i:18844833 original size:39 final size:39
Alignment explanation
Indices: 18844783--18844861 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
18844773 GTAATGTTTT
* * *
18844783 ACTATCGATCATTGATATCTATATTGATTAATAAAAGCA
1 ACTATCCATCATTGATATCTATATGGATCAATAAAAGCA
18844822 ACTATCCATCATTGATATCTATATGGATCAATAAAAGCA
1 ACTATCCATCATTGATATCTATATGGATCAATAAAAGCA
18844861 A
1 A
18844862 TTTATTAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (39 bp):
ACTATCCATCATTGATATCTATATGGATCAATAAAAGCA
Found at i:18847757 original size:22 final size:22
Alignment explanation
Indices: 18847732--18847773 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18847722 TATCCAAACA
18847732 ATAATAACAAAATAGTAGCATC
1 ATAATAACAAAATAGTAGCATC
** *
18847754 ATAATAGTAAAATGGTAGCA
1 ATAATAACAAAATAGTAGCA
18847774 AAATAGGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCATC
Found at i:18848358 original size:22 final size:21
Alignment explanation
Indices: 18848333--18848380 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18848323 AAAGAGATGC
*
18848333 AGTTGGATCTAAAATTAACTTT
1 AGTTGGATCCAAAATTAA-TTT
**
18848355 AGTTGGATCCATTATTAATTT
1 AGTTGGATCCAAAATTAATTT
18848376 AGTTG
1 AGTTG
18848381 TTAGTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (21 bp):
AGTTGGATCCAAAATTAATTT
Found at i:18853581 original size:19 final size:19
Alignment explanation
Indices: 18853557--18853668 Score: 179
Period size: 19 Copynumber: 5.9 Consensus size: 19
18853547 TAATCTTCAG
18853557 TGATATGCAATCTTAGATA
1 TGATATGCAATCTTAGATA
18853576 TGATATGCAATCTTAGATA
1 TGATATGCAATCTTAGATA
* **
18853595 TAATATATAATCTTAGATA
1 TGATATGCAATCTTAGATA
18853614 TGATATGCAATCTTAGATA
1 TGATATGCAATCTTAGATA
**
18853633 TGATATATAATCTTAGATA
1 TGATATGCAATCTTAGATA
18853652 TGATATGCAATCTTAGA
1 TGATATGCAATCTTAGA
18853669 AGATATTATT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 83 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
TGATATGCAATCTTAGATA
Found at i:18853608 original size:38 final size:38
Alignment explanation
Indices: 18853565--18853668 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
18853555 AGTGATATGC
18853565 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
18853603 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
18853641 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
18853669 AGATATTATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:18853704 original size:21 final size:23
Alignment explanation
Indices: 18853660--18853704 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
18853650 TATGATATGC
*
18853660 AATCTTAGAAGATATTATTTTGT
1 AATCTTAGAAGATATTAATTTGT
18853683 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATTAATTTGT
18853704 A
1 A
18853705 GATACCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATTAATTTGT
Found at i:18856864 original size:21 final size:22
Alignment explanation
Indices: 18856840--18856882 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
18856830 ATCATCAATC
18856840 AAATAATACAAT-AT-AATTTAA
1 AAATAATA-AATAATAAATTTAA
*
18856861 AAATTATAAATAATAAATTTAA
1 AAATAATAAATAATAAATTTAA
18856883 TTCACTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAATAAATAATAAATTTAA
Found at i:18858509 original size:21 final size:20
Alignment explanation
Indices: 18858481--18858520 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
18858471 AAAAAAGCCT
18858481 AAAAAATCGAAAA-AAAAAAG
1 AAAAAATC-AAAATAAAAAAG
18858501 AAAATAATCAAAATAAAAAA
1 AAAA-AATCAAAATAAAAAA
18858521 TATACTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAATCAAAATAAAAAAG
Found at i:18861187 original size:28 final size:28
Alignment explanation
Indices: 18861147--18861272 Score: 171
Period size: 28 Copynumber: 4.5 Consensus size: 28
18861137 TGACTTTCGA
*
18861147 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
18861175 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * *
18861203 CGCTAAGTGTGAGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
18861231 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
18861259 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
18861273 ACTTATTAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:18862013 original size:23 final size:23
Alignment explanation
Indices: 18861979--18862145 Score: 138
Period size: 23 Copynumber: 7.2 Consensus size: 23
18861969 TGGTTATATT
*
18861979 TATGCTGCCCAAATTGTTTTATA
1 TATGCTGCCCAAATTGTTGTATA
* * * *
18862002 TATGCTGTCCAATTTTGATGTAAA
1 TATGCTGCCCAA-ATTGTTGTATA
* * * * *
18862026 AATGCTGCTCAATTTGGTATATA
1 TATGCTGCCCAAATTGTTGTATA
*
18862049 TAGGCTGCCCAAATTGTTGTATA
1 TATGCTGCCCAAATTGTTGTATA
* * *
18862072 TATGCTGTCCAATTTTTATGCTA-A
1 TATGCTGCCCAAATTGT-TG-TATA
* * * *
18862096 AATGCTGCTCAATTTGATGTATA
1 TATGCTGCCCAAATTGTTGTATA
18862119 TATGCTGCCCAAATTGTTGTATA
1 TATGCTGCCCAAATTGTTGTATA
18862142 TATG
1 TATG
18862146 TTGTCCAATT
Statistics
Matches: 110, Mismatches: 30, Indels: 8
0.74 0.20 0.05
Matches are distributed among these distances:
22 2 0.02
23 75 0.68
24 31 0.28
25 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (23 bp):
TATGCTGCCCAAATTGTTGTATA
Found at i:18862049 original size:47 final size:46
Alignment explanation
Indices: 18861980--18862219 Score: 141
Period size: 47 Copynumber: 5.1 Consensus size: 46
18861970 GGTTATATTT
* * *
18861980 ATGCTGCCCAAATTGTTTTATATATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCTCAATTTGTTATATATATGCTGTCCAA-TTTGATGTAAAA
* * * * * * *
18862027 ATGCTGCTCAATTTGGTATATATAGGCTGCCCAAATTGTTGTATAT
1 ATGCTGCTCAATTTGTTATATATATGCTGTCCAATTTGATGTAAAA
