Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 56 of 138
Found at i:11574225 original size:42 final size:43
Alignment explanation
Indices: 11574179--11574267 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
11574169 AAAAAAAGGT
11574179 AAAAATAATTT-TAAA-AAA-TCTTTTC-AAATAACAAAAAATAAA
1 AAAAAT-ATTTGTAAATAAAGT-TTTTCAAAATAA-AAAAAATAAA
* *
11574221 AAAAATATTTGTAAATAAAGTTTTTCAAAATAATAATAATAAA
1 AAAAATATTTGTAAATAAAGTTTTTCAAAATAAAAAAAATAAA
11574264 AAAA
1 AAAA
11574268 TCTTTTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
41 4 0.10
42 10 0.24
43 20 0.49
44 7 0.17
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (43 bp):
AAAAATATTTGTAAATAAAGTTTTTCAAAATAAAAAAAATAAA
Found at i:11574284 original size:20 final size:22
Alignment explanation
Indices: 11574255--11574308 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
11574245 TCAAAATAAT
*
11574255 AATAATAAAAAAA-TCTTTTC-
1 AATAAAAAAAAAAGTCTTTTCA
11574275 AATAAAAAAAAAAGTCTTTTCA
1 AATAAAAAAAAAAGTCTTTTCA
*
11574297 AATAAACAAAAA
1 AATAAAAAAAAA
11574309 TGTTTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.40
21 7 0.23
22 11 0.37
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (22 bp):
AATAAAAAAAAAAGTCTTTTCA
Found at i:11574287 original size:21 final size:22
Alignment explanation
Indices: 11574252--11574308 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
11574242 TTTTCAAAAT
11574252 AATAATAATAAAAAAATCTTTTC-
1 AATAA-AA-AAAAAAATCTTTTCA
*
11574275 AATAAAAAAAAAAGTCTTTTCA
1 AATAAAAAAAAAAATCTTTTCA
*
11574297 AATAAACAAAAA
1 AATAAAAAAAAA
11574309 TGTTTTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (22 bp):
AATAAAAAAAAAAATCTTTTCA
Found at i:11576088 original size:27 final size:27
Alignment explanation
Indices: 11576039--11576090 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11576029 AGACTAAATA
11576039 AAATATAAAATAATTATCATAGTCATC
1 AAATATAAAATAATTATCATAGTCATC
* *
11576066 AAATATAACATCATT-TCATTAGTCA
1 AAATATAAAATAATTATCA-TAGTCA
11576091 ACGTTGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (27 bp):
AAATATAAAATAATTATCATAGTCATC
Found at i:11577275 original size:2 final size:2
Alignment explanation
Indices: 11577268--11577294 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11577258 AAGCACAAAT
11577268 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
11577295 GCAGTGAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11578694 original size:363 final size:369
Alignment explanation
Indices: 11577889--11578881 Score: 1755
Period size: 363 Copynumber: 2.7 Consensus size: 369
11577879 CAAGTGAATG
11577889 TGTCACGGACCTAAGGAAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
*
11577954 AAAAGGGTTCACACCACCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAATCGTGAGGCCAGAG
66 AAAAGGGTTCACACCACCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAG-G
* *
11578019 GAGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCAGGACGCCG
130 GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
* *
11578084 GAAGGGTGAATGCCCGGGTCTCGGAGCCGCGCAGGTTCGGAGCTTGAGTCTCGACCCGTGACAAG
195 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAG
11578149 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGT
260 TGGTATCAGAGCCA-CCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGT
*
11578214 GGCCAGCCTCCGTGACGAGGGCGTCATGAGGTTGGGTGCGAGAGAA
324 GGCCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
11578260 TGTCACGGACCTAAGGAAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
**
11578325 AAAAGGGTTCACACCACCTCTTCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
66 AAAAGGGTTCACACCACCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
* * *
11578390 GGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGACGGTCAGGCTGATCCGGGATGCTGG
131 GGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCGG
* *
11578455 AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACTCATGACAAGT
196 AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
11578520 GGTATCAGAG-C-CCCT-AACCGTTCGATCCACGCCAAGC-CCTCGA-GG-GGTAGGCAGGGTGG
261 GGTATCAGAGCCACCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTGG
*
11578579 CCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
326 CCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
*
11578623 TGTCACGGACCTAAGGAAGAATCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
*
11578688 AAAAGGGTTCACACCACCTCCGCCTTGTGAGGCGTCTTTTGTAGGACAAAACCGTGAGGCCAGGG
66 AAAAGGGTTCACACCACCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
* *
11578753 GAGCTAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGATCAGGCTGATCCGGGACGCCG
131 G-GCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
11578818 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAA
195 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAA
11578882 ATGCACGTAT
Statistics
Matches: 596, Mismatches: 25, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
363 183 0.31
364 122 0.20
365 6 0.01
366 22 0.04
367 4 0.01
369 1 0.00
370 133 0.22
371 125 0.21
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.17
Consensus pattern (369 bp):
TGTCACGGACCTAAGGAAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTAT
AAAAGGGTTCACACCACCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
GGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCGG
AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
GGTATCAGAGCCACCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTGG
CCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
Found at i:11581018 original size:2 final size:2
Alignment explanation
Indices: 11581011--11581044 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11581001 CTAACAATAA
*
11581011 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11581045 CAACTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11581022 original size:10 final size:10
Alignment explanation
Indices: 11581007--11581044 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
11580997 CAAGCTAACA
11581007 ATAAATATAT
1 ATAAATATAT
11581017 ATAAATATAT
1 ATAAATATAT
*
11581027 ATATATATAT
1 ATAAATATAT
*
11581037 ATATATAT
1 ATAAATAT
11581045 CAACTTCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATAAATATAT
Found at i:11589507 original size:12 final size:12
Alignment explanation
Indices: 11589490--11589514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11589480 AACACAATAA
11589490 AAAATTGAAACC
1 AAAATTGAAACC
11589502 AAAATTGAAACC
1 AAAATTGAAACC
11589514 A
1 A
11589515 TTGCAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATTGAAACC
Found at i:11590008 original size:55 final size:55
Alignment explanation
Indices: 11589948--11590108 Score: 139
Period size: 52 Copynumber: 3.1 Consensus size: 55
11589938 TATCTCAAGC
11589948 AAATAAGCATTAAACACACTTTCAACAAGCATCACAATCATGCATTTAATAGCAA
1 AAATAAGCATTAAACACACTTTCAACAAGCATCACAATCATGCATTTAATAGCAA
* * * * ** * *
11590003 AAATAA--A-T--GCATA--TTCAATCAAGC-TCA-TATAAATATATCTCA-AGC--
1 AAATAAGCATTAAACACACTTTCAA-CAAGCATCACAAT-CATGCATTTAATAGCAA
*
11590048 AAATAAGCATCAAACACACTTTCAACAAGCATCACAATCATGCATTTAATAGCAA
1 AAATAAGCATTAAACACACTTTCAACAAGCATCACAATCATGCATTTAATAGCAA
11590103 AAATAA
1 AAATAA
11590109 ATGCATACTT
Statistics
Matches: 75, Mismatches: 17, Indels: 28
0.62 0.14 0.23
Matches are distributed among these distances:
45 6 0.08
47 6 0.08
48 14 0.19
49 5 0.07
50 6 0.08
51 5 0.07
52 15 0.20
53 6 0.08
55 12 0.16
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.24
Consensus pattern (55 bp):
AAATAAGCATTAAACACACTTTCAACAAGCATCACAATCATGCATTTAATAGCAA
Found at i:11590106 original size:100 final size:100
Alignment explanation
Indices: 11589933--11590129 Score: 369
Period size: 100 Copynumber: 2.0 Consensus size: 100
11589923 AATTCTCCTA
*
11589933 AAATATATCTCAAGCAAATAAGCATTAAACACACTTTCAACAAGCATCACAATCATGCATTTAAT
1 AAATATATCTCAAGCAAATAAGCATCAAACACACTTTCAACAAGCATCACAATCATGCATTTAAT
11589998 AGCAAAAATAAATGCATA-TTCAATCAAGCTCATAT
66 AGCAAAAATAAATGCATACTT-AATCAAGCTCATAT
11590033 AAATATATCTCAAGCAAATAAGCATCAAACACACTTTCAACAAGCATCACAATCATGCATTTAAT
1 AAATATATCTCAAGCAAATAAGCATCAAACACACTTTCAACAAGCATCACAATCATGCATTTAAT
11590098 AGCAAAAATAAATGCATACTTAATCAAGCTCA
66 AGCAAAAATAAATGCATACTTAATCAAGCTCA
11590130 CATATTTCTC
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
100 93 0.98
101 2 0.02
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (100 bp):
AAATATATCTCAAGCAAATAAGCATCAAACACACTTTCAACAAGCATCACAATCATGCATTTAAT
AGCAAAAATAAATGCATACTTAATCAAGCTCATAT
Found at i:11598864 original size:22 final size:22
Alignment explanation
Indices: 11598839--11598880 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11598829 TTGTCAATCC
*
11598839 TAATTTTAGGGATACAAATACT
1 TAATTTTAGAGATACAAATACT
11598861 TAATTTTAGAGATACAAATA
1 TAATTTTAGAGATACAAATA
11598881 TAAATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
TAATTTTAGAGATACAAATACT
Found at i:11602427 original size:22 final size:21
Alignment explanation
Indices: 11602388--11602429 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
11602378 CTTATTGCAA
* *
11602388 TTGGTATAGGAGTTTAAACAT
1 TTGGTATAAGAGTATAAACAT
11602409 TTGGTATAAAGAGTATAAACA
1 TTGGTAT-AAGAGTATAAACA
11602430 AAATAGTGGA
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:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTATAAGAGTATAAACAT
Found at i:11609222 original size:24 final size:22
Alignment explanation
Indices: 11609192--11609248 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 22
11609182 TTTCATTGTG
11609192 CAAATCAATTATTC-TGAGATAGAA
1 CAAATCAATTATTCAT-AG--AGAA
11609216 CAAATCAATTA-TCATAGAGAA
1 CAAATCAATTATTCATAGAGAA
11609237 CAAATCAATTAT
1 CAAATCAATTAT
11609249 CTTAGAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 15 0.48
23 4 0.13
24 12 0.39
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (22 bp):
CAAATCAATTATTCATAGAGAA
Found at i:11609238 original size:21 final size:21
Alignment explanation
Indices: 11609212--11609254 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11609202 ATTCTGAGAT
11609212 AGAACAAATCAATTATCATAG
1 AGAACAAATCAATTATCATAG
*
11609233 AGAACAAATCAATTATCTTAG
1 AGAACAAATCAATTATCATAG
11609254 A
1 A
11609255 ATGTCCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (21 bp):
AGAACAAATCAATTATCATAG
Found at i:11613239 original size:18 final size:18
Alignment explanation
Indices: 11613202--11613252 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11613192 TTATGTTGGT
*
11613202 TTTAGGGTTTA-GAT-AA
1 TTTAGGGTTTAGGTTAAA
* *
11613218 TTTAGGTTTTGGGTTAAA
1 TTTAGGGTTTAGGTTAAA
11613236 TTTAGGGTTTAGGTTAA
1 TTTAGGGTTTAGGTTAA
11613253 GGCTTGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 9 0.32
17 2 0.07
18 17 0.61
