Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007740.1 Hibiscus syriacus cultivar Beakdansim tig00110001_pilon, 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: 287134
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:4302 original size:19 final size:20
Alignment explanation
Indices: 4258--4304 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4248 ACTCAAGAAT
* *
4258 TTACAAATTACCTGAAGGCT
1 TTACAAATTACCCGAAGGCA
*
4278 TTACAAATTACCCGGAGG-A
1 TTACAAATTACCCGAAGGCA
4297 TTACAAAT
1 TTACAAAT
4305 GATCCAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (20 bp):
TTACAAATTACCCGAAGGCA
Found at i:11300 original size:1 final size:1
Alignment explanation
Indices: 11294--11318 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11284 GCAACCATCG
11294 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
11319 TAGAACGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:20529 original size:8 final size:8
Alignment explanation
Indices: 20516--20543 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20506 AAATTCTCCC
20516 ATATGTAT
1 ATATGTAT
20524 ATATGTAT
1 ATATGTAT
20532 ATATGTAT
1 ATATGTAT
20540 ATAT
1 ATAT
20544 CTTCTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:24098 original size:9 final size:9
Alignment explanation
Indices: 24055--24109 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
24045 AAAATGAGTG
24055 AAAATGAAA
1 AAAATGAAA
24064 AAAAT--AA
1 AAAATGAAA
*
24071 AAAATAAAA
1 AAAATGAAA
24080 AATAAT-AAA
1 AA-AATGAAA
24089 AAAATG-AA
1 AAAATGAAA
24097 AAAATGGAAA
1 AAAAT-GAAA
24107 AAA
1 AAA
24110 GGAAGGGTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.17
8 10 0.25
9 15 0.38
10 8 0.20
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (9 bp):
AAAATGAAA
Found at i:24098 original size:17 final size:16
Alignment explanation
Indices: 24055--24100 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
24045 AAAATGAGTG
24055 AAAATGAAAAAAATAA
1 AAAATGAAAAAAATAA
*
24071 AAAATAAAAAATAATAAA
1 AAAATGAAAAA-AAT-AA
24089 AAAATGAAAAAA
1 AAAATGAAAAAA
24101 TGGAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.38
17 4 0.15
18 12 0.46
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAATGAAAAAAATAA
Found at i:25649 original size:55 final size:55
Alignment explanation
Indices: 25111--25648 Score: 817
Period size: 55 Copynumber: 9.8 Consensus size: 55
25101 CCAACGATAA
* *
25111 TTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
25166 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
*
25221 TTGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* *
25276 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * *
25331 ATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
*
25386 TTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
25441 ATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGGTTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
25496 ATGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGAGTTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTG
* * * * *
25552 TTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAACAAACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
25607 ATGAAGATTGTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGA
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGA
25649 ATGAACTCGT
Statistics
Matches: 442, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
54 1 0.00
55 392 0.89
56 49 0.11
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
Found at i:31227 original size:14 final size:14
Alignment explanation