* * * *
18862073 ATGCTG-TCCAATTT-TTATGCTAAAATGCTG-CTCAATTTGATGTATAT
1 ATGCTGCT-CAATTTGTTAT-AT-ATATGCTGTC-CAATTTGATGTAAAA
* * * * * *
18862120 ATGCTGCCCAAATTGTTGTATATATGTTGTCCAATTTTTGGTGTGAAA
1 ATGCTGCTCAATTTGTTATATATATGCTGTCCAA--TTTGATGTAAAA
* *
18862168 ATGCTG-TCTAGTTTGGTATATGA-ATGCTGTCCAAATTT-ATGTAAAA
1 ATGCTGCTC-AATTTGTTATAT-ATATGCTGTCC-AATTTGATGTAAAA
*
18862214 AGGCTG
1 ATGCTG
18862220 TCCAAACAGG
Statistics
Matches: 146, Mismatches: 35, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
45 4 0.03
46 42 0.29
47 64 0.44
48 33 0.23
49 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (46 bp):
ATGCTGCTCAATTTGTTATATATATGCTGTCCAATTTGATGTAAAA
Found at i:18862086 original size:70 final size:69
Alignment explanation
Indices: 18861973--18862204 Score: 306
Period size: 70 Copynumber: 3.3 Consensus size: 69
18861963 AAAATGTGGT
* *
18861973 TATATTTATGCTGCCCAAATTGTTTTATATATGCTGTCCAATTTTGATGTAAAAATGCTGCTCAA
1 TATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGT-AAAATGCTGCTCAA
18862038 TTTGG
65 TTTGG
* *
18862043 TATATATAGGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTATGCTAAAATGCTGCTCAA
1 TATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATG-TAAAATGCTGCTCAA
*
18862108 TTTGA
65 TTTGG
* * *
18862113 TGTATATATGCTGCCCAAATTGTTGTATATATGTTGTCCAATTTTTGGTGTGAAAATGCTG-TCT
1 TATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAA-TTTTGATGT-AAAATGCTGCTC-
*
18862177 AGTTTGG
63 AATTTGG
*
18862184 TATATGA-ATGCTGTCCAAATT
1 TATAT-ATATGCTGCCCAAATT
18862205 TATGTAAAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
70 104 0.73
71 38 0.27
72 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (69 bp):
TATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGTAAAATGCTGCTCAAT
TTGG
Found at i:18864639 original size:21 final size:20
Alignment explanation
Indices: 18864615--18864657 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
18864605 CTGAAAAACC
18864615 AAAAAATAATAATCAAAATAA
1 AAAAAATAATAATCAAAA-AA
* * *
18864636 AAAATATACTTATCAAAAAA
1 AAAAAATAATAATCAAAAAA
18864656 AA
1 AA
18864658 GTGACAGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATAATAATCAAAAAA
Found at i:18874282 original size:229 final size:229
Alignment explanation
Indices: 18873881--18874339 Score: 918
Period size: 229 Copynumber: 2.0 Consensus size: 229
18873871 AGGAAATATG
18873881 CTTCAACCGACAAGTAACCAGGAATGGTCAACAAGAAAACTGAATACGCTTGATATGAAGATTTT
1 CTTCAACCGACAAGTAACCAGGAATGGTCAACAAGAAAACTGAATACGCTTGATATGAAGATTTT
18873946 CATTCTGTCACACATATGCATTTCCACCAATCAAATATAATTACCTCATCTTTGAAATGTTTTTT
66 CATTCTGTCACACATATGCATTTCCACCAATCAAATATAATTACCTCATCTTTGAAATGTTTTTT
18874011 TGTAGCAAACAAGTTGTTGCAAGTTCCCAGTGATGCCGAGCGGCCAATCGTGTGAAAGGAAAATA
131 TGTAGCAAACAAGTTGTTGCAAGTTCCCAGTGATGCCGAGCGGCCAATCGTGTGAAAGGAAAATA
18874076 TCAATCGGTTCCTCTAGGTGCATGAGCTTGTGAA
196 TCAATCGGTTCCTCTAGGTGCATGAGCTTGTGAA
18874110 CTTCAACCGACAAGTAACCAGGAATGGTCAACAAGAAAACTGAATACGCTTGATATGAAGATTTT
1 CTTCAACCGACAAGTAACCAGGAATGGTCAACAAGAAAACTGAATACGCTTGATATGAAGATTTT
18874175 CATTCTGTCACACATATGCATTTCCACCAATCAAATATAATTACCTCATCTTTGAAATGTTTTTT
66 CATTCTGTCACACATATGCATTTCCACCAATCAAATATAATTACCTCATCTTTGAAATGTTTTTT
18874240 TGTAGCAAACAAGTTGTTGCAAGTTCCCAGTGATGCCGAGCGGCCAATCGTGTGAAAGGAAAATA
131 TGTAGCAAACAAGTTGTTGCAAGTTCCCAGTGATGCCGAGCGGCCAATCGTGTGAAAGGAAAATA
18874305 TCAATCGGTTCCTCTAGGTGCATGAGCTTGTGAA
196 TCAATCGGTTCCTCTAGGTGCATGAGCTTGTGAA
18874339 C
1 C
18874340 ATCATACTCC
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (229 bp):
CTTCAACCGACAAGTAACCAGGAATGGTCAACAAGAAAACTGAATACGCTTGATATGAAGATTTT
CATTCTGTCACACATATGCATTTCCACCAATCAAATATAATTACCTCATCTTTGAAATGTTTTTT
TGTAGCAAACAAGTTGTTGCAAGTTCCCAGTGATGCCGAGCGGCCAATCGTGTGAAAGGAAAATA
TCAATCGGTTCCTCTAGGTGCATGAGCTTGTGAA
Found at i:18882965 original size:23 final size:22
Alignment explanation
Indices: 18882934--18882978 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
18882924 CATTATGTAT
18882934 TATTATA-TTAAGTTTCTTCATA
1 TATTATATTTAA-TTTCTTCATA
18882956 TATTAATATTTAATTTCTTCATA
1 TATT-ATATTTAATTTCTTCATA
18882979 AATCATCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATATTTAATTTCTTCATA
Found at i:18883199 original size:24 final size:25
Alignment explanation
Indices: 18883154--18883207 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
18883144 AGCTATACAT
18883154 TTTTATAATATATATATGTACATATA
1 TTTTATAATATATATA-GTACATATA
18883180 TTTTATAAT-TCATATA-TACATATA
1 TTTTATAATAT-ATATAGTACATATA
18883204 TTTT
1 TTTT
18883208 TGTTATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.44
25 1 0.04
26 14 0.52
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTTATAATATATATAGTACATATA
Found at i:18883261 original size:12 final size:12
Alignment explanation
Indices: 18883244--18883315 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 12
18883234 ATATACACAC
18883244 ATTTTTATTTTT
1 ATTTTTATTTTT
18883256 ATTTTTATTTTTT
1 ATTTTTA-TTTTT
* * *
18883269 ATATATAGTTTT
1 ATTTTTATTTTT
18883281 ATTTATTTATGTATTT
1 A-TT-TTTAT-T-TTT
18883297 ATTTATTTATTTTT
1 A-TT-TTTATTTTT
18883311 ATTTT
1 ATTTT
18883316 ACTTGATGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
12 14 0.29
13 13 0.27
14 7 0.14
15 2 0.04
16 13 0.27
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:18883285 original size:4 final size:4
Alignment explanation
Indices: 18883278--18883308 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
18883268 TATATATAGT
*
18883278 TTTA TTTA TTTA TGTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