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (18 bp):
TTTAGGGTTTAGGTTAAA
Found at i:11613375 original size:12 final size:13
Alignment explanation
Indices: 11613358--11613402 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
11613348 GACCAAGATG
11613358 TAGGGTTTGGA-T
1 TAGGGTTTGGATT
*
11613370 TAGGGTTAGGATT
1 TAGGGTTTGGATT
*
11613383 TAGGGTTTGAATT
1 TAGGGTTTGGATT
11613396 TAGGGTT
1 TAGGGTT
11613403 AGGGTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (13 bp):
TAGGGTTTGGATT
Found at i:11613387 original size:13 final size:13
Alignment explanation
Indices: 11613358--11613410 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
11613348 GACCAAGATG
*
11613358 TAGGGTTTGGA-T
1 TAGGGTTAGGATT
11613370 TAGGGTTAGGATT
1 TAGGGTTAGGATT
* *
11613383 TAGGGTTTGAATT
1 TAGGGTTAGGATT
*
11613396 TAGGGTTAGGGTT
1 TAGGGTTAGGATT
11613409 TA
1 TA
11613411 ACTTATGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
12 10 0.29
13 24 0.71
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (13 bp):
TAGGGTTAGGATT
Found at i:11613403 original size:26 final size:25
Alignment explanation
Indices: 11613358--11613410 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
11613348 GACCAAGATG
*
11613358 TAGGGTTTGGATTAGGGTTAGGATT
1 TAGGGTTTGAATTAGGGTTAGGATT
*
11613383 TAGGGTTTGAATTTAGGGTTAGGGTT
1 TAGGGTTTGAA-TTAGGGTTAGGATT
11613409 TA
1 TA
11613411 ACTTATGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (25 bp):
TAGGGTTTGAATTAGGGTTAGGATT
Found at i:11613450 original size:18 final size:18
Alignment explanation
Indices: 11613386--11613451 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
11613376 TAGGATTTAG
* *
11613386 GGTTTGAATTTAGGGTTA
1 GGTTTGACTTTGGGGTTA
* **
11613404 GGGTTTAACTTATGGATTTAA
1 -GGTTTGACTT-TGGGGTT-A
11613425 GG-TTGACTTTGGGGTTA
1 GGTTTGACTTTGGGGTTA
11613442 GGTTTGACTT
1 GGTTTGACTT
11613452 AGGGATTTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
17 3 0.08
18 12 0.33
19 14 0.39
20 6 0.17
21 1 0.03
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.44
Consensus pattern (18 bp):
GGTTTGACTTTGGGGTTA
Found at i:11613452 original size:37 final size:38
Alignment explanation
Indices: 11613378--11613465 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 38
11613368 ATTAGGGTTA
*
11613378 GGATTTAGGGTTTGAATTTAGGGTTAGGGTTTAACTTAT
1 GGATTTAGGG-TTGAATTTAGGGTTAGGGTTTAACTTAG
* * * *
11613417 GGATTTAAGGTTGACTTTGGGGTTA-GGTTTGACTTAG
1 GGATTTAGGGTTGAATTTAGGGTTAGGGTTTAACTTAG
11613454 GGATTTAGGGTT
1 GGATTTAGGGTT
11613466 TAATGTTGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 21 0.49
38 13 0.30
39 9 0.21
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.42
Consensus pattern (38 bp):
GGATTTAGGGTTGAATTTAGGGTTAGGGTTTAACTTAG
Found at i:11615209 original size:142 final size:143
Alignment explanation
Indices: 11614947--11615218 Score: 334
Period size: 142 Copynumber: 1.9 Consensus size: 143
11614937 TTTAAGATGA
* * *
11614947 AATTAGGATTTTTAATGCATCCAAATTCATAAAATTATATTTAAACATGATCAGAAGTTTTTCAA
1 AATTAGGATTTTTAATACATCAAAATTCATAAAA-TATATCTAAACATGATCAGAAGTTTTTCAA
* * * *
11615012 AGAAAATCGACTCCAAAAGGGCCAAATTAAGAAAATGCTCCTAAAGGGCAATTTTGTAATCTCAC
65 AGAAAATCAACTCAAAAAAGGCCAAATTAAGAAAATGCTCCTAAAAGGCAATTTTGTAATCTCAC
11615077 CTCTTTTGATGTGC
130 CTCTTTTGATGTGC
* *
11615091 AATTAGGATTTTTAATATATCAAAATTCATAAAA-ATATCTAAATATGATCTAG-AGTTTTTC-A
1 AATTAGGATTTTTAATACATCAAAATTCATAAAATATATCTAAACATGATC-AGAAGTTTTTCAA
* * * ** ** * *
11615153 TGAAAATTTAACTTAAAAAAGGCCAAATTACTAAAATGCTTTTAAAAGGCATTTTTGTAATTTCA
65 AGAAAA-TCAACTCAAAAAAGGCCAAATTAAGAAAATGCTCCTAAAAGGCAATTTTGTAATCTCA
11615218 C
129 C
11615219 TATTCTTAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
141 6 0.06
142 69 0.64
143 2 0.02
144 31 0.29
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (143 bp):
AATTAGGATTTTTAATACATCAAAATTCATAAAATATATCTAAACATGATCAGAAGTTTTTCAAA
GAAAATCAACTCAAAAAAGGCCAAATTAAGAAAATGCTCCTAAAAGGCAATTTTGTAATCTCACC
TCTTTTGATGTGC
Found at i:11627823 original size:34 final size:34
Alignment explanation
Indices: 11627785--11627853 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
11627775 TTTAAAAATT
** * *
11627785 TTTTAAAGGTTTTTAGAGATATATTTCCAAAAAC
1 TTTTAAAGACTTTTAAACATATATTTCCAAAAAC
* *
11627819 TTTTAAAGACTTTTAAACATGTATTTCTAAAAAC
1 TTTTAAAGACTTTTAAACATATATTTCCAAAAAC
11627853 T
1 T
11627854 CTAAAAAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (34 bp):
TTTTAAAGACTTTTAAACATATATTTCCAAAAAC
Found at i:11627985 original size:34 final size:34
Alignment explanation
Indices: 11627916--11627990 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
11627906 TGTATTTTTG
*
11627916 AAAACCTTTAAAAGTTTTCAAAAATGAATACCCA
1 AAAACTTTTAAAAGTTTTCAAAAATGAATACCCA
* * * **
11627950 AACACTTTTAAAAGTTTTCATAAATGTATTTCCA
1 AAAACTTTTAAAAGTTTTCAAAAATGAATACCCA
11627984 AAAACTT
1 AAAACTT
11627991 AGAAGAACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (34 bp):
AAAACTTTTAAAAGTTTTCAAAAATGAATACCCA
Found at i:11630264 original size:63 final size:63
Alignment explanation
Indices: 11630192--11630356 Score: 174
Period size: 64 Copynumber: 2.6 Consensus size: 63
11630182 TATTCTATTA
* * *
11630192 TTTGATTTTATAATATAATAATTGATAATTTTAATTTTTATTAAGTAATC-AAT-T-ACTAAGTT
1 TTTG-TTTTATAATATAATAATTGATAATTATAATTTTT-TAAAATAATCAAATGTCA-T-AGTT
11630254 TT
62 TT
* * * *
11630256 TTTGTTTTAAAATGTAATAATTGATAAATATAATTATTTTAAAATAATCAAATGTCATATTTTT
1 TTTGTTTTATAATATAATAATTGATAATTATAATT-TTTTAAAATAATCAAATGTCATAGTTTT
* * *
11630320 TTTATTTTATAACATAATAGTTGATAATTATAATTTT
1 TTTGTTTTATAATATAATAATTGATAATTATAATTTT
11630357 AATCAAATGA
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
63 37 0.44
64 44 0.52
65 2 0.02
66 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (63 bp):
TTTGTTTTATAATATAATAATTGATAATTATAATTTTTTAAAATAATCAAATGTCATAGTTTT
Found at i:11634602 original size:34 final size:32
Alignment explanation
Indices: 11634555--11634671 Score: 84
Period size: 34 Copynumber: 3.7 Consensus size: 32
11634545 GAAACTTTAG
11634555 GCCAAC-TAGATTGGGCTTAGAACTCTCATTTTGT
1 GCCAACTTA-ATTGGGCTTA-AACTCT-ATTTTGT
*
11634589 GCCAACTTAATT-GGCTTAAA----ACTTTGT
1 GCCAACTTAATTGGGCTTAAACTCTATTTTGT
* * * *
11634616 GCCAGCTAAATTGGGATTAAAACTCTTATCTTGT
1 GCCAACTTAATTGGGCTT-AAACTC-TATTTTGT
* *
11634650 GCTAACTTAACTGGGCTTAAAC
1 GCCAACTTAATTGGGCTTAAAC
11634672 CTTTGTGTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
27 16 0.25
28 4 0.06
29 3 0.05
32 2 0.03
33 10 0.16
34 27 0.42
35 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (32 bp):
GCCAACTTAATTGGGCTTAAACTCTATTTTGT
Found at i:11634614 original size:27 final size:28
Alignment explanation
Indices: 11634584--11634701 Score: 78
Period size: 28 Copynumber: 4.0 Consensus size: 28
11634574 GAACTCTCAT
11634584 TTTGTGCCAACTTAATT-GGCTTAAAAC
1 TTTGTGCCAACTTAATTAGGCTTAAAAC
* * * *
11634611 TTTGTGCCAGCTAAATTGGGATTAAAACTC
1 TTTGTGCCAACTTAATTAGGCTTAAAA--C
* * * *
11634641 TTATCTTGTGCTAACTTAACTGGGCTTAAACC
1 ---T-TTGTGCCAACTTAATTAGGCTTAAAAC
*
11634673 TTTGTGTCAA-TTAGATTAGGCTTAAAAC
1 TTTGTGCCAACTTA-ATTAGGCTTAAAAC
11634701 T
1 T
11634702 CCCATCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
27 18 0.26
28 27 0.39
29 1 0.01
30 1 0.01
32 1 0.01
33 1 0.01
34 20 0.29
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (28 bp):
TTTGTGCCAACTTAATTAGGCTTAAAAC
Found at i:11634640 original size:61 final size:62
Alignment explanation
Indices: 11634509--11634717 Score: 215
Period size: 62 Copynumber: 3.4 Consensus size: 62
11634499 CACTGAAACT
* * * * *
11634509 TTAAAAATCTCATCTTAAGCCAACTTAACTAGGTTTGAAACTTTAG-GCCAACTAGATTGGGC
1 TTAAAACTCTCATCTTATGCCAACTTAACTTGGCTTAAAACTTT-GTGCCAACTAGATTGGGC
* * * * * *
11634571 TTAGAACTCTCATTTTGTGCCAACTTAA-TTGGCTTAAAACTTTGTGCCAGCTAAATTGGGA
1 TTAAAACTCTCATCTTATGCCAACTTAACTTGGCTTAAAACTTTGTGCCAACTAGATTGGGC
* * * * * * * *
11634632 TTAAAACTCTTATCTTGTGCTAACTTAACTGGGCTTAAACCTTTGTGTCAATTAGATTAGGC
1 TTAAAACTCTCATCTTATGCCAACTTAACTTGGCTTAAAACTTTGTGCCAACTAGATTGGGC
*
11634694 TTAAAACTCCCATCTTATGCCAAC
1 TTAAAACTCTCATCTTATGCCAAC
11634718 ATAATTGTGT
Statistics
Matches: 118, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 1 0.01
61 49 0.42
62 68 0.58
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (62 bp):
TTAAAACTCTCATCTTATGCCAACTTAACTTGGCTTAAAACTTTGTGCCAACTAGATTGGGC
Found at i:11634821 original size:26 final size:26
Alignment explanation
Indices: 11634787--11634848 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
11634777 TGGGTTTGAC
11634787 AATTC-TAACT-GATGCCATGGGCATAG
1 AATTCTTAACTAG-TGCCATGGGC-TAG
*
11634813 AA-TCTTAACTAGTGCCATGGGCTTG
1 AATTCTTAACTAGTGCCATGGGCTAG
11634838 AATTCTTAACT
1 AATTCTTAACT
11634849 TGATAAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.19
26 25 0.78
27 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (26 bp):
AATTCTTAACTAGTGCCATGGGCTAG
Found at i:11635468 original size:37 final size:37
Alignment explanation
Indices: 11635427--11635501 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
11635417 AAAATTTTAG
** *
11635427 AGATTCACATCTTGAAATCAAATATTCTCATTTGAAA
1 AGATTCACATCTAAAAATCAAATACTCTCATTTGAAA
**
11635464 AGATTTGCATCTAAAAATCAAATACTCTCATTTGAAA
1 AGATTCACATCTAAAAATCAAATACTCTCATTTGAAA
11635501 A
1 A
11635502 TTTTAGAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (37 bp):
AGATTCACATCTAAAAATCAAATACTCTCATTTGAAA
Found at i:11635529 original size:44 final size:45
Alignment explanation
Indices: 11635475--11635564 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 45
11635465 GATTTGCATC
* * * *
11635475 TAAAAATCAAATACTCTCATTTGA-AA-ATTTTAGAGATTCATATA
1 TAAAAATCAAAAACTCACATTTGAGAAGA-TTCAGAGATTCACATA
* *
11635519 TAAAAGTCAAAAATTCACATTTGAGAAGATTCAGAGATTCACATA
1 TAAAAATCAAAAACTCACATTTGAGAAGATTCAGAGATTCACATA
11635564 T
1 T
11635565 GGTAATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 20 0.53
45 17 0.45
46 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (45 bp):
TAAAAATCAAAAACTCACATTTGAGAAGATTCAGAGATTCACATA
Found at i:11635752 original size:34 final size:32
Alignment explanation
Indices: 11635714--11635879 Score: 99
Period size: 34 Copynumber: 5.3 Consensus size: 32
11635704 CTAGTGAGAT
11635714 TGGGCTTAAAACTCTAATCTTGTGCCAACTTAAC
1 TGGGCTTAAAACTCT-ATCTT-TGCCAACTTAAC
** *
11635748 TGGGCTT-AAAGGC--T-TTTGCCAAC-TAGAT
1 TGGGCTTAAAACTCTATCTTTGCCAACTTA-AC
*
11635776 TGGGCTTAAAACTCTCATCTTATGCCAACTTAAG
1 TGGGCTTAAAACTCT-ATCTT-TGCCAACTTAAC
*
11635810 TAGGCTTAAAA--CTA----TGCCAAC-TAGA-
1 TGGGCTTAAAACTCTATCTTTGCCAACTTA-AC
11635835 TAGGG-TATAAAACTCTCATCTTGTGCCAACTTAAC
1 T-GGGCT-TAAAACTCT-ATCTT-TGCCAACTTAAC
11635870 TGGGCTTAAA
1 TGGGCTTAAA
11635880 CCTTTGTGTT
Statistics
Matches: 102, Mismatches: 8, Indels: 44
0.66 0.05 0.29
Matches are distributed among these distances:
25 4 0.04
26 15 0.15
27 2 0.02
28 17 0.17
29 7 0.07
30 1 0.01
31 1 0.01
32 3 0.03
33 6 0.06
34 40 0.39
35 6 0.06
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (32 bp):
TGGGCTTAAAACTCTATCTTTGCCAACTTAAC
Found at i:11635788 original size:62 final size:60
Alignment explanation
Indices: 11635710--11635879 Score: 243
Period size: 60 Copynumber: 2.8 Consensus size: 60
11635700 TGTGCTAGTG
* * *
11635710 AGATTGGGCTTAAAACTCTAATCTTGTGCCAACTTAACTGGGCTTAAAGGCTTTTGCCAACT
1 AGATTGGGCTTAAAACTCTCATCTTGTGCCAACTTAACTGGGCTTAAA-AC-TATGCCAACT
* * *
11635772 AGATTGGGCTTAAAACTCTCATCTTATGCCAACTTAAGTAGGCTTAAAACTATGCCAACT
1 AGATTGGGCTTAAAACTCTCATCTTGTGCCAACTTAACTGGGCTTAAAACTATGCCAACT
*
11635832 AGATAGGG-TATAAAACTCTCATCTTGTGCCAACTTAACTGGGCTTAAA
1 AGATTGGGCT-TAAAACTCTCATCTTGTGCCAACTTAACTGGGCTTAAA
11635880 CCTTTGTGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.01
60 51 0.53
61 1 0.01
62 44 0.45
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (60 bp):
AGATTGGGCTTAAAACTCTCATCTTGTGCCAACTTAACTGGGCTTAAAACTATGCCAACT
Found at i:11636536 original size:23 final size:23
Alignment explanation
Indices: 11636509--11636600 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 23
11636499 AAAATAATCA
*
11636509 AAGATTCTCATTTGAAAATTTCG
1 AAGATTCACATTTGAAAATTTCG
* * *
11636532 AAGATCCACATCTAAAAATTTC-
1 AAGATTCACATTTGAAAATTTCG
* *
11636554 AGAGATTTACATTT-AGAAA--TCA
1 A-AGATTCACATTTGA-AAATTTCG
*
11636576 AAGATTCACATTTGAAAAATTCG
1 AAGATTCACATTTGAAAATTTCG
11636599 AA
1 AA
11636601 TCTAAAATCA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
21 16 0.30
22 4 0.07
23 34 0.63
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (23 bp):
AAGATTCACATTTGAAAATTTCG
Found at i:11636962 original size:28 final size:29
Alignment explanation
Indices: 11636877--11636979 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 29
11636867 GGTTAATTGG
** *
11636877 TTAAAACT-TTTTGCCACCTAGATTAGGC
1 TTAAAACTCTTTTGCCAATTAAATTAGGC
11636905 TTAAAACTCTCATCTTGTGCCAACTT-AATTAGGC
1 TTAAAA--CTC-T-TT-TGCCAA-TTAAATTAGGC
*
11636939 TTAAAACT-TTTTGCCAATTAAATTGGGC
1 TTAAAACTCTTTTGCCAATTAAATTAGGC
11636967 TTAAAACTCTTTT
1 TTAAAACTCTTTT
11636980 TTTATGTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
27 2 0.03
28 27 0.44
29 6 0.10
30 3 0.05
32 3 0.05
33 2 0.03
34 18 0.29
35 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (29 bp):
TTAAAACTCTTTTGCCAATTAAATTAGGC
Found at i:11637000 original size:62 final size:62
Alignment explanation
Indices: 11636877--11637092 Score: 171
Period size: 62 Copynumber: 3.5 Consensus size: 62
11636867 GGTTAATTGG
* * * * *
11636877 TTAAAACTTTTTGCCACCTAGATTAGGCTTAAAACTCTCATCTTGTGCCAACTTAATTAGGC
1 TTAAAACTTTTTGCCAACTAAATTAGGCTTAAAACTCTCATCTTATGCCAACCTAACTAGGC
* * ** * * *
11636939 TTAAAACTTTTTGCCAATTAAATTGGGCTTAAAACTCTTTTTTTATGTCAACCTAGCTAGGC
1 TTAAAACTTTTTGCCAACTAAATTAGGCTTAAAACTCTCATCTTATGCCAACCTAACTAGGC
* * * * * * * * * * * *
11637001 ATAAACCTTTGTGCTAGCTAGATTATGCTTAAAACTCTCATCTTGTGCTAACTTAACTGGGT
1 TTAAAACTTTTTGCCAACTAAATTAGGCTTAAAACTCTCATCTTATGCCAACCTAACTAGGC
* * ** *
11637063 TTAAACCTTTGTGCCAGTTAGATTAGGCTT
1 TTAAAACTTTTTGCCAACTAAATTAGGCTT
11637093 GACAATTCTA
Statistics
Matches: 119, Mismatches: 35, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
62 119 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (62 bp):
TTAAAACTTTTTGCCAACTAAATTAGGCTTAAAACTCTCATCTTATGCCAACCTAACTAGGC
Found at i:11637795 original size:38 final size:38
Alignment explanation
Indices: 11637735--11637809 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
11637725 AAAATTTTAG
*
11637735 AAATTCACATCTAAAAATCAAAGATTCAT-ATTTGAAAA
1 AAATTCACATCTAAAAACCAAAGATTC-TCATTTGAAAA
* *
11637773 AAATTTACATCTGAAAACCAAAGATTCTCATTTGAAA
1 AAATTCACATCTAAAAACCAAAGATTCTCATTTGAAA
11637810 TATTAAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (38 bp):
AAATTCACATCTAAAAACCAAAGATTCTCATTTGAAAA
Found at i:11637827 original size:23 final size:23
Alignment explanation
Indices: 11637794--11637873 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
11637784 TGAAAACCAA
* *
11637794 AGATTCTCATTTGAAATATTAAG
1 AGATTCACATTTGAAAAATTAAG
** * *
11637817 AGATTCACATTAAAAAAAATAAA
1 AGATTCACATTTGAAAAATTAAG
* *
11637840 AGATTCACATTTGAAGAGATTTAG
1 AGATTCACATTTGAA-AAATTAAG
11637864 AGATTCACAT
1 AGATTCACAT
11637874 ATGGAAATCA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 30 0.68
24 14 0.32
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (23 bp):
AGATTCACATTTGAAAAATTAAG
Found at i:11638205 original size:13 final size:13
Alignment explanation
Indices: 11638187--11638250 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
11638177 TACTTTCATG
11638187 ATGCAAATGCCTC
1 ATGCAAATGCCTC
* * *
11638200 ATGCAAATTCTATG
1 ATGCAAATGC-CTC
11638214 ATGCAAATGCCTC
1 ATGCAAATGCCTC
* *
11638227 ATGCAAATTCCATG
1 ATGCAAATGCC-TC
11638241 ATGCAAATGC
1 ATGCAAATGC
11638251 AAAATTCTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 20 0.50
14 20 0.50
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (13 bp):
ATGCAAATGCCTC
Found at i:11638216 original size:27 final size:27
Alignment explanation
Indices: 11638183--11638250 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
11638173 ATGATACTTT
11638183 CATGATGCAAATGCCTCATGCAAATTC
1 CATGATGCAAATGCCTCATGCAAATTC
*
11638210 TATGATGCAAATGCCTCATGCAAATTC
1 CATGATGCAAATGCCTCATGCAAATTC
11638237 CATGATGCAAATGC
1 CATGATGCAAATGC
11638251 AAAATTCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (27 bp):
CATGATGCAAATGCCTCATGCAAATTC
Found at i:11638514 original size:19 final size:20
Alignment explanation
Indices: 11638477--11638520 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11638467 GATCTTTTCC
11638477 CTTTCATTTTCACTCTCAAT
1 CTTTCATTTTCACTCTCAAT
*
11638497 CTTTCATTTTTA-TCTCAAT
1 CTTTCATTTTCACTCTCAAT
11638516 -TTTCA
1 CTTTCA
11638521 AATTCAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 7 0.30
20 11 0.48
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (20 bp):
CTTTCATTTTCACTCTCAAT
Found at i:11639768 original size:21 final size:19
Alignment explanation
Indices: 11639756--11639799 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
11639746 TTATCACTTT
11639756 TTTTCTTGCTTTTTCATTTCC
1 TTTTCTT-CTTTTTCATTT-C
*
11639777 TTTTCTTCTTTTCTCTTTTC
1 TTTTCTTCTTTT-TCATTTC
11639797 TTT
1 TTT
11639800 ACACACACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTCTTCTTTTTCATTTC
Found at i:11643709 original size:15 final size:15
Alignment explanation
Indices: 11643690--11643729 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
11643680 ACAATTTTTG
11643690 CTTTTTTTTATTTTCA
1 CTTTTTTTTA-TTTCA
11643706 -TTTTTTATTATTTCA
1 CTTTTTT-TTATTTCA
11643721 CTTTTTTTT
1 CTTTTTTTT
11643730 CACAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (15 bp):
CTTTTTTTTATTTCA
Found at i:11643710 original size:16 final size:16
Alignment explanation
Indices: 11643691--11643729 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11643681 CAATTTTTGC
11643691 TTTTTTTTATTTTCA-T
1 TTTTTTTTA-TTTCACT
*
11643707 TTTTTATTATTTCACT
1 TTTTTTTTATTTCACT
11643723 TTTTTTT
1 TTTTTTT
11643730 CACAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTATTTCACT
Found at i:11644192 original size:59 final size:59
Alignment explanation
Indices: 11644100--11644221 Score: 226
Period size: 59 Copynumber: 2.1 Consensus size: 59
11644090 ATATACCCAT
* *
11644100 TTAAGATCTAATATAAATGTGCATGCAATTGAAAGGAAATAAACAAACAAACAAAATAC
1 TTAAGATCTAATATAAATGTGCATGCAATTGAAAGAAAATAAACAAACAAACAAAATAA
11644159 TTAAGATCTAATATAAATGTGCATGCAATTGAAAGAAAATAAACAAACAAACAAAATAA
1 TTAAGATCTAATATAAATGTGCATGCAATTGAAAGAAAATAAACAAACAAACAAAATAA
11644218 TTAA
1 TTAA
11644222 AAGTTACCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.23
Consensus pattern (59 bp):
TTAAGATCTAATATAAATGTGCATGCAATTGAAAGAAAATAAACAAACAAACAAAATAA
Found at i:11646631 original size:15 final size:17
Alignment explanation
Indices: 11646600--11646638 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
11646590 ATCAAAACCT
11646600 AAAAATGAGAATGAAAA
1 AAAAATGAGAATGAAAA
11646617 AAAAATGA-AAT-AAAA
1 AAAAATGAGAATGAAAA
*
11646632 ATAAATG
1 AAAAATG
11646639 GTGAGGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 3 0.14
17 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
AAAAATGAGAATGAAAA
Found at i:11648626 original size:13 final size:13
Alignment explanation
Indices: 11648594--11648628 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11648584 ATTATGAGTT
* *
11648594 AAAAATGATAATA
1 AAAAATTATAAAA
11648607 AAAAATTATAAAA
1 AAAAATTATAAAA
11648620 AAAAATTAT
1 AAAAATTAT
11648629 GAATCTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:11648893 original size:109 final size:106
Alignment explanation
Indices: 11648704--11648901 Score: 233
Period size: 109 Copynumber: 1.8 Consensus size: 106
11648694 TCTCATAAAT
* * * *
11648704 AATTTTAATATAAATTTTGAAATCAATTTTATCAAATTATTGGAAGATAATTTTAAATTAAATCT
1 AATTTTAATAAAAATTTTAAAATCAATCTTATCAAATTATTGGAAGATAATCTTAAATTAAATCT
* *
11648769 TATCAAATTATTGAAA-AGTTTAATTTATCTTTTCAAAAAAA
66 TATCAAACTAGTGAAAGA-TTTAATTTATCTTTTCAAAAAAA
*
11648810 AATTTTAATAAAATATTTTAAAAAT-AATCTTATGAAATTATTGG-AGATTTAAATCTTAAATTA
1 AATTTTAATAAAA-ATTTT-AAAATCAATCTTATCAAATTATTGGAAGA--T-AATCTTAAATTA
*
11648873 AATCTTA-CTAACCTAGTGAAAGATTTAAT
61 AATCTTATC-AAACTAGTGAAAGATTTAAT
11648902 AATTTTTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
106 15 0.19
107 22 0.29
108 6 0.08
109 33 0.43
110 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (106 bp):
AATTTTAATAAAAATTTTAAAATCAATCTTATCAAATTATTGGAAGATAATCTTAAATTAAATCT
TATCAAACTAGTGAAAGATTTAATTTATCTTTTCAAAAAAA
Found at i:11649128 original size:17 final size:17
Alignment explanation
Indices: 11649106--11649139 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11649096 ATTTTATTTA
11649106 TTTTGAAA-ACAATTAAT
1 TTTTGAAATA-AATTAAT
11649123 TTTTGAAATAAATTAAT
1 TTTTGAAATAAATTAAT
11649140 GAATATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTGAAATAAATTAAT
Found at i:11650381 original size:23 final size:23
Alignment explanation
Indices: 11650338--11650382 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11650328 TACCTACCTA
*
11650338 AAAAGAAATAAAGAACTAAAAAC
1 AAAAGAAATAAAGAACAAAAAAC
*
11650361 AAAAGAAACTATAGAA-AAAAAA
1 AAAAGAAA-TAAAGAACAAAAAA
11650383 GAAGTAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.76, C:0.07, G:0.09, T:0.09
Consensus pattern (23 bp):
AAAAGAAATAAAGAACAAAAAAC
Found at i:11654562 original size:21 final size:21
Alignment explanation
Indices: 11654536--11654578 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11654526 AGAGACTAAT
* *
11654536 TAAAACAATAAGTAAGGATTG
1 TAAAACAAGAAATAAGGATTG
*
11654557 TAAAACAAGAAATCAGGATTG