Indices: 31208--31235 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31198 CAAAATTAAA
31208 ATAAATCAAAACTT
1 ATAAATCAAAACTT
31222 ATAAATCAAAACTT
1 ATAAATCAAAACTT
31236 GAAAGTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATCAAAACTT
Found at i:32066 original size:18 final size:19
Alignment explanation
Indices: 32043--32078 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32033 ATATTCTTGA
32043 TCAATATA-TTTTTAATAC
1 TCAATATATTTTTTAATAC
32061 TCAATATATTTTTTAATA
1 TCAATATATTTTTTAATA
32079 ATTTAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (19 bp):
TCAATATATTTTTTAATAC
Found at i:33320 original size:12 final size:12
Alignment explanation
Indices: 33303--33330 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33293 CTTCTGTGAT
33303 CCAACCCGTCCA
1 CCAACCCGTCCA
33315 CCAACCCGTCCA
1 CCAACCCGTCCA
33327 CCAA
1 CCAA
33331 AGGATCCGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.57, G:0.07, T:0.07
Consensus pattern (12 bp):
CCAACCCGTCCA
Found at i:34126 original size:31 final size:32
Alignment explanation
Indices: 34090--34162 Score: 130
Period size: 31 Copynumber: 2.3 Consensus size: 32
34080 ACACTTTGCA
34090 TTTTCTCTCATTTTTCTTCTCTTTGGTTG-AT
1 TTTTCTCTCATTTTTCTTCTCTTTGGTTGAAT
34121 TTTTCTCTCATTTTTCTTCTCTTTGGTTGAAT
1 TTTTCTCTCATTTTTCTTCTCTTTGGTTGAAT
*
34153 TTCTCTCTCA
1 TTTTCTCTCA
34163 GTTCTCTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 29 0.73
32 11 0.28
ACGTcount: A:0.08, C:0.22, G:0.08, T:0.62
Consensus pattern (32 bp):
TTTTCTCTCATTTTTCTTCTCTTTGGTTGAAT
Found at i:35298 original size:30 final size:30
Alignment explanation
Indices: 35259--35389 Score: 140
Period size: 30 Copynumber: 4.4 Consensus size: 30
35249 ATGATTTATG
* * *
35259 GGACAAAAATAACCATAATAGAAATTTAAA
1 GGACTAAAATAACAAAAATAGAAATTTAAA
* *
35289 GGACTAAAATAGCAAAAATAG-AATCTTAAG
1 GGACTAAAATAACAAAAATAGAAAT-TTAAA
*
35319 GGACTAAAATAATAAAAATAGAAATTTAAA
1 GGACTAAAATAACAAAAATAGAAATTTAAA
* * *
35349 GGACTAAAATAGA-AAAAATATAAACTTAAG
1 GGACTAAAATA-ACAAAAATAGAAATTTAAA
*
35379 GGATTAAAATA
1 GGACTAAAATA
35390 GTAAAAACAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
29 3 0.03
30 79 0.92
31 4 0.05
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (30 bp):
GGACTAAAATAACAAAAATAGAAATTTAAA
Found at i:35328 original size:60 final size:60
Alignment explanation
Indices: 35258--35389 Score: 192
Period size: 60 Copynumber: 2.2 Consensus size: 60
35248 AATGATTTAT
* * * * *
35258 GGGACAAAAATAACCATAATAGAAATTTAAAGGACTAAAATAGCAAAAATAGAATCTTAA
1 GGGACTAAAATAACAAAAATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
* *
35318 GGGACTAAAATAATAAAAATAGAAATTTAAAGGACTAAAATAGAAAAAATATAAACTTAA
1 GGGACTAAAATAACAAAAATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
*
35378 GGGATTAAAATA
1 GGGACTAAAATA
35390 GTAAAAACAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.21
Consensus pattern (60 bp):
GGGACTAAAATAACAAAAATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
Found at i:35390 original size:30 final size:30
Alignment explanation
Indices: 35275--35396 Score: 147
Period size: 30 Copynumber: 4.1 Consensus size: 30
35265 AAATAACCAT
* *
35275 AATAGAAATTTAAAGGACTAAAATAGCAAA
1 AATAGAAACTTAAAGGACTAAAATAGAAAA
* *
35305 AATAGAATCTTAAGGGACTAAAATA-ATAAA
1 AATAGAAACTTAAAGGACTAAAATAGA-AAA
*
35335 AATAGAAATTTAAAGGACTAAAATAGAAAA
1 AATAGAAACTTAAAGGACTAAAATAGAAAA
* * * *
35365 AATATAAACTTAAGGGATTAAAATAGTAAA
1 AATAGAAACTTAAAGGACTAAAATAGAAAA
35395 AA
1 AA
35397 CAAAAATTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
30 77 0.99