18883309 TTATTTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18883413 original size:8 final size:8
Alignment explanation
Indices: 18883402--18883436 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
18883392 TATATACATA
*
18883402 TTTATACT
1 TTTATAAT
*
18883410 TTTATATT
1 TTTATAAT
18883418 TTTATAAT
1 TTTATAAT
18883426 TTTATAAT
1 TTTATAAT
18883434 TTT
1 TTT
18883437 GTTCATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTATAAT
Found at i:18891737 original size:40 final size:40
Alignment explanation
Indices: 18891684--18891808 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
18891674 TTTGGACAAA
* * ** *
18891684 AAAACGTCGCTAAAAATCGAGCATTAGTTGCGCTTTTCA-T
1 AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTT-AGG
*
18891724 AAAACGCCACTAAAGATCGAGCATTAGCGGCGCTTTTAGG
1 AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTTAGG
* * * *
18891764 AAAGCGCCACTAAAAAT-GAGAATTAGCGGCGTTTTTTAGA
1 AAAACGCCACTAAAAATCGAGCATTAGCGGCG-CTTTTAGG
18891804 AAAAC
1 AAAAC
18891809 ACCGCAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
39 14 0.20
40 57 0.80
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTTAGG
Found at i:18891921 original size:41 final size:40
Alignment explanation
Indices: 18891852--18891965 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 40
18891842 TTAACCTTTT
* *
18891852 GGGGATTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCG-TTTTGAAAAAGCGCCGCTAATGCTC
* *
18891893 GGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTT-GAAAAAGCGCCGCTAATGCTC
* * *
18891934 AGAGCTTTAGCGGCATTTTGAAAAAGCGCCGC
1 GGGGCTTTAGCGGCGTTTTGAAAAAGCGCCGC
18891966 AAAAACATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 15 0.24
41 48 0.76
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (40 bp):
GGGGCTTTAGCGGCGTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:18892150 original size:30 final size:30
Alignment explanation
Indices: 18892061--18892151 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
18892051 AAAATTGGAT
*
18892061 AAATAGAAAAATTAAAATACTATTATCT-A
1 AAATAGAAAAATTAAAATACTATTATTTAA
* *
18892090 AAATA-AAAAACATAGAAA-AATATT-TGTTAA
1 AAATAGAAAAA-TTA-AAATACTATTAT-TTAA
18892120 AAATAGAAAAATTAAAATACTATTATTTAA
1 AAATAGAAAAATTAAAATACTATTATTTAA
18892150 AA
1 AA
18892152 TAATTTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
28 6 0.12
29 16 0.32
30 22 0.44
31 6 0.12
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (30 bp):
AAATAGAAAAATTAAAATACTATTATTTAA
Found at i:18892404 original size:14 final size:15
Alignment explanation
Indices: 18892376--18892408 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
18892366 AAGATTTATA
18892376 GATTATGGAATTAGG
1 GATTATGGAATTAGG
18892391 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
18892405 GATT
1 GATT
18892409 CTGGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:18892654 original size:90 final size:88
Alignment explanation
Indices: 18892495--18892663 Score: 250
Period size: 90 Copynumber: 1.9 Consensus size: 88
18892485 ATGTCAAGTC
* * * *
18892495 AGGGCTTAGGGTTTAGGTTAATTAGTATGTTTTAATCTATATTAAATAAGGTTTAGGGGTTAGAG
1 AGGGCTTAAGGTTTAGATTAATTAGTATGTTTTAATATATATTAAATAAGGTTTAGGGGTTAGAA
18892560 GTTAGGGGTTAGGGATTCGAGAT
66 GTTAGGGGTTAGGGATTCGAGAT
* *
18892583 AGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTA-
1 AGGGCTTAAGGTTTAGATTAATTAGTATGTTTTAA--TATATATTAAATAAGGTTTAGGGGTTAG
18892647 ATAGTTAGGGGTTAGGG
64 A-AGTTAGGGGTTAGGG
18892664 GTTAGGGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
88 31 0.43
89 1 0.01
90 40 0.56
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.40
Consensus pattern (88 bp):
AGGGCTTAAGGTTTAGATTAATTAGTATGTTTTAATATATATTAAATAAGGTTTAGGGGTTAGAA
GTTAGGGGTTAGGGATTCGAGAT
Found at i:18898258 original size:42 final size:43
Alignment explanation
Indices: 18898211--18898394 Score: 198
Period size: 42 Copynumber: 4.3 Consensus size: 43
18898201 AGATTATGTT
* * * *
18898211 TTTAGCGGCGTTTTTGCGAGAAGCGCCGCAAAAGGT-TTGTTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
18898253 TTTAGCGGCGTTTGTGGGCAAAA-CACAGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTTTGGG-AAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
18898296 TTTTGTGGCGTTTGTGGGAAAAGCGCCACTAAA-GTCTTGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
18898338 TTTAACGGCGTTTGTT--GAAAAGCGCCGCTAAAGGTCTTGATC
1 TTTAGCGGCGTTT-TTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
18898380 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
18898395 TTCTAGTTAG
Statistics
Matches: 118, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
41 17 0.14
42 69 0.58
43 32 0.27
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:18899179 original size:9 final size:9
Alignment explanation
Indices: 18899165--18899233 Score: 53
Period size: 9 Copynumber: 8.3 Consensus size: 9
18899155 TTTATAAGTT
18899165 TATTATATA
1 TATTATATA
18899174 TATTAT-TA
1 TATTATATA
18899182 -A-TATATA
1 TATTATATA
*
18899189 TATTCT-TA
1 TATTATATA
*
18899197 -ATGAT-TA
1 TATTATATA
*
18899204 -AGTATATA
1 TATTATATA
18899212 TATTATATA
1 TATTATATA
18899221 TATTATATTA
1 TATTATA-TA
18899231 TAT
1 TAT
18899234 AATAAAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
6 3 0.06
7 11 0.23
8 7 0.15
9 22 0.46
10 5 0.10
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (9 bp):
TATTATATA
Found at i:18899292 original size:10 final size:10
Alignment explanation
Indices: 18899248--18899322 Score: 60
Period size: 10 Copynumber: 7.1 Consensus size: 10
18899238 AAAAACAAAT
*
18899248 AAAGAAATAA
1 AAAGAAAGAA
18899258 AAAGAAATAGAA