1 TAAAACAAGAAATAAGGATTG
11654578 T
1 T
11654579 CAAATTGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (21 bp):
TAAAACAAGAAATAAGGATTG
Found at i:11659996 original size:18 final size:18
Alignment explanation
Indices: 11659970--11660017 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
11659960 GAAAATGGAA
*
11659970 ACAAAATATTTTCTTCTT
1 ACAATATATTTTCTTCTT
11659988 ACAATATATTTTCTTCTT
1 ACAATATATTTTCTTCTT
*
11660006 ACAATAGATTTT
1 ACAATATATTTT
11660018 TAGTTTAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (18 bp):
ACAATATATTTTCTTCTT
Found at i:11662323 original size:18 final size:18
Alignment explanation
Indices: 11662302--11662338 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11662292 TGACATTAAT
*
11662302 TTCATTACATGCATTGCA
1 TTCATGACATGCATTGCA
*
11662320 TTCATGACATTCATTGCA
1 TTCATGACATGCATTGCA
11662338 T
1 T
11662339 ATATTTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (18 bp):
TTCATGACATGCATTGCA
Found at i:11662604 original size:17 final size:17
Alignment explanation
Indices: 11662582--11662833 Score: 120
Period size: 17 Copynumber: 14.9 Consensus size: 17
11662572 AATCTTGTGC
*
11662582 ATCTTTAACTGTTGCAA
1 ATCTTTAACTCTTGCAA
*
11662599 ATCTTTAAATCTTG-AGA
1 ATCTTTAACTCTTGCA-A
* * *
11662616 AT-TTTAATTTTTACAA
1 ATCTTTAACTCTTGCAA
* * *
11662632 ATTTTTAAATCTTACAA
1 ATCTTTAACTCTTGCAA
**
11662649 ATCTTTAACTCTTGTGA
1 ATCTTTAACTCTTGCAA
* *
11662666 ATTTTTAAATCTTGCAA
1 ATCTTTAACTCTTGCAA
**
11662683 ATCTACAACTCTTGCAA
1 ATCTTTAACTCTTGCAA
* * * *
11662700 ATTTTTAACACTTACGA
1 ATCTTTAACTCTTGCAA
* *
11662717 ATCTTTAAATCTTACAAA
1 ATCTTTAACTCTTGC-AA
* *
11662735 AT-TTTAATTCTTGCTA
1 ATCTTTAACTCTTGCAA
* **
11662751 AT-TTTCAATTCTTGTGA
1 ATCTTT-AACTCTTGCAA
* * *
11662768 ATCCTCAACTCTT-AAGA
1 ATCTTTAACTCTTGCA-A
* * *
11662785 ATCTTTAATTCTTACGA
1 ATCTTTAACTCTTGCAA
*
11662802 ATCTTTGA-TCTTGCAA
1 ATCTTTAACTCTTGCAA
*
11662818 ACCTTTGAACTCTTGC
1 ATCTTT-AACTCTTGC
11662834 GAACTTTTCA
Statistics
Matches: 175, Mismatches: 50, Indels: 19
0.72 0.20 0.08
Matches are distributed among these distances:
16 29 0.17
17 136 0.78
18 10 0.06
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (17 bp):
ATCTTTAACTCTTGCAA
Found at i:11662669 original size:34 final size:34
Alignment explanation
Indices: 11662582--11662746 Score: 147
Period size: 34 Copynumber: 4.9 Consensus size: 34
11662572 AATCTTGTGC
* * *
11662582 ATCTTTAACTGTTGCAAATCTTTAAATCTTGA-GA
1 ATCTTTAACTCTTGCAAATTTTTAAATCTT-ACAA
* * *
11662616 AT-TTTAATTTTTACAAATTTTTAAATCTTACAA
1 ATCTTTAACTCTTGCAAATTTTTAAATCTTACAA
** *
11662649 ATCTTTAACTCTTGTGAATTTTTAAATCTTGCAA
1 ATCTTTAACTCTTGCAAATTTTTAAATCTTACAA
** *
11662683 ATCTACAACTCTTGCAAATTTTTAACA-CTTACGA
1 ATCTTTAACTCTTGCAAATTTTTAA-ATCTTACAA
* * * *
11662717 ATCTTTAAATCTTACAAAATTTTAATTCTT
1 ATCTTTAACTCTTGCAAATTTTTAAATCTT
11662747 GCTAATTTTC
Statistics
Matches: 104, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
32 1 0.01
33 26 0.25
34 76 0.73
35 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (34 bp):
ATCTTTAACTCTTGCAAATTTTTAAATCTTACAA
Found at i:11662770 original size:51 final size:51
Alignment explanation
Indices: 11662582--11662797 Score: 154
Period size: 51 Copynumber: 4.3 Consensus size: 51
11662572 AATCTTGTGC
* * * * * *
11662582 ATCTTTAACTGTTGCAAATCTTTAAATCTTGAGAAT-TTTAATTTTTAC-AA
1 ATCTTTAATTCTTGCAAAT-TTTAACTCTTGTGAATCTTTAAATCTTACAAA
* * * * *
11662632 ATTTTTAAATCTTACAAATCTTTAACTCTTGTGAATTTTTAAATCTTGC-AA
1 ATCTTTAATTCTTGCAAAT-TTTAACTCTTGTGAATCTTTAAATCTTACAAA
** * * **
11662683 ATCTACAACTCTTGCAAATTTTTAACACTTACGAATCTTTAAATCTTACAAA
1 ATCTTTAATTCTTGCAAA-TTTTAACTCTTGTGAATCTTTAAATCTTACAAA
* * * * * *
11662735 AT-TTTAATTCTTGCTAATTTTCAATTCTTGTGAATCCTCAACTCTTA-AGA
1 ATCTTTAATTCTTGCAAATTTT-AACTCTTGTGAATCTTTAAATCTTACAAA
11662785 ATCTTTAATTCTT
1 ATCTTTAATTCTT
11662798 ACGAATCTTT
Statistics
Matches: 130, Mismatches: 31, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
50 38 0.29
51 87 0.67
52 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (51 bp):
ATCTTTAATTCTTGCAAATTTTAACTCTTGTGAATCTTTAAATCTTACAAA
Found at i:11662833 original size:18 final size:18
Alignment explanation
Indices: 11662810--11662868 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
11662800 GAATCTTTGA
11662810 TCTTGCAAACCTTTGAAC
1 TCTTGCAAACCTTTGAAC
* * *
11662828 TCTTGCGAACTTTTCAAC
1 TCTTGCAAACCTTTGAAC
*
11662846 TTTTATG-AAA-CTTTGAAC
1 -TCT-TGCAAACCTTTGAAC
11662864 TCTTG
1 TCTTG
11662869 AACTTTTGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 21 0.68
19 4 0.13
20 2 0.06
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (18 bp):
TCTTGCAAACCTTTGAAC
Found at i:11662941 original size:20 final size:20
Alignment explanation
Indices: 11662916--11662959 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
11662906 ACTTGCCAAC
11662916 CTTTGAATTTATTTGTGAAA
1 CTTTGAATTTATTTGTGAAA
* *
11662936 CTTTGATTTTATTTGTGAAT
1 CTTTGAATTTATTTGTGAAA
11662956 CTTT
1 CTTT
11662960 AACATTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.57
Consensus pattern (20 bp):
CTTTGAATTTATTTGTGAAA
Found at i:11666032 original size:52 final size:52
Alignment explanation
Indices: 11665931--11666035 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
11665921 TATAACTATA
* * *
11665931 CAAACTTACCTATTAAAAATCCCTTTCCTTTTGAAATTTTTTTTTTGCAAGT
1 CAAACTTACCTATTAAAAATCCCTTTCCTTTTGAAATTCTTTGTCTGCAAGT
* * * *
11665983 CAAACTTGCTTATTAAGAATCTCTTTCCTTTT-AGAATTCTTTGTCTGCAAGT
1 CAAACTTACCTATTAAAAATCCCTTTCCTTTTGA-AATTCTTTGTCTGCAAGT
11666035 C
1 C
11666036 TTCCTATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.02
52 44 0.98
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.45
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATCCCTTTCCTTTTGAAATTCTTTGTCTGCAAGT
Found at i:11667127 original size:21 final size:21
Alignment explanation
Indices: 11667101--11667152 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
11667091 TTCTTTAGAT
* *
11667101 GATCGATCCCCTATGTGGGAG
1 GATCGATCCCCTATATGAGAG
11667122 GATCGATCCCCTATATGAGAG
1 GATCGATCCCCTATATGAGAG
11667143 GATCGATCCC
1 GATCGATCCC
11667153 TTTTACACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (21 bp):
GATCGATCCCCTATATGAGAG
Found at i:11673970 original size:24 final size:25
Alignment explanation
Indices: 11673943--11673995 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
11673933 TATTATTTTG
* *
11673943 AGAAATAATGATTAA-AATTAAAAA
1 AGAAATAATGATAAAGAATAAAAAA
11673967 AG-AATAATGATAAAGAATAAAAAA
1 AGAAATAATGATAAAGAATAAAAAA
11673991 AGAAA
1 AGAAA
11673996 AGAAGGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 12 0.48
25 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (25 bp):
AGAAATAATGATAAAGAATAAAAAA
Found at i:11674338 original size:20 final size:20
Alignment explanation
Indices: 11674313--11674350 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11674303 TTTTTTGGTA
11674313 TGTTTTTCCAGATTTCGACG
1 TGTTTTTCCAGATTTCGACG
* *
11674333 TGTTTTTTCAGTTTTCGA
1 TGTTTTTCCAGATTTCGA
11674351 TGCAAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.18, T:0.53
Consensus pattern (20 bp):
TGTTTTTCCAGATTTCGACG
Found at i:11674708 original size:17 final size:17
Alignment explanation
Indices: 11674686--11674724 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11674676 CGTTCTTTGG
*
11674686 TATTTTATTTATTTATT
1 TATTTTATGTATTTATT
*
11674703 TATTTTATGTGTTTATT
1 TATTTTATGTATTTATT
11674720 T-TTTT
1 TATTTT
11674725 TTAGTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (17 bp):
TATTTTATGTATTTATT
Found at i:11674983 original size:18 final size:17
Alignment explanation
Indices: 11674937--11674984 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
11674927 ATTTTCCAAC
* *
11674937 AAAATATTAAAAACCAT
1 AAAATATAAAAAAACAT
*
11674954 AAAATACAAAAAAAACATT
1 AAAATA-TAAAAAAACA-T
11674973 AAAATATAAAAA
1 AAAATATAAAAA
11674985 TTTTTGGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATATAAAAAAACAT
Found at i:11676599 original size:50 final size:50
Alignment explanation
Indices: 11676535--11676639 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 50
11676525 GCATTTGTAT
* * *
11676535 CATTTCCATATCATTCCATTCTATGTATCATTTCCATCTTCATGTTTTAA
1 CATTACCATATCATTCCATTCTATGCATCATTTCCATCATCATGTTTTAA
* * * *
11676585 CATTACCATATCATTTCATTCTATGCATCATTTTCATGATCTTGTTTTAA
1 CATTACCATATCATTCCATTCTATGCATCATTTCCATCATCATGTTTTAA
11676635 CATTA
1 CATTA
11676640 TCATTTGCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.48
Consensus pattern (50 bp):
CATTACCATATCATTCCATTCTATGCATCATTTCCATCATCATGTTTTAA
Found at i:11685549 original size:9 final size:9
Alignment explanation
Indices: 11685535--11685607 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
11685525 TATGCTTGAA
11685535 AAAAAAAAG
1 AAAAAAAAG
11685544 AAAAAAAAGG
1 AAAAAAAA-G
*
11685554 AGAAAACAAG
1 A-AAAAAAAG
*
11685564 GAAAAAAAG
1 AAAAAAAAG
*
11685573 AAAAAAATG
1 AAAAAAAAG
* *
11685582 AATGACAAAAT
1 AA--AAAAAAG
11685593 AAAAAAAA-
1 AAAAAAAAG
11685601 AAAAAAA
1 AAAAAAA
11685608 GACTCAAGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 7 0.14
9 29 0.57
10 3 0.06
11 12 0.24
ACGTcount: A:0.81, C:0.03, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:11686665 original size:41 final size:41
Alignment explanation
Indices: 11686604--11686937 Score: 307
Period size: 42 Copynumber: 8.0 Consensus size: 41
11686594 ATGATTGTCA
* * * *
11686604 AGGAGC-ATTTATTTTCCAAAGTTATGGTGCATCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAG
* *
11686644 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAG
11686685 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTA-
1 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAG
* * * * *
11686725 AGAGAGCATTTTATTTGTTTAAAGTCGTGGTGTCTCTGTTTAG
1 AG-GAGCAATTTATTT-TTCAAAGTCATGGTGCCTCTATTTAG
*
11686768 AGGAGCAATTTA-TTTTCTAAAGTTATGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTC-AAAGTCATGG-TGCCTCTATTTAG
* *
11686810 AAGG-GCAATTTATTTTTTCAAAGTCATGGTGCCTTTGTTTAG
1 -AGGAGCAATTTA-TTTTTCAAAGTCATGGTGCCTCTATTTAG
* ** * * ** * *
11686852 AGAAGTGATTTATTTTCCAAAATTGTGATTACCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGTCATG-GTGCCTCTATTTAG
* * * ** *
11686894 ATGAGTAATTTATTTTCCAAAGTTGTGGTTGCTTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGTCATGG-TGCCTCTATTTAG
11686936 AG
1 AG
11686938 TGCTTCTGTT
Statistics
Matches: 243, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
40 10 0.04
41 103 0.42
42 111 0.46
43 14 0.06
44 5 0.02
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTAG
Found at i:11686774 original size:42 final size:41
Alignment explanation
Indices: 11686604--11686867 Score: 300
Period size: 41 Copynumber: 6.4 Consensus size: 41