31 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.13, T:0.22
Consensus pattern (30 bp):
AATAGAAACTTAAAGGACTAAAATAGAAAA
Found at i:35395 original size:60 final size:60
Alignment explanation
Indices: 35275--35405 Score: 199
Period size: 60 Copynumber: 2.2 Consensus size: 60
35265 AAATAACCAT
* *
35275 AATAGAAATTTAAAGGACTAAAATAGCAAAAATAGAATCTTAAGGGACTAAAATAATAAA
1 AATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAAGGGACTAAAATAATAAA
* * *
35335 AATAGAAATTTAAAGGACTAAAATAGAAAAAATATAAACTTAAGGGATTAAAATAGTAAA
1 AATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAAGGGACTAAAATAATAAA
* *
35395 AACAAAAATTT
1 AATAGAAATTT
35406 TTGGGACTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (60 bp):
AATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAAGGGACTAAAATAATAAA
Found at i:37236 original size:65 final size:67
Alignment explanation
Indices: 37087--37339 Score: 283
Period size: 66 Copynumber: 3.9 Consensus size: 67
37077 AAGGGTGATG
** * *
37087 GTTTCAAGAGAAACTT-T-TC-A-AGAGACAAAACATGTTTCAATGGAAACAGAT-TCAAAGATT
1 GTTTCAAGAGAAA-TTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGATCTCAAAGATT
37147 TGGT
65 T-GT
* * *
37151 GTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAA-TGATCTCAGAGATTT
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGATCTCAAAGATTT
37214 GT
66 GT
* * * *
37216 GTTTCAAGAGAAATTATCTCAAGGGAGACAAAATTCGTTTCAAGTGAAAC-GATCTCAAAGA-TT
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGATCTCAAAGATTT
*
37279 AT
66 GT
* *
37281 GTTTCAAGAGAAGTTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACT-ATCTCAA
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGATCTCAA
37340 GAGAGACAAA
Statistics
Matches: 161, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 13 0.08
65 66 0.41
66 75 0.47
67 6 0.04
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (67 bp):
GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGATCTCAAAGATTT
GT
Found at i:37321 original size:132 final size:130
Alignment explanation
Indices: 37087--37343 Score: 314
Period size: 132 Copynumber: 2.0 Consensus size: 130
37077 AAGGGTGATG
*
37087 GTTTCAAGAGAAACTTTTCAAGAGACAAAACATGTTTCAATGGAAACAGATTCAAAGATTTGGTG
1 GTTTCAAGAGAAACTTTTCAAGAGACAAAACATGTTTCAATGGAAACAGATTCAAAGATTTGATG
*
37152 TTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAA-TGATCTC-AGAGATTTG
66 TTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACT-ATCTCAAGAGATTTG
37215 T
130 T
*
37216 GTTTCAAGAGAAA-TTATCTCAAGGGAGACAAAA-TTCGTTTCAA-GTGAAAC-GATCTCAAAGA
1 GTTTCAAGAGAAACTT-T-TCAA--GAGACAAAACAT-GTTTCAATG-GAAACAGAT-TCAAAGA
** *
37277 -TT-ATGTTTCAAGAGAAGTTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAA
59 TTTGATGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA-TTTGTTTCAAGGGAAACTATCTCAA
37340 GAGA
122 GAGA
37344 GACAAAATTC
Statistics
Matches: 111, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
128 2 0.02
129 14 0.13
130 30 0.27
131 10 0.09
132 49 0.44
133 6 0.05
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (130 bp):
GTTTCAAGAGAAACTTTTCAAGAGACAAAACATGTTTCAATGGAAACAGATTCAAAGATTTGATG
TTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTATCTCAAGAGATTTGT
Found at i:37346 original size:102 final size:102
Alignment explanation
Indices: 37215--37434 Score: 329
Period size: 102 Copynumber: 2.1 Consensus size: 102
37205 CAGAGATTTG
* * *
37215 TGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATTCGTTTCAAGTG-AAAC-GATCTCAAAG-A
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAG-GAAAACAGA-CTCAAAGAA
* *