1 AAAG-AA-AGAA
*
18899270 AGAACAAACGAA
1 A-AAGAAA-GAA
18899282 AAAGAAAGAA
1 AAAGAAAGAA
* *
18899292 ACAGAAAGGA
1 AAAGAAAGAA
*
18899302 AAGGAAAGAA
1 AAAGAAAGAA
*
18899312 AGAGAAAGAA
1 AAAGAAAGAA
18899322 A
1 A
18899323 GGTTAGGGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
10 31 0.61
11 8 0.16
12 10 0.20
13 2 0.04
ACGTcount: A:0.72, C:0.04, G:0.21, T:0.03
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:18900321 original size:40 final size:39
Alignment explanation
Indices: 18900182--18900322 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 39
18900172 ACTTCGAGTC
* *
18900182 GATGAGACACTGGGTGTCAAATTATTACTTCGGATATAT-T
1 GATGAGGCACTGGGTGCCAAATT-TTACTTC-GATATATCT
* *
18900222 CGATGAGGCATTGGGTGCC-AA-TTTACTTCGATTTAGTC-
1 -GATGAGGCACTGGGTGCCAAATTTTACTTCGATATA-TCT
* * ** *
18900260 GATGAGACACTAGGTATCAAATTCTTACTTCGAAATATCT
1 GATGAGGCACTGGGTGCCAAATT-TTACTTCGATATATCT
*
18900300 GATAAGGCACTGGGTGCCAAATT
1 GATGAGGCACTGGGTGCCAAATT
18900323 GGTGTATTGG
Statistics
Matches: 78, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
37 18 0.23
38 10 0.13
39 4 0.05
40 31 0.40
41 15 0.19
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (39 bp):
GATGAGGCACTGGGTGCCAAATTTTACTTCGATATATCT
Found at i:18907487 original size:18 final size:17
Alignment explanation
Indices: 18907464--18907508 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 17
18907454 TTACAGGTTT
18907464 GTTGCTTACATAAGAAG
1 GTTGCTTACATAAGAAG
18907481 CGTTGCTTACATAAGAAG
1 -GTTGCTTACATAAGAAG
18907499 GATTGCTTAC
1 G-TTGCTTAC
18907509 CTTCTTTGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (17 bp):
GTTGCTTACATAAGAAG
Found at i:18911794 original size:20 final size:20
Alignment explanation
Indices: 18911769--18911830 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
18911759 GATAGTAATA
18911769 ACAGTAGTTAAACGGAACTT
1 ACAGTAGTTAAACGGAACTT
* * * *
18911789 ACAGTA-TGATA-GTAA-TA
1 ACAGTAGTTAAACGGAACTT
*
18911806 ACAATAGTTAAACGGAACTT
1 ACAGTAGTTAAACGGAACTT
18911826 ACAGT
1 ACAGT
18911831 GATGTTCCAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
17 6 0.21
18 6 0.21
19 6 0.21
20 11 0.38
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
ACAGTAGTTAAACGGAACTT
Found at i:18911807 original size:37 final size:37
Alignment explanation
Indices: 18911757--18911830 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
18911747 AATTTTAATA
*
18911757 ATGATAGTAATAACAGTAGTTAAACGGAACTTACAGT
1 ATGATAGTAATAACAATAGTTAAACGGAACTTACAGT
18911794 ATGATAGTAATAACAATAGTTAAACGGAACTTACAGT
1 ATGATAGTAATAACAATAGTTAAACGGAACTTACAGT
18911831 GATGTTCCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (37 bp):
ATGATAGTAATAACAATAGTTAAACGGAACTTACAGT
Found at i:18917484 original size:28 final size:28
Alignment explanation
Indices: 18917453--18917509 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
18917443 TATATTTTCA
18917453 ATTTGTGTATTGTTTTAAGAATTGTTTT
1 ATTTGTGTATTGTTTTAAGAATTGTTTT
* * * *
18917481 ATTTGTTTTTTGTTTTAATATTTGTTTT
1 ATTTGTGTATTGTTTTAAGAATTGTTTT
18917509 A
1 A
18917510 AAATTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (28 bp):
ATTTGTGTATTGTTTTAAGAATTGTTTT
Found at i:18917521 original size:19 final size:19
Alignment explanation
Indices: 18917462--18917522 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
18917452 AATTTGTGTA
18917462 TTGTTTTAAGAATTGTTTTAT
1 TTGTTTTAA-AATT-TTTTAT
*** *
18917483 TTGTTTT-TTGTTTTAATAT
1 TTGTTTTAAAATTTT-TTAT
18917502 TTGTTTTAAAATTTTTTAT
1 TTGTTTTAAAATTTTTTAT
18917521 TT
1 TT
18917523 AATGAAATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
18 2 0.07
19 17 0.57
20 4 0.13
21 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
TTGTTTTAAAATTTTTTAT
Found at i:18920259 original size:47 final size:47
Alignment explanation
Indices: 18920190--18920283 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
18920180 AAGATTGATA
18920190 GTATTTATGTTCTAAAATGATCAACGGTGATCGGTGAAATCGAACGT
1 GTATTTATGTTCTAAAATGATCAACGGTGATCGGTGAAATCGAACGT
18920237 GTATTTATGTTCTAAAATGATCAACGGTGATCGGTGAAATCGAACGT
1 GTATTTATGTTCTAAAATGATCAACGGTGATCGGTGAAATCGAACGT
18920284 CCCTCGTCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (47 bp):
GTATTTATGTTCTAAAATGATCAACGGTGATCGGTGAAATCGAACGT
Found at i:18924270 original size:14 final size:14
Alignment explanation
Indices: 18924248--18924285 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
18924238 CGAAAATCTT
18924248 CACCTCCACCAGA-C
1 CACCTCCACCA-ATC
*
18924262 CACCACCACCAATC
1 CACCTCCACCAATC
18924276 CACCTCCACC
1 CACCTCCACC
18924286 TCCGGTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 1 0.05
14 20 0.95
ACGTcount: A:0.29, C:0.61, G:0.03, T:0.08
Consensus pattern (14 bp):
CACCTCCACCAATC
Found at i:18925234 original size:14 final size:14
Alignment explanation
Indices: 18925215--18925241 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18925205 TTAAAAAAAT
18925215 TTAAGTTTGATTTA
1 TTAAGTTTGATTTA
18925229 TTAAGTTTGATTT
1 TTAAGTTTGATTT
18925242 TAAACCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTAAGTTTGATTTA
Found at i:18929057 original size:26 final size:26
Alignment explanation
Indices: 18929028--18929092 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
18929018 TAACTTATGT
* * *
18929028 AATTTTTTATAACTTTCTATTTTTAC
1 AATTTTTTAAAACTTTATAATTTTAC
* * *
18929054 AATTTTCTAAAATTTTATAATTTTAT
1 AATTTTTTAAAACTTTATAATTTTAC
18929080 AATTTTTTTAAAA
1 AA-TTTTTTAAAA
18929093 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (26 bp):
AATTTTTTAAAACTTTATAATTTTAC
Found at i:18929075 original size:8 final size:8