11686594 ATGATTGTCA
** * *
11686604 AGGAGC-ATTTATTTTCCAAAGTTATGGTGCATCTGTTTAG
1 AGGAGCAATTTATTTTTTAAAGTCATGGTGCCTCTGTTTAG
* *
11686644 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTTAAAGTCATGGTGCCTCTGTTTAG
* *
11686685 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTA-
1 AGGAGCAATTTATTTTTTAAAGTCATGGTGCCTCTGTTTAG
* * *
11686725 AGAGAGCATTTTATTTGTTTAAAGTCGTGGTGTCTCTGTTTAG
1 AG-GAGCAATTTATTT-TTTAAAGTCATGGTGCCTCTGTTTAG
* * *
11686768 AGGAGCAATTTATTTTCTAAAGTTATGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTTAAAGTCATGG-TGCCTCTGTTTAG
*
11686810 AAGG-GCAATTTATTTTTTCAAAGTCATGGTGCCTTTGTTTAG
1 -AGGAGCAATTTATTTTTT-AAAGTCATGGTGCCTCTGTTTAG
* **
11686852 AGAAGTGATTTATTTT
1 AGGAGCAATTTATTTT
11686868 CCAAAATTGT
Statistics
Matches: 192, Mismatches: 24, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
40 8 0.04
41 92 0.48
42 78 0.41
43 14 0.07
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTTAAAGTCATGGTGCCTCTGTTTAG
Found at i:11686850 original size:84 final size:83
Alignment explanation
Indices: 11686604--11686937 Score: 372
Period size: 84 Copynumber: 4.0 Consensus size: 83
11686594 ATGATTGTCA
* * *
11686604 AGGAGC-ATTTATTTTCCAAAGTTATGGTGCATCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGT
1 AGGAGCAATTTATTTTCCAAAGTTATGGTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAGT
11686667 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
* * *
11686685 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTATTTA-AGAGAGCATTTTATTTGTTT-AAA
1 AGGAGCAATTTATTTTCCAAAGTTATGGTGCCTCTATTTAGA-AGAGCAATTTATTT-TTTCAAA
*
11686748 GTCGTGGTGTCTCTGTTTAG
64 GTCGTGGTGCCTCTGTTTAG
* *
11686768 AGGAGCAATTTATTTTCTAAAGTTATGGTTGCCTCTATTTAGAAGGGCAATTTATTTTTTCAAAG
1 AGGAGCAATTTATTTTCCAAAGTTATGG-TGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAG
* *
11686833 TCATGGTGCCTTTGTTTAG
65 TCGTGGTGCCTCTGTTTAG
* ** * * * * * * *
11686852 AGAAGTGATTTATTTTCCAAAATTGTGATTACCTCTATTTAGATGAGTAATTTA-TTTTCCAAAG
1 AGGAGCAATTTATTTTCCAAAGTTATG-GTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAG
* * *
11686916 TTGTGGTTGCTTCTATTTAG
65 TCGTGG-TGCCTCTGTTTAG
11686936 AG
1 AG
11686938 TGCTTCTGTT
Statistics
Matches: 212, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
81 7 0.03
82 38 0.18
83 65 0.31
84 101 0.48
85 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (83 bp):
AGGAGCAATTTATTTTCCAAAGTTATGGTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAAAGT
CGTGGTGCCTCTGTTTAG
Found at i:11687004 original size:42 final size:43
Alignment explanation
Indices: 11686937--11687020 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
11686927 TCTATTTAGA
* *
11686937 GTGCTTCTGTTTAGATGAGCAATTTATTTTTC-AAAAGTTGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTGTG
* *
11686979 GTGCCTCTGTTTAGAGGAGCTATTTATTTTTCTCAAAGTTGT
1 GTGCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTGT
11687021 TAAGCTTCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (43 bp):
GTGCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTGTG
Found at i:11687031 original size:43 final size:42
Alignment explanation
Indices: 11686939--11687036 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
11686929 TATTTAGAGT
* **
11686939 GCTTCTGTTTAGATGAGCAATTTATTTTTCAAAAGTTGTGGT
1 GCTTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTTGTGAA
* * * *
11686981 GCCTCTGTTTAGAGGAGCTATTTATTTTTCTCAAAGTTGTTAA
1 GCTTCTGTTTAGAGGAGCAATTTATTTTTC-AAAAGTTGTGAA
11687024 GCTTCTGTTTAGA
1 GCTTCTGTTTAGA
11687037 AGACTTTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.45
Consensus pattern (42 bp):
GCTTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTTGTGAA
Found at i:11687047 original size:99 final size:97
Alignment explanation
Indices: 11686842--11687048 Score: 208
Period size: 99 Copynumber: 2.1 Consensus size: 97
11686832 GTCATGGTGC
** * *
11686842 CTTTGTTTAGAGAAGTGATTTATTTTCCAAAATTGTGATTACCTCTATTTAGATGAGTAATTTAT
1 CTTTGTTTAGAGAAGCAATTTATTTTCCAAAATTGTGAGTACCTCTATTTAGAGGAGTAATTTAT
* *
11686907 TTTCCAAAGTTGTGGTTGCTTCTATTTAGAGTG
66 TTTCCAAAGTTGT-GTAGCTTCTATTTAGAGTA
* * *
11686940 CTTCTGTTTAGATG-AGCAATTTATTTTTCAAAAGTTGTG-GTGCCTCTGTTTAGAGGAGCT-AT
1 CTT-TGTTTAGA-GAAGCAATTTATTTTCCAAAA-TTGTGAGTACCTCTATTTAGAGGAG-TAAT
*
11687002 TTATTTTTCTCAAAGTTGT-TAAGCTTCTGTTTAGAAG-A
62 TTA-TTTTC-CAAAGTTGTGT-AGCTTCTATTTAG-AGTA
11687040 CTTTGTTTA
1 CTTTGTTTA
11687049 CTTTTTCAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
98 3 0.03
99 51 0.56
100 26 0.29
101 11 0.12
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (97 bp):
CTTTGTTTAGAGAAGCAATTTATTTTCCAAAATTGTGAGTACCTCTATTTAGAGGAGTAATTTAT
TTTCCAAAGTTGTGTAGCTTCTATTTAGAGTA
Found at i:11688025 original size:4 final size:4
Alignment explanation
Indices: 11688016--11688058 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
11688006 CGTTCTTTGG
11688016 TATT TATT TATT TATT TATTT TATGT GT-TT TATT TATT TATT T
1 TATT TATT TATT TATT TA-TT TAT-T -TATT TATT TATT TATT T
11688059 TAGTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 1 0.03
4 27 0.77
5 6 0.17
6 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:11688323 original size:19 final size:19
Alignment explanation
Indices: 11688267--11688323 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
11688257 TTTATTTTTC
11688267 AACA-AAAAATTATAATAAA-
1 AACATAAAAA-TATAA-AAAT
*
11688286 AATATAAAAA-ATAAAAAAT
1 AACATAAAAATAT-AAAAAT
11688305 AACATAAAAATATAAAAAT
1 AACATAAAAATATAAAAAT
11688324 TTTGGAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 5 0.16
19 20 0.62
20 7 0.22
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (19 bp):
AACATAAAAATATAAAAAT
Found at i:11688742 original size:49 final size:48
Alignment explanation
Indices: 11688668--11688762 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 48
11688658 CAAAAAAAAA
* * *
11688668 TAAAAAGAATTTCTAAATAGGCCCAAATGGTGGAAACTTTAGAAATTC
1 TAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTC
*
11688716 TAAAAATATATTTCTAAATTA-ACCCAAATGGTGAAAAATTTAGAAAT
1 TAAAAAGA-ATTTCTAAA-TAGACCCAAATGGTGAAAAATTTAGAAAT
11688763 CCAACAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 7 0.17
49 32 0.78
50 2 0.05
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (48 bp):
TAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTC
Found at i:11694350 original size:1 final size:1
Alignment explanation
Indices: 11694346--11694407 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
11694336 ATTAAAAATT
** * * * * * *
11694346 AAAAAAAATTAAAAAAAGAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAGAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11694408 GTTTTATTTT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Found at i:11694367 original size:18 final size:17
Alignment explanation
Indices: 11694346--11694407 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 17
11694336 ATTAAAAATT
*
11694346 AAAAAAAATTAAAAAAAG
1 AAAAAAAA-AAAAAAAAG
11694364 AAAAAAAGAAAAAAAAAG
1 AAAAAAA-AAAAAAAAAG
11694382 AAAAAAAAAGAAAAAAGAG
1 AAAAAAAAA-AAAAAA-AG
11694401 AAAAAAA
1 AAAAAAA
11694408 GTTTTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 2 0.05
18 28 0.70
19 10 0.25
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:11694369 original size:10 final size:10
Alignment explanation
Indices: 11694356--11694407 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
11694346 AAAAAAAATT
11694356 AAAAAAAG--
1 AAAAAAAGAA
11694364 AAAAAAAGAA
1 AAAAAAAGAA
11694374 AAAAAAAGAA
1 AAAAAAAGAA
11694384 AAAAAAAG-A
1 AAAAAAAGAA
*
11694393 AAAAAGAGAA
1 AAAAAAAGAA
11694403 AAAAA
1 AAAAA
11694408 GTTTTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
8 8 0.20
9 8 0.20
10 24 0.60
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:11694408 original size:10 final size:10
Alignment explanation
Indices: 11694356--11694408 Score: 69
Period size: 9 Copynumber: 5.7 Consensus size: 10
11694346 AAAAAAAATT
11694356 AAAAAA-AGA
1 AAAAAAGAGA
11694365 AAAAAAGA-A
1 AAAAAAGAGA
11694374 AAAAAA-AGA
1 AAAAAAGAGA
*
11694383 AAAAAAAAG-
1 AAAAAAGAGA
11694392 AAAAAAGAGA
1 AAAAAAGAGA
11694402 AAAAAAG
1 AAAAAAG
11694409 TTTTATTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 1 0.03
9 28 0.72
10 10 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:11694408 original size:17 final size:17
Alignment explanation
Indices: 11694357--11694408 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
11694347 AAAAAAATTA
*
11694357 AAAAAAGAAAAAAAGAAA
1 AAAAAAGAAAAAAA-AAG
11694375 AAAAAAGAAAAAAAAAG
1 AAAAAAGAAAAAAAAAG
*
11694392 AAAAAAGAGAAAAAAAG
1 AAAAAAGAAAAAAAAAG
11694409 TTTTATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:11695389 original size:16 final size:16
Alignment explanation
Indices: 11695368--11695404 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
11695358 AGGCAAAGCA
11695368 AAGAAACCTTAGAAAT
1 AAGAAACCTTAGAAAT
11695384 AAGAAACCTTAGAAAT
1 AAGAAACCTTAGAAAT
11695400 AAGAA
1 AAGAA
11695405 TTTGAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (16 bp):
AAGAAACCTTAGAAAT
Found at i:11696799 original size:41 final size:40
Alignment explanation
Indices: 11696736--11696840 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 40
11696726 TTAAAGTTTT
* * *
11696736 AAAGTCTCTGTTTAAGAAGAACC-GTTCTCAATCAAGATTTC
1 AAAGCCTCTGTTT-AGAGGAACCAATT-TCAATCAAGATTTC
*
11696777 AAAGCCTCTGTGTTAGAGGAACCAATTTCAATCAAGATTTG
1 AAAGCCTCTGT-TTAGAGGAACCAATTTCAATCAAGATTTC
*
11696818 AAAGCCTCTATTTAGAGGGAACC
1 AAAGCCTCTGTTTAGA-GGAACC
11696841 TTCATCAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 5 0.09
41 47 0.84
42 4 0.07
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (40 bp):
AAAGCCTCTGTTTAGAGGAACCAATTTCAATCAAGATTTC
Found at i:11697232 original size:121 final size:122
Alignment explanation
Indices: 11696898--11697240 Score: 526
Period size: 125 Copynumber: 2.8 Consensus size: 122
11696888 AAGCCATGTT
* * *
11696898 TTAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTATGAGAAGCATTCAAAGATTTTG
1 TTAAAAGATTTTCAAATTTTTAAAGTTTTATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
* *
11696963 AGATTTGTAAAACCTCCAGGCATAATCTCTAAAAGCCTTTACGCACGACTTTCAAGA
66 AGATTTGTAAGACCTCCAGGCATAATCTCTAAAAGCCTTTACGCACAACTTTCAAGA
*
11697020 TTAAAAGATTTTCAAATTTTTTAAAAGTTTTATTACCCTCTGATTATGAGGAGCATTCAAAGATT
1 TTAAAAGATTTTCAAA-TTTTT-AAAGTTTTATT-GCCTCTGATTATGAGGAGCATTCAAAGATT
* * * ** *
11697085 TTGAGATTTGTAAGACCTCCAAGCATAATCTTTAAAAGTCTTTGTGCATAACTTTCAAGA
63 TTGAGATTTGTAAGACCTCCAGGCATAATCTCTAAAAGCCTTTACGCACAACTTTCAAGA
11697145 TTAAAAGATTTTCAAA-TTTTAAAGTTTTATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
1 TTAAAAGATTTTCAAATTTTTAAAGTTTTATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
* *
11697209 AGATTTGTAAGACCTTCGGGCATAATCTCTAA