37277 TTATGTTTCAAGAGAAGTTGTCTCAAGGGAGACAAAACTT
64 TT-TATTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTT
37317 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACAGACTCAAAGACAT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACAGACTCAAAGA-AT
*
37382 TTATTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
65 TTATTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTT
37420 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
37435 AGATTCAAAG
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
101 1 0.01
102 53 0.49
103 51 0.47
104 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACAGACTCAAAGAATT
TATTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTT
Found at i:37427 original size:103 final size:102
Alignment explanation
Indices: 37210--37434 Score: 330
Period size: 103 Copynumber: 2.2 Consensus size: 102
37200 GATCTCAGAG
* * *
37210 ATTTGTGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATTCGTTTCAAGTGAAACGATCTCAAA
1 ATTT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGTGAAACGATCTCAAA
* *
37275 GATTATGTTTCAAGAGAAGTTGTCTCAAGGGAGACAAA
65 GATTATATTTCAAGAGAAATTGTCTCAAGGGAGACAAA
*
37313 ACTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAG-GAAAACAGA-CTCAA
1 ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGTG-AAAC-GATCTCAA
37376 AGACATT-TATTTCAAGAGAAATTGTCTCAAGGGAGACAAA
64 AG--ATTATATTTCAAGAGAAATTGTCTCAAGGGAGACAAA
37416 ATTTTGTTTCAAGGGAAAC
1 ATTTTGTTTCAAGGGAAAC
37435 AGATTCAAAG
Statistics
Matches: 111, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
101 1 0.01
102 53 0.48
103 54 0.49
104 3 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (102 bp):
ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGTGAAACGATCTCAAAG
ATTATATTTCAAGAGAAATTGTCTCAAGGGAGACAAA
Found at i:37456 original size:67 final size:66
Alignment explanation
Indices: 37317--37699 Score: 445
Period size: 66 Copynumber: 5.8 Consensus size: 66
37307 GACAAAACTT
* * * *
37317 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACAGACTCAAAGACAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGATTCAAAGAC-T
*
37382 -T
65 GA
* * * *
37383 TATTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACAGATTCAAAGACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTCGTTTCAAGGGAAACAGATTCAAAGACT
*
37448 GG
65 GA
*
37450 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACA-ATCTCAAAGA-
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTCGTTTCAAGGGAAACAGAT-TCAAAGAC
*
37513 TAA
64 TGA
** *
37516 TGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAATTTTTTTTCAAGTGAAACAGATTCAAAGAC
1 TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAA-TTCGTTTCAAGGGAAACAGATTCAAAGAC
*
37580 TGG
64 TGA
* * *
37583 TGTTTCAAGGGAAACTGTCTCAAGAGTGACAAAATTCATTTCAAGGGAAAC-GATCTCAAAGA-T
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGAT-TCAAAGACT
*
37646 TA
65 GA
* * *
37648 TGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTCGTTTCAAGGGAAAC
37700 TGTCTCAAGA
Statistics
Matches: 271, Mismatches: 35, Indels: 22
0.83 0.11 0.07
Matches are distributed among these distances:
65 39 0.14
66 118 0.44
67 109 0.40
68 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGATTCAAAGACTG
A
Found at i:37463 original size:133 final size:133
Alignment explanation
Indices: 37317--37699 Score: 587
Period size: 133 Copynumber: 2.9 Consensus size: 133
37307 GACAAAACTT
* *
37317 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACAGA-CTCAAAGACA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGATCTCAAAGA-A
* *