Alignment explanation
Indices: 18928982--18929085 Score: 55
Period size: 8 Copynumber: 12.0 Consensus size: 8
18928972 AAAAGGGCCA
18928982 ATAATTTT
1 ATAATTTT
*
18928990 AAAATTTT
1 ATAATTTT
18928998 ATAATATTT
1 ATAAT-TTT
*
18929007 AACAATTTT
1 -ATAATTTT
*
18929016 AATAACTTAT
1 -ATAA-TTTT
*
18929026 GTAATTTTTT
1 ATAA--TTTT
*
18929036 ATAACTTT
1 ATAATTTT
* *
18929044 CTATTTTT
1 ATAATTTT
*
18929052 ACAATTTTCT
1 ATAA-TTT-T
*
18929062 AAAATTTT
1 ATAATTTT
18929070 ATAATTTT
1 ATAATTTT
18929078 ATAATTTT
1 ATAATTTT
18929086 TTTAAAAAAT
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
8 36 0.50
9 19 0.26
10 17 0.24
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.56
Consensus pattern (8 bp):
ATAATTTT
Found at i:18929383 original size:10 final size:10
Alignment explanation
Indices: 18929370--18929402 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18929360 TTTTTTTATA
18929370 TTTTTAAAAC
1 TTTTTAAAAC
18929380 -TTTTAAAAC
1 TTTTTAAAAC
*
18929389 TTTTTAATAC
1 TTTTTAAAAC
18929399 TTTT
1 TTTT
18929403 AATAAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTTAAAAC
Found at i:18929406 original size:9 final size:9
Alignment explanation
Indices: 18929371--18929404 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18929361 TTTTTTATAT
18929371 TTTTAAAAC
1 TTTTAAAAC
18929380 TTTTAAAAC
1 TTTTAAAAC
*
18929389 TTTTTAATAC
1 -TTTTAAAAC
18929399 TTTTAA
1 TTTTAA
18929405 TAAGTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTAAAAC
Found at i:18929436 original size:11 final size:11
Alignment explanation
Indices: 18929422--18929446 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18929412 ATATAACTTC
18929422 TATAATTTTTA
1 TATAATTTTTA
18929433 TATAATTTTTA
1 TATAATTTTTA
18929444 TAT
1 TAT
18929447 TTAAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:18929445 original size:20 final size:19
Alignment explanation
Indices: 18929362--18929445 Score: 57
Period size: 20 Copynumber: 4.4 Consensus size: 19
18929352 TATAAATTTT
18929362 TTTTTAT-ATTTTTAA-AA
1 TTTTTATAATTTTTAATAA
* * *
18929379 CTTTTAAAACTTTTTAATAC
1 TTTTTATAA-TTTTTAATAA
* *
18929399 TTTTAATAA-GTTTATATAA
1 TTTTTATAATTTTTA-ATAA
* *
18929418 CTTCTATAATTTTTATATAA
1 TTTTTATAATTTTTA-ATAA
18929438 TTTTTATA
1 TTTTTATA
18929446 TTTAAAACTT
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
17 5 0.10
18 5 0.10
19 16 0.33
20 22 0.46
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAA
Found at i:18929472 original size:55 final size:54
Alignment explanation
Indices: 18929391--18929496 Score: 119
Period size: 55 Copynumber: 1.9 Consensus size: 54
18929381 TTTAAAACTT
*
18929391 TTTAATACTTTTAATAAGTTTATATAACTTCTATAATT-TTTATATAAT-TTTTATA
1 TTTAAAACTTTTAATAAGTTTATATAA-TT-T-TAATTATTTATATAATATTTTATA
* * *
18929446 TTTAAAACTTTTCTATAA-TTTCTATAATTTTAATTATTTATGTAATATTTT
1 TTTAAAACTTTT-AATAAGTTTATATAATTTTAATTATTTATATAATATTTT
18929497 GCATATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
52 5 0.11
53 10 0.23
54 6 0.14
55 19 0.43
56 4 0.09
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (54 bp):
TTTAAAACTTTTAATAAGTTTATATAATTTTAATTATTTATATAATATTTTATA
Found at i:18929663 original size:31 final size:30
Alignment explanation
Indices: 18929628--18929713 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
18929618 TTTTAGACTT
*
18929628 AAATAATTAAAAATCAATTAAGTCTTCCTAA
1 AAATAATTAAAAATCAATTAAGCCTTCCT-A
* * * **
18929659 AAATAAATAAACAAGCAATTAAACCTTTGTA
1 AAATAATTAAA-AATCAATTAAGCCTTCCTA
* *
18929690 AAATAATTAAAGATCATTTAAGCC
1 AAATAATTAAAAATCAATTAAGCC
18929714 CATTATGTCA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
30 9 0.21
31 21 0.49
32 13 0.30
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (30 bp):
AAATAATTAAAAATCAATTAAGCCTTCCTA
Found at i:18947601 original size:21 final size:20
Alignment explanation
Indices: 18947577--18947615 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18947567 TAAAAAAAAT
18947577 TATAATATTTTTATGAATAAG
1 TATAATATTTTTAT-AATAAG
*
18947598 TATATTATTTTTATAATA
1 TATAATATTTTTATAATA
18947616 TATAACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TATAATATTTTTATAATAAG
Found at i:18948234 original size:17 final size:17
Alignment explanation
Indices: 18948204--18948241 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
18948194 TCAAATATTA
18948204 AAAATTGAAATAAAAT-
1 AAAATTGAAATAAAATC
*
18948220 AAAATTTAAAGTAAAATC
1 AAAATTGAAA-TAAAATC
18948238 AAAA
1 AAAA
18948242 GAAATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAATTGAAATAAAATC
Found at i:18949785 original size:17 final size:17
Alignment explanation
Indices: 18949755--18949800 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
18949745 CAATTAAGTT
* *
18949755 ATTTTTGAAGTTTTAAA
1 ATTTTTAAAATTTTAAA
* *
18949772 GTTTTTTAAATTTTAAA
1 ATTTTTAAAATTTTAAA
18949789 ATTTTTAAAATT
1 ATTTTTAAAATT
18949801 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
ATTTTTAAAATTTTAAA
Found at i:18955086 original size:24 final size:24
Alignment explanation
Indices: 18955057--18955108 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
18955047 TTTCTAGAAG
*
18955057 ATTTAGTATTTATTAGTATAGTAT
1 ATTTAGCATTTATTAGTATAGTAT
*
18955081 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAGTAT
18955105 ATTT
1 ATTT
18955109 GACTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAGTAT
Found at i:18956709 original size:24 final size:24
Alignment explanation
Indices: 18956677--18956725 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
18956667 TTTCTTCTAC
*