66 AGATTTGTAAGACCTCCAGGCATAATCTCTAA
11697241 TACCTCCGAG
Statistics
Matches: 201, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
121 60 0.30
122 26 0.13
123 9 0.04
124 10 0.05
125 96 0.48
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (122 bp):
TTAAAAGATTTTCAAATTTTTAAAGTTTTATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
AGATTTGTAAGACCTCCAGGCATAATCTCTAAAAGCCTTTACGCACAACTTTCAAGA
Found at i:11697283 original size:21 final size:21
Alignment explanation
Indices: 11697217--11697283 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
11697207 TGAGATTTGT
* *
11697217 AAGACCTTCGGGCATAATCTC
1 AAGACCTCCGGGCATAATTTC
* *
11697238 TAATACCTCCGAGCATAACTTTC
1 -AAGACCTCCGGGCATAA-TTTC
11697261 AAGACCTCCGGGCATAATTTC
1 AAGACCTCCGGGCATAATTTC
11697282 AA
1 AA
11697284 TTCGCGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 6 0.16
22 29 0.76
23 3 0.08
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
AAGACCTCCGGGCATAATTTC
Found at i:11697390 original size:22 final size:22
Alignment explanation
Indices: 11697348--11697390 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11697338 ATCGATTCTG
*
11697348 TAAGACCTCCGGACATGATTTC
1 TAAGACCTCCGGACATAATTTC
11697370 TAAGACCTCCAGG-CATAATTT
1 TAAGACCTCC-GGACATAATTT
11697391 TGATTCGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:11697450 original size:110 final size:110
Alignment explanation
Indices: 11697242--11697927 Score: 414
Period size: 110 Copynumber: 6.2 Consensus size: 110
11697232 AATCTCTAAT
* * * * * *
11697242 ACCTCCGAGCATAACTTTC-AAGACCTCCGGGCATAATTTCAATTCGCGATGTTATCTCGATCGA
1 ACCTCCGGGCATGA-TTTCTAAGACCTCCAGGCATAATTTCGATTCGCAATGTTATCCCGATCGA
* *
11697306 TTCTTTATTTTTTAACTTGTGATATTATCACAATCGATTCTGTAAG
65 TTCTTTATTTTTTGACTTGTGATGTTATCACAATCGATTCTGTAAG
* * *
11697352 ACCTCCGGACATGATTTCTAAGACCTCCAGGCATAATTTTGATTCGCAATATTATCCCGATCGAT
1 ACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCAATGTTATCCCGATCGAT
* * * * ** *
11697417 TTTTTATTTTTTGACTTATGGTGCTATTTCAATCAATT-TCGTAAG
66 TCTTTATTTTTTGACTTGTGATGTTATCACAATCGATTCT-GTAAG
* * * * * *
11697462 ACCTCCGGGCATGATTTCTAAGATCTCTAGACATAATTTCGATTCACAGTGTTATCCCGATCGAC
1 ACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCAATGTTATCCCGATCGAT
** *
11697527 TCTTTATTTTTTGACTTGCAATGTTATCACAGTCGATTCTGTAAG
66 TCTTTATTTTTTGACTTGTGATGTTATCACAATCGATTCTGTAAG
* * * * * * * ** *
11697572 ACCTCCGGGCATAATTTC---GA--TTCACG-ATGTTATCTCGA-TCG-ATTCTTTAT--CTTTT
1 ACCTCCGGGCATGATTTCTAAGACCTCCAGGCA--TAATTTCGATTCGCAAT-GTTATCCCGATC
* ** * * *** *
11697627 GACTTAAGGTGTTATCTCAGTTGA-TTCTGTAAGACCTC-CGGGCAT-GATTCTGTAAG
63 GA-TT---CT-TTAT-T-TTTTGACTTGTG-ATGTTATCAC---AATCGATTCTGTAAG
* * ** * * * * ** *
11697683 ATCTTCGAACATGATTTCTAAGACCTCTAGGCATAATTTTGATTCGCAGTGTTATTCCGATTTAC
1 ACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCAATGTTATCCCGATCGAT
* * ** * *
11697748 TCCTTATTTTTTAACTTGCAATGTTATCACAGTTGATTCTGTAAG
66 TCTTTATTTTTTGACTTGTGATGTTATCACAATCGATTCTGTAAG
* * * * ** *
11697793 ACCTCCGGGCATGATTTCTAAGACCTCCGGGTATAATTTTGATTCACGGTGTTATCCTGATCGAT
1 ACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCAATGTTATCCCGATCGAT
** * * *
11697858 TCTTTATTTTTTGACTTACGGTGTTATCCCAGTC-ATTCTGTAAG
66 TCTTTATTTTTTGACTTGTGATGTTATCACAATCGATTCTGTAAG
** *
11697902 ACCTCCAAGCATGATTTTTAAGACCT
1 ACCTCCGGGCATGATTTCTAAGACCT
11697928 TAGGGTCGAT
Statistics
Matches: 428, Mismatches: 118, Indels: 61
0.71 0.19 0.10
Matches are distributed among these distances:
103 4 0.01
104 4 0.01
105 8 0.02
106 7 0.02
107 3 0.01
108 4 0.01
109 43 0.10
110 288 0.67
111 32 0.07
112 5 0.01
113 4 0.01
114 2 0.00
115 6 0.01
116 10 0.02
117 4 0.01
118 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (110 bp):
ACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAATTTCGATTCGCAATGTTATCCCGATCGAT
TCTTTATTTTTTGACTTGTGATGTTATCACAATCGATTCTGTAAG
Found at i:11697629 original size:88 final size:87
Alignment explanation
Indices: 11697493--11697671 Score: 263
Period size: 88 Copynumber: 2.0 Consensus size: 87
11697483 GATCTCTAGA
*
11697493 CATAATTTCGATTCACAGTGTTATCCCGATCGACTCTTTATTTTTTGACTTGCAA-TGTTATCAC
1 CATAATTTCGATTCACAGTGTTATCCCGATCGACTCTTTATCTTTTGACTT--AAGTGTTATCAC
11697557 AGTCGATTCTGTAAGACCTCCGGG
64 AGTCGATTCTGTAAGACCTCCGGG
* * *
11697581 CATAATTTCGATTCAC-GATGTTATCTCGATCGATTCTTTATCTTTTGACTTAAGGTGTTATCTC
1 CATAATTTCGATTCACAG-TGTTATCCCGATCGACTCTTTATCTTTTGACTTAA-GTGTTATCAC
*
11697645 AGTTGATTCTGTAAGACCTCCGGG
64 AGTCGATTCTGTAAGACCTCCGGG
11697669 CAT
1 CAT
11697672 GATTCTGTAA
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
86 2 0.02
87 1 0.01
88 80 0.96
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (87 bp):
CATAATTTCGATTCACAGTGTTATCCCGATCGACTCTTTATCTTTTGACTTAAGTGTTATCACAG
TCGATTCTGTAAGACCTCCGGG
Found at i:11697674 original size:23 final size:23
Alignment explanation
Indices: 11697648--11697709 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
11697638 TTATCTCAGT
**
11697648 TGATTCTGTAAGACCTCCGGGCA
1 TGATTCTGTAAGACCTCCGAACA
* *
11697671 TGATTCTGTAAGATCTTCGAACA
1 TGATTCTGTAAGACCTCCGAACA
*
11697694 TGATT-TCTAAGACCTC
1 TGATTCTGTAAGACCTC
11697710 TAGGCATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCCGAACA
Found at i:11697831 original size:22 final size:22
Alignment explanation
Indices: 11697789--11697831 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11697779 GTTGATTCTG
*
11697789 TAAGACCTCCGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
*
11697811 TAAGACCTCCGGGTATAATTT
1 TAAGACCTCCGGGCATAATTT
11697832 TGATTCACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTC
Found at i:11697993 original size:81 final size:80
Alignment explanation
Indices: 11697853--11698008 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 80
11697843 GTTATCCTGA
* * * * *
11697853 TCGATTCTTTATTTTTTGACTTACGGTGTTATCCCAGTCATTCTGTAAGACCTCCAAGCATGATT
1 TCGATTCCTTATTTTTTGACTTACGATGTTATCACAATCATTCTATAAGACCTCCAAGCATGATT
*
11697918 TTTAAGACCTTAGGG
66 TCTAAGACCTTAGGG
* * *
11697933 TCGATTCCTTATTTTTTGACTTGCGATGTTATCACAATCGATTCTATAAGACCTCTAAGCATTAT
1 TCGATTCCTTATTTTTTGACTTACGATGTTATCACAATC-ATTCTATAAGACCTCCAAGCATGAT
11697998 TTCTAAGACCT
65 TTCTAAGACCT
11698009 CCGGGCATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 34 0.52
81 32 0.48
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (80 bp):
TCGATTCCTTATTTTTTGACTTACGATGTTATCACAATCATTCTATAAGACCTCCAAGCATGATT
TCTAAGACCTTAGGG
Found at i:11698092 original size:190 final size:190
Alignment explanation
Indices: 11697748--11698095 Score: 500
Period size: 190 Copynumber: 1.8 Consensus size: 190
11697738 TCCGATTTAC
* * * **
11697748 TCCTTATTTTTTAACTTGCAATGTTATCACAGTTGATTCTGTAAGACCTCCGGGCATGATTTCTA
1 TCCTTATTTTTTAACTTGCAATGTTATCACAATCGATTCTATAAGACCTCCAAGCATGATTTCTA
* ** *
11697813 AGACCTCCGGGTATAATTTTGATTCACGGTGTTATCCTGATCGATTCTTTATTTTTTGACTTACG
66 AGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCTTTATTTTTTGACTTACG
*
11697878 GTGTTATCCCAGTCATTCTGTAAGACCTCCAAGCATGATTTTTAAGACCTTAGGGTCGAT
131 ATGTTATCCCAGTCATTCTGTAAGACCTCCAAGCATGATTTTTAAGACCTTAGGGTCGAT
* * * *
11697938 TCCTTATTTTTTGACTTGCGATGTTATCACAATCGATTCTATAAGACCTCTAAGCATTATTTCTA
1 TCCTTATTTTTTAACTTGCAATGTTATCACAATCGATTCTATAAGACCTCCAAGCATGATTTCTA
** *
11698003 AGACCTCCGGGCATAATTTTGATTCGGGGTGTTATCCCAATCAATTCTTTA-TTTTTGACTTGCG
66 AGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCTTTATTTTTTGACTTACG
* * *
11698067 ATGTTATCTCGGTCAATTTTGTAAGACCT
131 ATGTTATCCCAGTC-ATTCTGTAAGACCT
11698096 TTGAGCATGA
Statistics
Matches: 137, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
189 23 0.17
190 114 0.83
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (190 bp):
TCCTTATTTTTTAACTTGCAATGTTATCACAATCGATTCTATAAGACCTCCAAGCATGATTTCTA
AGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCTTTATTTTTTGACTTACG
ATGTTATCCCAGTCATTCTGTAAGACCTCCAAGCATGATTTTTAAGACCTTAGGGTCGAT
Found at i:11698116 original size:23 final size:23
Alignment explanation
Indices: 11698084--11698138 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
11698074 CTCGGTCAAT
11698084 TTTGTAAGACCTTT-GAGCATGA
1 TTTGTAAGACCTTTCGAGCATGA
*
11698106 TTCTGTAAGA-CTTTCGGGCATGA
1 TT-TGTAAGACCTTTCGAGCATGA
*
11698129 TTTCTAAGAC
1 TTTGTAAGAC
11698139 TTCCATGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (23 bp):
TTTGTAAGACCTTTCGAGCATGA
Found at i:11698148 original size:22 final size:22
Alignment explanation
Indices: 11698100--11698153 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11698090 AGACCTTTGA
* * *
11698100 GCATGATTCTGTAAGACTTTCGG
1 GCATGATT-TCTAAGACTTCCAG
*
11698123 GCATGATTTCTAAGACTTCCAT
1 GCATGATTTCTAAGACTTCCAG
*
11698145 GCATAATTT
1 GCATGATTT
11698154 TGATTTGTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (22 bp):
GCATGATTTCTAAGACTTCCAG
Found at i:11698354 original size:111 final size:111
Alignment explanation
Indices: 11698105--11698354 Score: 322
Period size: 111 Copynumber: 2.3 Consensus size: 111
11698095 TTTGAGCATG
* * * * * * *
11698105 ATTCTGTAAGACTTTCGGGCATGATTTCTAAGACTTCCATGCATAATTTTGATTTGTCGTGTTAC
1 ATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCAGGCATAATTTCGATTCGTCGTGTTAC
* * * *
11698170 CTCGATCAATTCTTTATTTTTTTGACTTGTGGTGTTTTCCCAATCC
66 CTCGATCAATTCTTTATTTTTTTAACTTGCGGTGTTATCCCAATCA
* * *
11698216 ATTCTGTAAAACCTCCGAGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTCG-CGGTGTTA
1 ATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCAGGCATAATTTCGATTCGTC-GTGTTA
* *
11698280 TCTCGATCAATTCTTTATTTTTTTAACTTGCGGTGTTATGCCAATCA
65 CCTCGATCAATTCTTTATTTTTTTAACTTGCGGTGTTATCCCAATCA
* *
11698327 ATTCTGTAAGACCTCCGGGTATAATTTT
1 ATTCTGTAAGACCTCCGGGCATGATTTT
11698355 GATTCACGGT
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
110 1 0.01
111 117 0.99
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (111 bp):
ATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCAGGCATAATTTCGATTCGTCGTGTTAC
CTCGATCAATTCTTTATTTTTTTAACTTGCGGTGTTATCCCAATCA
Found at i:11698462 original size:199 final size:198
Alignment explanation
Indices: 11698163--11698539 Score: 501
Period size: 199 Copynumber: 1.9 Consensus size: 198
11698153 TTGATTTGTC
* * * * * *
11698163 GTGTTACCTCGATCAATTCTTTATTTTTTTGACTTGTGGTGTTTTCCCAATCCATTCTGTAAAAC
1 GTGTTACCTCGATCAATTCTTTATGTTTTTAACTTGCGGTGTTATCACAATCCATTCTATAAAAC
* * * *
11698228 CTCCGAGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCGATCAATTC
66 CTCCGAGCATGATTTCTAAGACCTCCGGGCATAATTTCAATTCACGGTGTTATCCCGATCAATT-
* *
11698293 TTT-ATTTTTTTAACTTGCGGTGTTATGCCAATCAATTCTGTAAGACCTCCGGGTATAATTTTGA
130 TTTCA--TTTTTAACTTACGGTGTTATCCCAATCAATTCTGTAAGACCTCCGGGTATAATTTTGA
11698357 TTCACG
193 TTCACG
* * *
11698363 GTGTTATCC-CGATCAATTCTTTA-GTTTTTAACTTGCGGTGTTATCACAGTCGATTCTATAAGA