37381 TTTATTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACAGATTCAAAGA
65 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACAGATTCAAAGA
37446 CTGG
130 CTGG
37450 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACA-ATCTCAAAG-A
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTCGTTTCAAGGGAAACAGATCTCAAAGAA
* * * *
37513 TAATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTTTTTTCAAGTGAAACAGATTCAAAG
65 T-TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACAGATTCAAAG
37578 ACTGG
129 ACTGG
* *
37583 TGTTTCAAGGGAAACTGTCTCAAGAGTGACAAAATTCATTTCAAGGGAAAC-GATCTCAAAG-AT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGATCTCAAAGAAT
* *
37646 TATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGTTTCAAGGGAAAC
66 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAC
37700 TGTCTCAAGA
Statistics
Matches: 229, Mismatches: 16, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
132 80 0.35
133 121 0.53
134 28 0.12
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (133 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGATCTCAAAGAAT
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACAGATTCAAAGAC
TGG
Found at i:37704 original size:102 final size:102
Alignment explanation
Indices: 37583--37800 Score: 375
Period size: 102 Copynumber: 2.1 Consensus size: 102
37573 CAAAGACTGG
*
37583 TGTTTCAAGGGAAACTGTCTCAAGAGTGACAAAATTCATTTCAAGGGAAACGATCTCAAAGA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATTT
37647 ATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTT
66 ATGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAACTT
*
37685 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATTT
* *
37750 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACTT
66 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAACTT
*
37787 TGTTTTAAGGGAAA
1 TGTTTCAAGGGAAA
37801 TATATTCAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 79 0.72
103 31 0.28
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATTT
ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAACTT
Found at i:37763 original size:235 final size:234
Alignment explanation
Indices: 37450--37941 Score: 711
Period size: 235 Copynumber: 2.1 Consensus size: 234
37440 CAAAGACTGG
37450 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACAATCTCAAAGATA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACAATCTCAAAGATA
* *
37515 ATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTTTTTTCAAGTGAAACAGATTCAAAGA-
66 ATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTT-AAGGGAAACAGATTCAAAGAT
* * *
37579 CTGGTGTTTCAAGGGAAACTGTCTCAAGAGTGACAAAATTCATTTCAAGGGAAACGATCTCAAAG
130 CTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAATCTCAAAG
* * *
37644 A-TTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTT
195 ATTTATATTTCAAAAGAAACTGTCTCAAGAGAGATAAAA--T
*
37685 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTCGTTTCAAGGGAAACGATCTCAAAGATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACAATCTCAAAGA-T
** * * * *
37749 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACTTTGTTTTAAGGGAAATATATTCAAAGAT
65 AATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTTAAGGGAAACAGATTCAAAGAT
* * * ** *
37814 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTTAAAG
130 CTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAATCTCAAAG
*
37879 ATTTTTATTTCAAAAGAAACTGTCTCAAGAGAGATAAAAT
195 ATTTATATTTCAAAAGAAACTGTCTCAAGAGAGATAAAAT
* *
37919 TGTTTTAAGGGAAACAGTCTCAA
1 TGTTTCAAGGGAAACTGTCTCAA
37942 AGATTTTTTT
Statistics