18956677 TATTTTTACTTGTTCGTTGCTTAA
1 TATTTTTACTTATTCGTTGCTTAA
*
18956701 TATTTTTACTTATTTGTTGCTTAA
1 TATTTTTACTTATTCGTTGCTTAA
18956725 T
1 T
18956726 CGGGACGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (24 bp):
TATTTTTACTTATTCGTTGCTTAA
Found at i:18957232 original size:26 final size:26
Alignment explanation
Indices: 18957203--18957252 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18957193 TTCGGTTTTA
*
18957203 TTTAAAAT-ATTTATTTCGATTTTAAT
1 TTTAAAATGATTT-CTTCGATTTTAAT
*
18957229 TTTAAATTGATTTCTTCGATTTTA
1 TTTAAAATGATTTCTTCGATTTTA
18957253 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATGATTTCTTCGATTTTAAT
Found at i:18958072 original size:27 final size:28
Alignment explanation
Indices: 18958013--18958083 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
18958003 ATAAAATTTG
*
18958013 TTATAATTA-TA-A-ATTTAACAAATAT
1 TTATAATTATTACATATTTAACAAATAC
18958038 TGTGATAATTATTACATATTTAA-AAATAC
1 T-T-ATAATTATTACATATTTAACAAATAC
18958067 TTATAATTTAATTACAT
1 TTATAA-TT-ATTACAT
18958084 TTATTATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 11 0.29
28 5 0.13
29 14 0.37
30 6 0.16
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (28 bp):
TTATAATTATTACATATTTAACAAATAC
Found at i:18960273 original size:49 final size:49
Alignment explanation
Indices: 18960200--18960304 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 49
18960190 TCATGTGTTA
* * *
18960200 TAATTTTATAAAGTGTTGAGCTTTTGACTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGACTCATGATATTAAACTTAATTT
*
18960249 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGACTCATGATATTAAACTTAATTT
18960298 TAATTTT
1 TAATTTT
18960305 TTTTCTTAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGACTCATGATATTAAACTTAATTT
Found at i:18961726 original size:21 final size:20
Alignment explanation
Indices: 18961681--18961727 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
18961671 AAATAATAAA
*
18961681 TTAG-ATTATACATTATTTT
1 TTAGTATTATACATTATATT
*
18961700 TATAGTATTATATATTATGATT
1 T-TAGTATTATACATTAT-ATT
18961722 TTAGTA
1 TTAGTA
18961728 AATTCATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 16 0.70
22 3 0.13
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (20 bp):
TTAGTATTATACATTATATT
Found at i:18961761 original size:10 final size:10
Alignment explanation
Indices: 18961743--18961815 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
18961733 ATATAAGAAT
*
18961743 AATTATATTG
1 AATTATATTA
*
18961753 AATTTTATTA
1 AATTATATTA
18961763 AATTATA-T-
1 AATTATATTA
* *
18961771 ATTTTTATTA
1 AATTATATTA
*
18961781 AATTATATTT
1 AATTATATTA
18961791 AA-TA-A-T-
1 AATTATATTA
*
18961797 AATTATTTTA
1 AATTATATTA
18961807 AATTATATT
1 AATTATATT
18961816 TTATAATATT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 6 0.13
9 5 0.11
10 31 0.66
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (10 bp):
AATTATATTA
Found at i:18961807 original size:26 final size:26
Alignment explanation
Indices: 18961740--18961827 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
18961730 TTCATATAAG
* * * *
18961740 AATAATTATATTGAATTTTATTAAAT
1 AATAATTATTTTAAATTATATTTAAT
* *
18961766 TATATATTTTTATTAAATTATATTTAAT
1 AATA-ATTATT-TTAAATTATATTTAAT
*
18961794 AATAATTATTTTAAATTATATTTTAT
1 AATAATTATTTTAAATTATATTTAAT
18961820 AAT-ATTAT
1 AATAATTAT
18961828 ATATTATGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 5 0.10
26 21 0.41
27 9 0.18
28 16 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (26 bp):
AATAATTATTTTAAATTATATTTAAT
Found at i:18961831 original size:117 final size:118
Alignment explanation
Indices: 18961692--18961928 Score: 415
Period size: 120 Copynumber: 2.0 Consensus size: 118
18961682 TAGATTATAC
*
18961692 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATT-GAA
1 ATTATTTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
*
18961755 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
*
18961808 ATTATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTAT-TTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATATT-AG
18961873 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
64 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
18961928 A
1 A
18961929 ATATGATTAA
Statistics
Matches: 114, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
116 5 0.04
117 48 0.42
118 5 0.04
120 56 0.49
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (118 bp):
ATTATTTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:18961833 original size:22 final size:24
Alignment explanation
Indices: 18961808--18961854 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
18961798 ATTATTTTAA
18961808 ATTAT-ATTTTA-TAATATT-ATAT
1 ATTATGATTTTAGTAA-ATTCATAT
18961830 ATTATGATTTTAGTAAATTCATAT
1 ATTATGATTTTAGTAAATTCATAT
18961854 A
1 A
18961855 AGAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTATGATTTTAGTAAATTCATAT
Found at i:18961863 original size:59 final size:59
Alignment explanation
Indices: 18961706--18961893 Score: 195
Period size: 59 Copynumber: 3.2 Consensus size: 59
18961696 TTTTTATAGT
* * *
18961706 ATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTATATTGA-ATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAAATTAATATTTTATTAA
* * ** * * * *
18961764 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAAATT-ATATTTTA-TAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAAATTAATATTTTATTAA
*
18961822 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 -ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAA-ATTAA-TATTTTATTAA
18961884 ATTATATATT
1 ATTATATATT