1 GTGTTA-CCTCGATCAATTCTTTATGTTTTTAACTTGCGGTGTTATCACAATCCATTCTATAAAA
* * *
11698426 CCTCC-AGCAATGATTTCTAAGACCTTCGGGCATAATTTTAATTCACGGTGTTATCCCGATCGAT
65 CCTCCGAGC-ATGATTTCTAAGACCTCCGGGCATAATTTCAATTCACGGTGTTATCCCGATCAAT
* *
11698490 TTTTCATTTTTGACTTACGGTGTTATCCCGATCAATTCTGTAAGACCTCC
129 TTTTCATTTTTAACTTACGGTGTTATCCCAATCAATTCTGTAAGACCTCC
11698540 AAGCATGATT
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
197 40 0.26
198 6 0.04
199 86 0.56
200 20 0.13
201 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (198 bp):
GTGTTACCTCGATCAATTCTTTATGTTTTTAACTTGCGGTGTTATCACAATCCATTCTATAAAAC
CTCCGAGCATGATTTCTAAGACCTCCGGGCATAATTTCAATTCACGGTGTTATCCCGATCAATTT
TTCATTTTTAACTTACGGTGTTATCCCAATCAATTCTGTAAGACCTCCGGGTATAATTTTGATTC
ACG
Found at i:11698501 original size:442 final size:435
Alignment explanation
Indices: 11697568--11698840 Score: 1422
Period size: 442 Copynumber: 2.9 Consensus size: 435
11697558 GTCGATTCTG
* * *
11697568 TAAGACCTCCGGGCATAATTTCGATTCACGATGTTATCTCGATCGATTCTTTATCTTTTGACTTA
1 TAAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCTTTAT-TTTTGACTTA
* * ** * *
11697633 AGGTGTTATCTCAGTTGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGA-TCTTCGAACATGA
65 CGGTGTTATCTCGGTCAATTCTGTAAGACCTCCGAGCATGATTCTGTAAGACT-TTCGGACATGA
* * * ** * *
11697697 TTTCTAAGACCTCTAGGCATAATTTTGATTCGCAGTGTTATTCCGATTTACTCCTTATTTTTTAA
129 TTTCTAAGACTTCCAGGCATAATTTTGATTCGCAGTGTTACT-CGATCAATTCTTTATTTTTTAA
** * ** * * *
11697762 CTTGCAATGTTATCACAGTTGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGTAT
193 CTTGCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGGGCAT
* * *
11697827 AATTTTGATTCACGGTGTTATCCTGATCGATTCTTTA-TTTTTTGACTTACGGTGTTATCCCAGT
258 AATTTTGATTCGCGGTGTTATCC-GATCAATTCTTTATTTTTTTGACTTGCGGTGTTATCCCAGT
* * *** * * *
11697891 CATTCTGTAAGACCTCCAAGCATGATTT--TT-AAGACCTTA--GGGTCGATTCCTTATTTTTTG
322 CATTCTGTAAGACCTCCAGGCATAATTTGATTCAAGGTGTTATCCGATCGATTCATTA-TTTTTG
* *
11697951 ACTTGCGATGTTATCACAATCGATTCTATAAGACCTCTAAGCATTATTTC
386 ACTTGCGGTGTTATCACAATCGATTCTATAAGACCTCTAAGCATGATTTC
** * * *
11698001 TAAGACCTCCGGGCATAATTTTGATTCGGGGTGTTATCCCAATCAATTCTTTATTTTTGACTTGC
1 TAAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTGACTTAC
* * ** *
11698066 GATGTTATCTCGGTCAATTTTGTAAGACCTTTGAGCATGATTCTGTAAGACTTTCGGGCATGATT
66 GGTGTTATCTCGGTCAATTCTGTAAGACCTCCGAGCATGATTCTGTAAGACTTTCGGACATGATT
* * *
11698131 TCTAAGACTTCCATGCATAATTTTGATTTGTC-GTGTTACCTCGATCAATTCTTTATTTTTTTGA
131 TCTAAGACTTCCAGGCATAATTTTGATTCG-CAGTGTTA-CTCGATCAATTCTTTA-TTTTTTAA
* * * * *
11698195 CTTGTGGTGTTTTCCCAATCCATTCTGTAAAACCTCCGAGCATGATTTTTAAGACCTCCGGGCAT
193 CTTGCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGGGCAT
* * * *
11698260 AATTTCGATTCGCGGTGTTATCTCGATCAATTCTTTATTTTTTTAACTTGCGGTGTTATGCCAAT
258 AATTTTGATTCGCGGTGTTATC-CGATCAATTCTTTATTTTTTTGACTTGCGGTGTTATCCCAGT
* * * * *
11698325 CAATTCTGTAAGACCTCCGGGTATAATTTTGATTCACGGTGTTATCCCGATCAATTCTTTAGTTT
322 C-ATTCTGTAAGACCTCCAGGCATAA-TTTGATTCAAGGTGTTAT-CCGATCGATTCATTA-TTT
* * *
11698390 TTAACTTGCGGTGTTATCACAGTCGATTCTATAAGACCTC-CAGCAATGATTTC
383 TTGACTTGCGGTGTTATCACAATCGATTCTATAAGACCTCTAAGC-ATGATTTC
* *
11698443 TAAGACCTTCGGGCATAATTTTAATTCACGGTGTTATCCCGATCGATT-TTTCATTTTTGACTTA
1 TAAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCTTT-ATTTTTGACTTA
* * * * *
11698507 CGGTGTTATCCCGATCAATTCTGTAAGACCTCCAAGCATGATTCTGTAAGACCTTCCGACATGAT
65 CGGTGTTATCTCGGTCAATTCTGTAAGACCTCCGAGCATGATTCTGTAAGACTTTCGGACATGAT
* * * ** * *
11698572 TTCTAAGACTTTCGGGCATAATTTCGATTCGCAGTGTTATCTTAATCGATTCTCTA-TTTTTAAC
130 TTCTAAGACTTCCAGGCATAATTTTGATTCGCAGTGTTA-CTCGATCAATTCTTTATTTTTTAAC
* * * *
11698636 TTGCGGTGTTATCCCGGTCAATTCTGTAAAATCTTCGAGCATGATTTCTAAGACCTTCGGGCATA
194 TTGCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGGGCATA
* * * * *
11698701 ATTTTGATTCGCGGTGTTATCCCAATCAATT-TTT-TATTTATGACTTGTGATGTTATCCCAGTC
259 ATTTTGATTCGCGGTGTTAT-CCGATCAATTCTTTATTTTTTTGACTTGCGGTGTTATCCCAGTC
* * *
11698764 GATTCT-TAAGACCTCCAGGCATAAATTCGATTCATGGTGTTATCTTGATCGATTCATTATTTTT
323 -ATTCTGTAAGACCTCCAGGCAT-AATTTGATTCAAGGTGTTATC-CGATCGATTCATTATTTTT
11698828 CGACTTGCGGTGT
385 -GACTTGCGGTGT
11698841 CATACCAATC
Statistics
Matches: 698, Mismatches: 121, Indels: 38
0.81 0.14 0.04
Matches are distributed among these distances:
432 104 0.15
433 142 0.20
434 25 0.04
435 20 0.03
436 9 0.01
437 52 0.07
438 31 0.04
439 8 0.01
440 90 0.13
441 8 0.01
442 209 0.30
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (435 bp):
TAAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTGACTTAC
GGTGTTATCTCGGTCAATTCTGTAAGACCTCCGAGCATGATTCTGTAAGACTTTCGGACATGATT
TCTAAGACTTCCAGGCATAATTTTGATTCGCAGTGTTACTCGATCAATTCTTTATTTTTTAACTT
GCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGGGCATAAT
TTTGATTCGCGGTGTTATCCGATCAATTCTTTATTTTTTTGACTTGCGGTGTTATCCCAGTCATT
CTGTAAGACCTCCAGGCATAATTTGATTCAAGGTGTTATCCGATCGATTCATTATTTTTGACTTG
CGGTGTTATCACAATCGATTCTATAAGACCTCTAAGCATGATTTC
Found at i:11698557 original size:110 final size:111
Alignment explanation
Indices: 11698327--11698562 Score: 320
Period size: 110 Copynumber: 2.1 Consensus size: 111
11698317 ATGCCAATCA
* * *
11698327 ATTCTGTAAGACCTCCGGGTATAATTTTGATTCACGGTGTTATCCCGATCAATTCTTTAGTTTTT
1 ATTCTGTAAGACCTTCGGGCATAATTTTAATTCACGGTGTTATCCCGATCAATTCTTTAGTTTTT
* *
11698392 AACTTGCGGTGTTATCACAGTCGATTCTATAAGACCTCCAGCAATG
66 AACTTACGGTGTTATCACAGTCAATTCTATAAGACCTCCAGCAATG
* *
11698438 ATT-TCTAAGACCTTCGGGCATAATTTTAATTCACGGTGTTATCCCGATCGATT-TTTCA-TTTT
1 ATTCTGTAAGACCTTCGGGCATAATTTTAATTCACGGTGTTATCCCGATCAATTCTTT-AGTTTT
* * *
11698500 TGACTTACGGTGTTATC-CCGATCAATTCTGTAAGACCTCCAAGC-ATG
65 TAACTTACGGTGTTATCACAG-TCAATTCTATAAGACCTCC-AGCAATG
11698547 ATTCTGTAAGACCTTC
1 ATTCTGTAAGACCTTC
11698563 CGACATGATT
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
108 2 0.02
109 45 0.41
110 60 0.55
111 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (111 bp):
ATTCTGTAAGACCTTCGGGCATAATTTTAATTCACGGTGTTATCCCGATCAATTCTTTAGTTTTT
AACTTACGGTGTTATCACAGTCAATTCTATAAGACCTCCAGCAATG
Found at i:11698651 original size:132 final size:133
Alignment explanation
Indices: 11698414--11698693 Score: 345
Period size: 132 Copynumber: 2.1 Consensus size: 133
11698404 TATCACAGTC
* *
11698414 GATTCTATAAGACC-TCCAGCAATGATTTCTAAGACCTTCGGGCATAATTTTAATTCACGGTGTT
1 GATTCTATAAGACCTTCCAGCAATGATTTCTAAGACCTTCGGGCATAATTTCAATTCACAGTGTT
* * * *
11698478 ATCCCGATCGATTTTTCATTTTTGACTTACGGTGTTATCCCGATCAATTCTGTAAGACCTCCAAG
66 ATCCCAATCGATTTCTCATTTTTAACTTACGGTGTTATCCCGATCAATTCTGTAAAACCTCCAAG
11698543 CAT
131 CAT
* * * *
11698546 GATTCTGTAAGACCTTCC-G-ACATGATTTCTAAGACTTTCGGGCATAATTTCGATTCGCAGTGT
1 GATTCTATAAGACCTTCCAGCA-ATGATTTCTAAGACCTTCGGGCATAATTTCAATTCACAGTGT
** * * * * *
11698609 TATCTTAATCGA-TTCTCTATTTTTAACTTGCGGTGTTATCCCGGTCAATTCTGTAAAATCTTCG
65 TATCCCAATCGATTTCTC-ATTTTTAACTTACGGTGTTATCCCGATCAATTCTGTAAAACCTCCA
11698673 AGCAT
129 AGCAT
*
11698678 GATT-TCTAAGACCTTC
1 GATTCTATAAGACCTTC
11698694 GGGCATAATT
Statistics
Matches: 127, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
131 16 0.13
132 108 0.85
133 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (133 bp):
GATTCTATAAGACCTTCCAGCAATGATTTCTAAGACCTTCGGGCATAATTTCAATTCACAGTGTT
ATCCCAATCGATTTCTCATTTTTAACTTACGGTGTTATCCCGATCAATTCTGTAAAACCTCCAAG
CAT
Found at i:11698691 original size:241 final size:241
Alignment explanation
Indices: 11698333--11698785 Score: 597
Period size: 241 Copynumber: 1.9 Consensus size: 241
11698323 ATCAATTCTG
* * * * *
11698333 TAAGACCTCCGGGTATAATTTTGATTCACGGTGTTATCCCGATCAATTCTTTAGTTTTTAACTTG
1 TAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCCAATCAATTCTCTAGTTTTTAACTTG
* *
11698398 CGGTGTTATCACAGTCGATTCTATAAGACCTCCAGCAATGATTTCTAAGACCTTCGGGCATAATT
66 CGGTGTTATCACAGTCAATTCTATAAAACCTCCAGCAATGATTTCTAAGACCTTCGGGCATAATT
* * * *
11698463 TTAATTCACGGTGTTATCCCGATCGATTTTTCATTTTTGACTTACGGTGTTATCCC-GATCAATT
131 TTAATTCACGGTGTTATCCCAATCAATTTTTCATTTATGACTTACGATGTTATCCCAG-TCAATT
11698527 CTGTAAGACCTCCAAGCATGATTCTGTAAGACCTTCCGACATGATTTC
195 CT-TAAGACCTCCAAGCATGATTCTGTAAGACCTTCCGACATGATTTC
* * * ** *
11698575 TAAGACTTTCGGGCATAATTTCGATTCGCAGTGTTATCTTAATCGATTCTCTA-TTTTTAACTTG
1 TAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCCAATCAATTCTCTAGTTTTTAACTTG
* * * * *
11698639 CGGTGTTATCCCGGTCAATTCTGTAAAATCTTCGAGC-ATGATTTCTAAGACCTTCGGGCATAAT
66 CGGTGTTATCACAGTCAATTCTATAAAA-CCTCCAGCAATGATTTCTAAGACCTTCGGGCATAAT
* * * ** *
11698703 TTTGATTCGCGGTGTTATCCCAATCAATTTTTTATTTATGACTTGTGATGTTATCCCAGTCGATT
130 TTTAATTCACGGTGTTATCCCAATCAATTTTTCATTTATGACTTACGATGTTATCCCAGTCAATT
*
11698768 CTTAAGACCTCCAGGCAT
195 CTTAAGACCTCCAAGCAT
11698786 AAATTCGATT
Statistics
Matches: 180, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
240 15 0.08
241 116 0.64
242 49 0.27
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (241 bp):
TAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCCAATCAATTCTCTAGTTTTTAACTTG
CGGTGTTATCACAGTCAATTCTATAAAACCTCCAGCAATGATTTCTAAGACCTTCGGGCATAATT
TTAATTCACGGTGTTATCCCAATCAATTTTTCATTTATGACTTACGATGTTATCCCAGTCAATTC
TTAAGACCTCCAAGCATGATTCTGTAAGACCTTCCGACATGATTTC
Found at i:11698739 original size:109 final size:109
Alignment explanation
Indices: 11698547--11698777 Score: 286
Period size: 109 Copynumber: 2.1 Consensus size: 109
11698537 TCCAAGCATG
* *
11698547 ATTCTGTAAGACCTTCCGACATGATTTCTAAGACTTTCGGGCATAATTTCGATTCGCAGTGTTAT
1 ATTCTGTAAAACCTTCCGACATGATTTCTAAGACCTTCGGGCATAATTTCGATTCGCAGTGTTAT
** * * * *
11698612 CTTAATCGATTCTCTATTTTTAACTTGCGGTGTTATCCCGGTCA
66 CCCAATCAATTCTCTATTTATAACTTGCGATGTTATCCCAGTCA
* * *
11698656 ATTCTGTAAAATCTT-CGAGCATGATTTCTAAGACCTTCGGGCATAATTTTGATTCGCGGTGTTA
1 ATTCTGTAAAACCTTCCGA-CATGATTTCTAAGACCTTCGGGCATAATTTCGATTCGCAGTGTTA
* * * * *
11698720 TCCCAATCAATTTTTTATTTATGACTTGTGATGTTATCCCAGTCG
65 TCCCAATCAATTCTCTATTTATAACTTGCGATGTTATCCCAGTCA
*
11698765 ATTCT-TAAGACCT
1 ATTCTGTAAAACCT
11698778 CCAGGCATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
108 9 0.09
109 94 0.91
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (109 bp):
ATTCTGTAAAACCTTCCGACATGATTTCTAAGACCTTCGGGCATAATTTCGATTCGCAGTGTTAT
CCCAATCAATTCTCTATTTATAACTTGCGATGTTATCCCAGTCA
Found at i:11699088 original size:19 final size:19
Alignment explanation
Indices: 11699056--11699094 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11699046 TAACAAAAAA
*
11699056 GAAAAGAAAGAGAAAATAG
1 GAAAAAAAAGAGAAAATAG
* *
11699075 GAAAAAAAATAGAAAGTAG
1 GAAAAAAAAGAGAAAATAG
11699094 G
1 G
11699095 GTGGCTGGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.08
Consensus pattern (19 bp):
GAAAAAAAAGAGAAAATAG
Found at i:11699406 original size:13 final size:12
Alignment explanation
Indices: 11699384--11699413 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
11699374 ACAAAAAAAT