Matches: 230, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
234 70 0.30
235 127 0.55
236 33 0.14
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (234 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACAATCTCAAAGATA
ATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTTAAGGGAAACAGATTCAAAGATC
TGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAATCTCAAAGA
TTTATATTTCAAAAGAAACTGTCTCAAGAGAGATAAAAT
Found at i:37823 original size:368 final size:367
Alignment explanation
Indices: 37087--37983 Score: 1194
Period size: 368 Copynumber: 2.5 Consensus size: 367
37077 AAGGGTGATG
* *
37087 GTTTCAAGAGAAACT-TTTC-A-AGAGACAAAACA-TGTTTCAATGGAAACAGAT-TCAAAGATT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-ATTGTTTCAAGGGAAACA-ATCTCAAAGA-T
** * * * *
37147 TGGTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAA-TGATCTCAGAG
63 TAATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTTTTCAAGGGAAACAGATCTCAAAG
* * * *
37210 ATTTGTGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATTCGTTTCAAGTGAAACGATCTCAAA
128 A-TTGTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAA
**
37275 GATTATGTTTCAAGAGAAGTTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAA
192 GATTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAA
*
37340 GAGAGACAAAATTCGTTTCAAGGAAAACAGACTCAAAGACATTTATTTCAAGAGAAATTGTCTCA
257 GAGAGACAAAATTCGTTTCAAGGAAAACAGACTCAAAGACATTTATTTCAAGAGAAACTGTCTCA
*
37405 AGGGAGACAAAATTTTGTTTCAAGGGAAACAGATTCAAAGACTGGT
322 AGGGAGACAAAACTTTGTTTCAAGGGAAACAGATTCAAAGACTGGT
*
37451 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTCGTTTCAAGGGAAACAATCTCAAAGA-TA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT-GTTTCAAGGGAAACAATCTCAAAGATTA
*
37515 ATGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAATTTTTTTTCAAGTGAAACAGAT-TCAAAG
65 ATGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAA-TTTTTTTCAAGGGAAACAGATCTCAAAG
* * * *
37578 ACTGGTGTTTCAAGGGAAACTGTCTCAAGAGTGACAAAATTCATTTCAAGGGAAACGATCTCAAA
128 A-TTGTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAA
* *
37643 GATTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGTTTCAAGGGAAACTGTCTCAA
192 GATTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAA
* * *
37708 GAGAGACAAAATTCGTTTCAAGGGAAAC-GATCTCAAAGA-TTTGTGTTTCAAGAGAAACTGTCT
257 GAGAGACAAAATTCGTTTCAAGGAAAACAGA-CTCAAAGACATT-TATTTCAAGAGAAACTGTCT
* * * * *
37771 CAAGGGAGAC-AAACTTTGTTTTAAGGGAAATATATTCAAAGATTTTGT
320 CAAGGGAGACAAAACTTTGTTTCAAGGGAAACAGATTCAAAGA-CTGGT
* * * **
37819 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTTAAAGATTTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGGGAAACAATCTCAAAGATTAA
* * * *
37884 TATTTCAAAAGAAACTGTCTCAAGAGAGATAAAATTGTTTT-AAGGGAAACAG-TCTCAAAGATT
66 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTTTTCAAGGGAAACAGATCTCAAAGATT
* * *
37947 TTTTTTCAAGAAAAATTGTCTCAAGAGAGACAAAATT
131 GTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATT
37984 TGTTTTGAGT
Statistics
Matches: 466, Mismatches: 51, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
364 14 0.03
365 37 0.08
366 47 0.10
367 78 0.17
368 286 0.61
369 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (367 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGGGAAACAATCTCAAAGATTAA
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTTTTCAAGGGAAACAGATCTCAAAGATT
GTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATT
ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAGAGA
GACAAAATTCGTTTCAAGGAAAACAGACTCAAAGACATTTATTTCAAGAGAAACTGTCTCAAGGG
AGACAAAACTTTGTTTCAAGGGAAACAGATTCAAAGACTGGT