18961894 TTTATTAAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
57 6 0.06
58 32 0.31
59 38 0.37
60 7 0.07
61 16 0.16
62 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (59 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAAATTAATATTTTATTAA
Found at i:18961869 original size:37 final size:37
Alignment explanation
Indices: 18961820--18961891 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
18961810 TATATTTTAT
*
18961820 AATATTATATATTATG-ATTTTAGTAAATTCATATAAG
1 AATATTATATATTAAGAATTTTAGTAAATT-ATATAAG
*
18961857 AATATT-TAATATTAAGAATTTTATTAAATTATATA
1 AATATTAT-ATATTAAGAATTTTAGTAAATTATATA
18961892 TTTTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.03
37 18 0.58
38 12 0.39
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (37 bp):
AATATTATATATTAAGAATTTTAGTAAATTATATAAG
Found at i:18962156 original size:45 final size:44
Alignment explanation
Indices: 18962067--18962173 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 44
18962057 ATTACAACAT
* *
18962067 CATTCTATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
18962111 CATTCCATTCAACCAAACA-ATTGAATTACTATTAC-GCCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAG-CTCTATTC
* * *
18962156 CATTACAGTGAACCAAAC
1 CATTCCATTCAACCAAAC
18962174 GTGCCCTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.41
45 31 0.57
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:18964076 original size:22 final size:21
Alignment explanation
Indices: 18964043--18964083 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18964033 CTTACGAATT
*
18964043 TTCACTTGTAATATGATTAAA
1 TTCACTTGTAATATCATTAAA
*
18964064 TTCATTTGATAATATCATTA
1 TTCACTTG-TAATATCATTA
18964084 TCATTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TTCACTTGTAATATCATTAAA
Found at i:18964977 original size:63 final size:63
Alignment explanation
Indices: 18964896--18965052 Score: 183
Period size: 63 Copynumber: 2.5 Consensus size: 63
18964886 ACATAATAAG
* * * * * * *
18964896 ACACACAATAATTCCCTGCATCAACACCTTCAGCTCTAGTTTATTTTACATAAGCATC-ACAAC
1 ACACACAATCATTTCCTGCATCAACACATTCAACACCAGTTTATTTTACACAAGC-TCTACAAC
* *
18964959 ACACACAATCATTTCCTGCATCAGCACATTTAACACCAGTTTATTTTACACAAGCTCTACAAC
1 ACACACAATCATTTCCTGCATCAACACATTCAACACCAGTTTATTTTACACAAGCTCTACAAC
* *
18965022 ACGCACAATCA-TTCTTTGCATCAACACATTC
1 ACACACAATCATTTC-CTGCATCAACACATTC
18965053 TCCAGGGGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
62 5 0.06
63 74 0.94
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (63 bp):
ACACACAATCATTTCCTGCATCAACACATTCAACACCAGTTTATTTTACACAAGCTCTACAAC
Found at i:18969889 original size:2 final size:2
Alignment explanation
Indices: 18969882--18969927 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
18969872 GCGTGCGCGT
18969882 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18969924 GA GA
1 GA GA
18969928 CGTACTGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18973587 original size:29 final size:29
Alignment explanation
Indices: 18973533--18973609 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
18973523 TATTAACTAT
*
18973533 TTAAACTAATTAATTACGTTACAAAAATA
1 TTAAACTAATTAATTACATTACAAAAATA
*
18973562 TTAAACTAATTAA-TAGCATTATAAAAATA
1 TTAAACTAATTAATTA-CATTACAAAAATA
*
18973591 TAAAGACTGAATTATATTA
1 TTAA-ACT-AATTA-ATTA
18973610 AAAATTAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 27 0.68
30 3 0.08
31 5 0.12
32 1 0.03
33 2 0.05
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (29 bp):
TTAAACTAATTAATTACATTACAAAAATA
Found at i:18975867 original size:13 final size:14
Alignment explanation
Indices: 18975839--18975867 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18975829 TCACCTTACC
18975839 TTGAAAAACTTAGT
1 TTGAAAAACTTAGT
18975853 TTGAAAAACTT-GT
1 TTGAAAAACTTAGT
18975866 TT
1 TT
18975868 ACTTACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (14 bp):
TTGAAAAACTTAGT
Found at i:18976458 original size:14 final size:15
Alignment explanation
Indices: 18976434--18976462 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18976424 ATATGAGGGC
18976434 ATTTTTATATAAAAT
1 ATTTTTATATAAAAT
18976449 ATTTTT-TATAAAAT
1 ATTTTTATATAAAAT
18976463 GTTATTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTTATATAAAAT
Found at i:18978448 original size:30 final size:30
Alignment explanation
Indices: 18978412--18978479 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
18978402 AGATATAAGG
* *
18978412 GACACATGGCCATGTGTCATACACGGTTGA
1 GACACATGGCCATGTGTCACACACGGCTGA
* *
18978442 GACACATGGTCATGTGTCACACATGGCTGA
1 GACACATGGCCATGTGTCACACACGGCTGA
18978472 GACACATG
1 GACACATG
18978480 TCTGTGTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (30 bp):
GACACATGGCCATGTGTCACACACGGCTGA
Found at i:18980165 original size:25 final size:25
Alignment explanation
Indices: 18980113--18980187 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
18980103 GTACATGTAT
*
18980113 GCTCATACGAGCTGAATATCGGTTA
1 GCTCATACGAGCTGAATATCGGTAA
* *
18980138 GCTCATGCGAGTTGAATA-CTGGTAA
1 GCTCATACGAGCTGAATATC-GGTAA
*
18980163 GCTC-TCTCGAGCTGAGA-ATCGGTAA
1 GCTCAT-ACGAGCTGA-ATATCGGTAA
18980188 ACCTAATGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 2 0.05
25 37 0.90
26 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAATATCGGTAA
Found at i:18981408 original size:16 final size:16
Alignment explanation
Indices: 18981387--18981418 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18981377 TTTTCTCTGC
18981387 TGTTTTTCCTCCTCTA
1 TGTTTTTCCTCCTCTA
18981403 TGTTTTTCCTCCTCTA
1 TGTTTTTCCTCCTCTA