11699384 AAAAATAAACAA
1 AAAAATAAACAA
11699396 AAAATATAAACAA
1 AAAA-ATAAACAA
11699409 AAAAA
1 AAAAA
11699414 AAAGACAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAATAAACAA
Found at i:11699416 original size:17 final size:17
Alignment explanation
Indices: 11699376--11699416 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11699366 GCCAGACCAC
*
11699376 AAAAAAATAAAAATAAA
1 AAAAAAATAAAAACAAA
* *
11699393 CAAAAAATATAAACAAA
1 AAAAAAATAAAAACAAA
11699410 AAAAAAA
1 AAAAAAA
11699417 GACAAACATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAATAAAAACAAA
Found at i:11700108 original size:18 final size:18
Alignment explanation
Indices: 11700065--11700115 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
11700055 AGTAAAAAAA
11700065 ATTATT-TTTTTTTA-AT
1 ATTATTATTTTTTTATAT
* * *
11700081 TTTCTAATTTTTTTATAT
1 ATTATTATTTTTTTATAT
11700099 ATTATTATTTTTGTTAT
1 ATTATTATTTTT-TTAT
11700116 TTTAAGTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 11 0.42
19 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTATTATTTTTTTATAT
Found at i:11700110 original size:19 final size:18
Alignment explanation
Indices: 11700065--11700115 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
11700055 AGTAAAAAAA
11700065 ATTATTTTTTTT-TAATT
1 ATTATTTTTTTTATAATT
* *
11700082 TTCTAATTTTTTTATATATT
1 AT-TATTTTTTTTATA-ATT
*
11700102 ATTATTTTTGTTAT
1 ATTATTTTTTTTAT
11700116 TTTAAGTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 9 0.35
19 12 0.46
20 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTATTTTTTTTATAATT
Found at i:11703314 original size:6 final size:6
Alignment explanation
Indices: 11703295--11703328 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
11703285 TATCTTTATT
11703295 AATATA ATATATA AATATA AATATA AAT-TA AATA
1 AATATA A-ATATA AATATA AATATA AATATA AATA
11703329 AATAACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AATATA
Found at i:11703345 original size:21 final size:21
Alignment explanation
Indices: 11703295--11703345 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
11703285 TATCTTTATT
* *
11703295 AATATAATATATAAATATAAA
1 AATATATTAAATAAATATAAA
* *
11703316 TATAAATTAAATAAATA-ACAA
1 AATATATTAAATAAATATA-AA
11703337 AATATATTA
1 AATATATTA
11703346 GGATATATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATATTAAATAAATATAAA
Found at i:11703679 original size:2 final size:2
Alignment explanation
Indices: 11703672--11703702 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11703662 TAAATAAATA
11703672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11703703 CCAAGGCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11705521 original size:24 final size:23
Alignment explanation
Indices: 11705482--11705540 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
11705472 ATTAACGTAT
*
11705482 TAAATAATATT-TTTAATAATATATA
1 TAAAT-ATATTATTAAATAA-ATA-A
11705507 TAAATATATTATTAAATAAATAA
1 TAAATATATTATTAAATAAATAA
11705530 TAAAATATATT
1 T-AAATATATT
11705541 TTTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 2 0.06
24 17 0.55
25 12 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATATATTATTAAATAAATAA
Found at i:11705555 original size:22 final size:21
Alignment explanation
Indices: 11705483--11705555 Score: 56
Period size: 24 Copynumber: 3.1 Consensus size: 21
11705473 TTAACGTATT
11705483 AAATAATATTTTTAATAATATATA
1 AAAT-ATATTTTT-AT-ATATATA
* *
11705507 TAAATATATTATTAAATAAATAATA
1 -AAATATATT-TT-TATATAT-ATA
11705532 AAATATATTTTTATATATACTA
1 AAATATATTTTTATATATA-TA
11705554 AA
1 AA
11705556 TTTATGGCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 1 0.03
22 9 0.22
23 2 0.05
24 17 0.43
25 11 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATATTTTTATATATATA
Found at i:11705907 original size:24 final size:23
Alignment explanation
Indices: 11705868--11705926 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
11705858 ATTAACGTAT
*
11705868 TAAATAATATT-TTTAATAATATATA
1 TAAAT-ATATTATTAAATAA-ATA-A
11705893 TAAATATATTATTAAATAAATAA
1 TAAATATATTATTAAATAAATAA
11705916 TAAAATATATT
1 T-AAATATATT
11705927 TTTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 2 0.06
24 17 0.55
25 12 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATATATTATTAAATAAATAA
Found at i:11705916 original size:386 final size:385
Alignment explanation
Indices: 11705181--11705954 Score: 1424
Period size: 386 Copynumber: 2.0 Consensus size: 385
11705171 AATTAAATCA
11705181 AATTAAAGACAATATATTTAATTTAAAAAAACACTTAAATGTTAAATTTTAAATTAAGCATTTAA
1 AATTAAAGACAATATATTTAATTTAAAAAAACACTTAAATGTTAAATTTTAAATTAAGCATTTAA
*
11705246 TTACAATTCATCGGAGCGAATCAAACTCCATGAGATACAAGTTATTTTGTCACCTTTATCTCACT
66 TTACAATTCATCGGAGCGAATCAAACTCCATGAGATACAAGTTATTTTGTCACCTTTATCTCACA
*
11705311 TTTTTATATCAAAATTTATTTAATAAAAAAATTTAAAAGTTAAGAAAAAAAACAAAAAAACAGCT
131 TTTTTATATCAAAATTTATTTAATAAAAAAATTTAAAAGTTAAAAAAAAAAACAAAAAAACAGCT
* *
11705376 TTATAAAACAAAGAAAATGAAAAAGAAGAGGGAAATGCCACGTGTATATTTAAGACGGAATAGAA
196 TTAAAAAACAAAGAAAATGAAAAAGAAGAGGGAAATGCCACGTGTATATCTAAGACGGAATAGAA
11705441 TACCTTAAATCCATCTTCATTAATTTATTAAATTAACGTATTAAATAATATTTTTAATAATATAT
261 TACCTTAAATCCATCTTCATTAATTTATTAAATTAACGTATTAAATAATATTTTTAATAATATAT
11705506 ATAAATATATTATTAAATAAATAATAAAATATATTTTTATATATACTAAATTTATGGCGT
326 ATAAATATATTATTAAATAAATAATAAAATATATTTTTATATATACTAAATTTATGGCGT
* *
11705566 AATTAAAGATAATATATTTAATTTAAAAAAACACTTAAATGTTAAATTTTAAATTAAGTATTTAA
1 AATTAAAGACAATATATTTAATTTAAAAAAACACTTAAATGTTAAATTTTAAATTAAGCATTTAA
* * *
11705631 TTACAATTCTTTGGAGCGAATCAAACTCCATGAGATATAAGTTATTTTGTCACCTTTATCTCACA
66 TTACAATTCATCGGAGCGAATCAAACTCCATGAGATACAAGTTATTTTGTCACCTTTATCTCACA
*
11705696 TTTTTATATCATAATTTATTTAATAAAAAAA-TTAAAAGTTAAAAAAAAAAAACAAAAAAAACAG
131 TTTTTATATCAAAATTTATTTAATAAAAAAATTTAAAAGTT-AAAAAAAAAAAC-AAAAAAACAG
*
11705760 CTTTAAAAAACAAAGAAAATGAAAAAGAAGAGGGAAGTGCCACGTGTATATCTAAGACGGAATAG
194 CTTTAAAAAACAAAGAAAATGAAAAAGAAGAGGGAAATGCCACGTGTATATCTAAGACGGAATAG
11705825 AATACCTTAAATCCATCTTCATTAATTTATTAAATTAACGTATTAAATAATATTTTTAATAATAT
259 AATACCTTAAATCCATCTTCATTAATTTATTAAATTAACGTATTAAATAATATTTTTAATAATAT
11705890 ATATAAATATATTATTAAATAAATAATAAAATATATTTTTATATATACTAAATTTATGGCGT
324 ATATAAATATATTATTAAATAAATAATAAAATATATTTTTATATATACTAAATTTATGGCGT
11705952 AAT
1 AAT
11705955 ACCAAAAACT
Statistics
Matches: 376, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
384 9 0.02
385 165 0.44
386 202 0.54
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (385 bp):
AATTAAAGACAATATATTTAATTTAAAAAAACACTTAAATGTTAAATTTTAAATTAAGCATTTAA
TTACAATTCATCGGAGCGAATCAAACTCCATGAGATACAAGTTATTTTGTCACCTTTATCTCACA
TTTTTATATCAAAATTTATTTAATAAAAAAATTTAAAAGTTAAAAAAAAAAACAAAAAAACAGCT
TTAAAAAACAAAGAAAATGAAAAAGAAGAGGGAAATGCCACGTGTATATCTAAGACGGAATAGAA
TACCTTAAATCCATCTTCATTAATTTATTAAATTAACGTATTAAATAATATTTTTAATAATATAT
ATAAATATATTATTAAATAAATAATAAAATATATTTTTATATATACTAAATTTATGGCGT
Found at i:11705941 original size:22 final size:21
Alignment explanation
Indices: 11705869--11705941 Score: 56
Period size: 24 Copynumber: 3.1 Consensus size: 21
11705859 TTAACGTATT
11705869 AAATAATATTTTTAATAATATATA
1 AAAT-ATATTTTT-AT-ATATATA
* *
11705893 TAAATATATTATTAAATAAATAATA
1 -AAATATATT-TT-TATATAT-ATA
11705918 AAATATATTTTTATATATACTA
1 AAATATATTTTTATATATA-TA
11705940 AA
1 AA
11705942 TTTATGGCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 1 0.03
22 9 0.22
23 2 0.05
24 17 0.43
25 11 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATATTTTTATATATATA
Found at i:11706186 original size:10 final size:10
Alignment explanation
Indices: 11706173--11706198 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11706163 ACAAAAACTT
11706173 AAAAAAATAA
1 AAAAAAATAA
11706183 AAAAAAATAA
1 AAAAAAATAA
11706193 AAAAAA
1 AAAAAA
11706199 TATCACGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:11706421 original size:14 final size:16
Alignment explanation
Indices: 11706387--11706420 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11706377 TTTTTTTTAT
*
11706387 AAAATTTATATAATAA
1 AAAATTAATATAATAA
11706403 AAAATTAAT-TAATAA
1 AAAATTAATATAATAA
11706418 AAA
1 AAA
11706421 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTAATATAATAA
Found at i:11706783 original size:2 final size:2
Alignment explanation
Indices: 11706778--11706811 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11706768 ACTGTGTGTG
11706778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11706812 ACAATTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11707961 original size:27 final size:27
Alignment explanation
Indices: 11707931--11708018 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
11707921 AAGATACTAT
11707931 ATTTGGAATGAAGTTTTATTGTATATA
1 ATTTGGAATGAAGTTTTATTGTATATA
* *
11707958 ATTT-GCATCAAAGTTGATTTATTG-ATATA
1 ATTTGGAAT-GAAG-T--TTTATTGTATATA
* *
11707987 ATTTAGAATGAAGTCTTATT-TGATATA
1 ATTTGGAATGAAGTTTTATTGT-ATATA
11708014 ATTTG
1 ATTTG
11708019 CATCTAAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
26 8 0.17
27 16 0.33
28 2 0.04
29 12 0.25
30 10 0.21
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (27 bp):
ATTTGGAATGAAGTTTTATTGTATATA
Found at i:11708027 original size:27 final size:26
Alignment explanation
Indices: 11707945--11708039 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 26
11707935 GGAATGAAGT
11707945 TTTA-TTGTATATAATTTGCATCAAAG
1 TTTATTTG-ATATAATTTGCATCAAAG
* * *
11707971 TTGATTTATTGATATAATTTAGAAT-GAAG
1 TT--TAT-TTGATATAATTT-GCATCAAAG
*
11708000 TCTTATTTGATATAATTTGCATCTAAG
1 T-TTATTTGATATAATTTGCATCAAAG
11708027 TTTTATTTGATAT
1 -TTTATTTGATAT
11708040 GTTTGTCTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
26 5 0.09
27 26 0.47
28 4 0.07
29 13 0.24
30 7 0.13
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (26 bp):
TTTATTTGATATAATTTGCATCAAAG
Found at i:11709032 original size:27 final size:27
Alignment explanation
Indices: 11708994--11709047 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
11708984 GGATTCCTTT
* *
11708994 ATTACTAACAAGAGTTAACATGGTTTG
1 ATTACTAACAAGAGTGAACAAGGTTTG
11709021 ATTACTAACAAGAGTGAACAAGGTTTG
1 ATTACTAACAAGAGTGAACAAGGTTTG
11709048 GGGTAGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (27 bp):
ATTACTAACAAGAGTGAACAAGGTTTG
Found at i:11716324 original size:41 final size:41
Alignment explanation
Indices: 11716267--11716348 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
11716257 AGAACTGAAC
11716267 CTAGAATCATATGTCAGCACATCAGGTTTATATTTAACATT
1 CTAGAATCATATGTCAGCACATCAGGTTTATATTTAACATT
* *
11716308 CTAGAATCATATGTCAGCATATCATGTTTATATTTAACATT
1 CTAGAATCATATGTCAGCACATCAGGTTTATATTTAACATT
11716349 TTTAGATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (41 bp):
CTAGAATCATATGTCAGCACATCAGGTTTATATTTAACATT
Done.