Found at i:37838 original size:133 final size:131
Alignment explanation
Indices: 37683--37988 Score: 436
Period size: 133 Copynumber: 2.3 Consensus size: 131
37673 GAGATAAAAC
* * *
37683 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT
* * * * * *
37748 TTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACTTTGTTTTAAGGGAAATA-TATTCAAAG
66 TTGTATTTCAAAAGAAACTGTCTCAAGAGAGACAAA-ATTGTTTTAAGGGAAACAGT-CTCAAAG
37812 ATT
129 ATT
* *
37815 TTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTTAAAGA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGA
* *
37880 TTTTTATTTCAAAAGAAACTGTCTCAAGAGAGATAAAATTGTTTTAAGGGAAACAGTCTCAAAGA
65 TTTGTATTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTGTTTTAAGGGAAACAGTCTCAAAGA
37945 TT
130 TT
* *
37947 TTT-TTTCAAGAAAAATTGTCTCAAGAGAGACAAAATTTGTTT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
37989 TGAGTAAAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
130 36 0.23
131 1 0.01
132 29 0.19
133 90 0.58
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (131 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT
TTGTATTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTGTTTTAAGGGAAACAGTCTCAAAGAT
T
Found at i:37840 original size:67 final size:65
Alignment explanation
Indices: 37683--37989 Score: 411
Period size: 66 Copynumber: 4.7 Consensus size: 65
37673 GAGATAAAAC
* * *
37683 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAAC-ATCTCAAAGAT
37748 T
65 T
* * * * *
37749 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACTTTGTTTTAAGGGAAATATATTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAACAT-CTCAAAGAT
37814 T
65 T
* * *
37815 TTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTTAAAGA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAAC-ATCTCAAAGA
37880 TT
64 TT
* * *
37882 TTTATTTCAAAAGAAACTGTCTCAAGAGAGATAAAA-TTGTTTTAAGGGAAACAGTCTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAACA-TCTCAAAGAT
37946 T
65 T
* *
37947 TTT-TTTCAAGAAAAATTGTCTCAAGAGAGACAAAATTTGTTTT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTT
37990 GAGTAAAAAT
Statistics
Matches: 212, Mismatches: 24, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
64 29 0.14
65 37 0.17
66 86 0.41
67 58 0.27
68 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (65 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAACATCTCAAAGATT
Found at i:38072 original size:36 final size:36
Alignment explanation
Indices: 38039--38137 Score: 94
Period size: 36 Copynumber: 2.8 Consensus size: 36
38029 AGAGAAAATA
* *
38039 ATCTCAAGTGAGATTAATTTTGTTTTAAGGAAAATT
1 ATCTCAAGTGAGATAAATTTTGTTTTAAGGAAAACT
* * *
38075 GA-CTCAAGCGAGACAAAATTTGTTCTT-AGGAAAACT
1 -ATCTCAAGTGAGATAAATTTTGTT-TTAAGGAAAACT
* * *
38111 ATCTCATGTGAGATCAATTTTATTTTA
1 ATCTCAAGTGAGATAAATTTTGTTTTA
38138 CAAATTTCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
35 3 0.06
36 42 0.88
37 3 0.06
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (36 bp):
ATCTCAAGTGAGATAAATTTTGTTTTAAGGAAAACT
Found at i:42538 original size:30 final size:30
Alignment explanation
Indices: 42500--42626 Score: 158
Period size: 30 Copynumber: 4.4 Consensus size: 30
42490 AACAAAAATT
*
42500 TTAA-GGACTAAAATAGCAAAAATATAAAC
1 TTAAGGGACTAAAATAGCAAAAATAGAAAC
* *
42529 TTAAGGGACTAAAATAACAAAAATAGAAAT
1 TTAAGGGACTAAAATAGCAAAAATAGAAAC
* *
42559 TTAAAGGACTAAAATAGAAAAAATAGAAAC
1 TTAAGGGACTAAAATAGCAAAAATAGAAAC
*
42589 TTAAGGGATTAAAATAG--AAAA-A-AAA-
1 TTAAGGGACTAAAATAGCAAAAATAGAAAC
42614 TTAAGGGACTAAA
1 TTAAGGGACTAAA
42627 CATAAATAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.14