18981419 CTTTCTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.06, T:0.56
Consensus pattern (16 bp):
TGTTTTTCCTCCTCTA
Found at i:18981553 original size:14 final size:13
Alignment explanation
Indices: 18981519--18981544 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18981509 CAAATGGGTA
18981519 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
18981532 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
18981545 CAGTTTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTGCAAAT
Found at i:18986563 original size:14 final size:14
Alignment explanation
Indices: 18986540--18986579 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18986530 ACAGAAAAGT
*
18986540 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18986554 AAATCATTTTACGG
1 AAAACATTTTACAG
18986568 AAAACATTTTAC
1 AAAACATTTTAC
18986580 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18986565 original size:34 final size:35
Alignment explanation
Indices: 18986505--18986571 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18986495 AAACACCAGA
* *
18986505 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18986540 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18986572 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18986642 original size:21 final size:21
Alignment explanation
Indices: 18986604--18986645 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18986594 ACCCTTAAAG
*
18986604 TGTTTTAATTTTACTTTAATT
1 TGTTTTAATTTCACTTTAATT
18986625 TGTTTTAATTTC-CATTTAATT
1 TGTTTTAATTTCAC-TTTAATT
18986646 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTAATT
Found at i:18999015 original size:18 final size:19
Alignment explanation
Indices: 18998982--18999033 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
18998972 GGATTTAAAT
18998982 TTAAATATTAAAATT-ATTAAC
1 TTAAATA-T-AAATTAATT-AC
18999003 -TAAATATAAATTAATTAC
1 TTAAATATAAATTAATTAC
*
18999021 TTAAATTTAAATT
1 TTAAATATAAATT
18999034 GTTTTAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.25
19 15 0.54
20 6 0.21
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATATAAATTAATTAC
Found at i:19005431 original size:24 final size:24
Alignment explanation
Indices: 19005399--19005451 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
19005389 CTTCTAGAAG
* *
19005399 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATCAATATAATAT
19005423 ATTTAGTATTTATCAATATAATAT
1 ATTTAGTATTTATCAATATAATAT
19005447 ATTTA
1 ATTTA
19005452 ACTTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTTAGTATTTATCAATATAATAT
Found at i:19009831 original size:24 final size:24
Alignment explanation
Indices: 19009784--19009836 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
19009774 TTTCTAAAAG
** *
19009784 ATTTAATATTTATGAGTATGATAT
1 ATTTAATATTTATGAACATAATAT
*
19009808 ATTTAATATTTATTAACATAATAT
1 ATTTAATATTTATGAACATAATAT
19009832 ATTTA
1 ATTTA
19009837 CCTATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (24 bp):
ATTTAATATTTATGAACATAATAT
Found at i:19020244 original size:27 final size:27
Alignment explanation
Indices: 19020202--19020254 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19020192 AAAAGTGTCT
* *
19020202 AAATTAAATATCAAATTGGATAAAAAC
1 AAATTAAATATCAAATTAGAGAAAAAC
19020229 AAATTAAATA-CTAAATTAGAGAAAAA
1 AAATTAAATATC-AAATTAGAGAAAAA
19020255 AATATCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (27 bp):
AAATTAAATATCAAATTAGAGAAAAAC
Found at i:19023031 original size:11 final size:11
Alignment explanation
Indices: 19023003--19023045 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
19022993 TCACTACAAA
19023003 TCCTCTCATATT
1 TCCTCTCA-ATT
19023015 TCCTCTCAATT
1 TCCTCTCAATT
*
19023026 TTCTCTCAATT
1 TCCTCTCAATT
*
19023037 TCCTTTCAA
1 TCCTCTCAA
19023046 AATTCTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (11 bp):
TCCTCTCAATT
Found at i:19023051 original size:22 final size:23
Alignment explanation
Indices: 19023000--19023052 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
19022990 TTTTCACTAC
*
19023000 AAATCCTCTCATATTTCCTCTCA
1 AAATTCTCTCATATTTCCTCTCA
** *
19023023 ATTTTCTCTCA-ATTTCCTTTCA
1 AAATTCTCTCATATTTCCTCTCA
19023045 AAATTCTC
1 AAATTCTC
19023053 ATGAATTCAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTCTCTCATATTTCCTCTCA
Found at i:19023075 original size:51 final size:51
Alignment explanation
Indices: 19023020--19023144 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 51
19023010 ATATTTCCTC
* *
19023020 TCAATTTTCTCTCAATTTCCTTTC-AAAAT-TCTCATGAATTCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTTCAAAAATCTCTCA--AAGTCATATTTAATT
* *
19023071 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGTCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTTCAAAAATCTCTCAAAGTCATATTTAATT
*
19023122 TCAATTTGCTCTCAATTTCCTTT
1 TCAATTTCCTCTCAATTTCCTTT
19023145 TTTAAAATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 55 0.85
52 5 0.08
53 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTTCAAAAATCTCTCAAAGTCATATTTAATT
Found at i:19024920 original size:51 final size:51
Alignment explanation
Indices: 19024844--19024945 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
19024834 ACATTCACCC
*
19024844 GACACGGTAATTCAACCGATGATACCCACTCAACCGCCTTTTCAGACGATG
1 GACACGGCAATTCAACCGATGATACCCACTCAACCGCCTTTTCAGACGATG
*
19024895 GACACGGCAATTCAACCTATGATACCCACTCAACCGCCTTTTCAGACGATG
1 GACACGGCAATTCAACCGATGATACCCACTCAACCGCCTTTTCAGACGATG
19024946 CCAGGTGCGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (51 bp):
GACACGGCAATTCAACCGATGATACCCACTCAACCGCCTTTTCAGACGATG
Done.