26 3 0.03
27 1 0.01
28 4 0.05
29 4 0.05
30 63 0.72
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (30 bp):
TTAAGGGACTAAAATAGCAAAAATAGAAAC
Found at i:42544 original size:60 final size:60
Alignment explanation
Indices: 42473--42604 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
42463 AATGATTTAT
* * * * * *
42473 GGGACCAAAATAACCATAACAAAAATTTTAAGGACTAAAATAGCAAAAATATAAACTTAA
1 GGGACTAAAATAACAAAAACAAAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
* *
42533 GGGACTAAAATAACAAAAATAGAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
1 GGGACTAAAATAACAAAAACAAAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
*
42593 GGGATTAAAATA
1 GGGACTAAAATA
42605 GAAAAAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.58, C:0.09, G:0.13, T:0.20
Consensus pattern (60 bp):
GGGACTAAAATAACAAAAACAAAAATTTAAAGGACTAAAATAGAAAAAATAGAAACTTAA
Found at i:42617 original size:25 final size:26
Alignment explanation
Indices: 42579--42639 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
42569 AAAATAGAAA
* * *
42579 AAATAGAAACTTAAGGGATTAAA-AT
1 AAATAAAAAATTAAGGGACTAAACAT
42604 AGAA-AAAAAATTAAGGGACTAAACAT
1 A-AATAAAAAATTAAGGGACTAAACAT
42630 AAATAAAAAA
1 AAATAAAAAA
42640 CCCAGAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.64, C:0.05, G:0.13, T:0.18
Consensus pattern (26 bp):
AAATAAAAAATTAAGGGACTAAACAT
Found at i:42790 original size:24 final size:23
Alignment explanation
Indices: 42745--42790 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
42735 ATATAAAGGT
* *
42745 CCAAACAATAATTAAATCAAATG
1 CCAAACAATAATAAAATAAAATG
*
42768 CCAAACAATGACTAAAATAAAAT
1 CCAAACAAT-AATAAAATAAAAT
42791 ATTTACAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.59, C:0.17, G:0.04, T:0.20
Consensus pattern (23 bp):
CCAAACAATAATAAAATAAAATG
Found at i:55209 original size:24 final size:24
Alignment explanation
Indices: 55182--55247 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
55172 AAATTCAAAA
55182 CAGATATCAGAACAGAATCCAGAT
1 CAGATATCAGAACAGAATCCAGAT
* * * ** *
55206 CAGAAACCATAACAGAATTTAGGT
1 CAGATATCAGAACAGAATCCAGAT
55230 CATG-TATCAGAACAGAAT
1 CA-GATATCAGAACAGAAT
55248 TCAAGTAGGA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (24 bp):
CAGATATCAGAACAGAATCCAGAT
Found at i:59727 original size:24 final size:24
Alignment explanation
Indices: 59656--59745 Score: 74
Period size: 24 Copynumber: 3.8 Consensus size: 24
59646 AGATATCAGA
* * * *
59656 AAATCAAAATAGAATTCATAACAG
1 AAATCAGAATAGAATTCAGATCAT
* *
59680 ATATCAAAATAGAA-TCTAGATCAT
1 AAATCAGAATAGAATTC-AGATCAT
*
59704 AAATCAGAATAGAATTCAGGTCAT
1 AAATCAGAATAGAATTCAGATCAT
** *
59728 GCATCAGAACAGAATTCA
1 AAATCAGAATAGAATTCA
59746 AGTAGGAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 2 0.04
24 50 0.93
25 2 0.04
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.23
Consensus pattern (24 bp):
AAATCAGAATAGAATTCAGATCAT
Found at i:64436 original size:24 final size:24
Alignment explanation
Indices: 64365--64454 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 24
64355 AGATATCAGA
* * * *
64365 AAATCAAAATAGAATTCAGAACAG
1 AAATCAGAACAGAATTCAGATCAT
* * * *
64389 ATATCAAAACAAAATCCAGATCAT
1 AAATCAGAACAGAATTCAGATCAT
*
64413 AAATCAGAACAGAATTCAGGTCAT
1 AAATCAGAACAGAATTCAGATCAT
**
64437 GTATCAGAACAGAATTCA
1 AAATCAGAACAGAATTCA
64455 AGTAGGAAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAGATCAT
Found at i:64466 original size:24 final size:25
Alignment explanation
Indices: 64413--64466 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
64403 TCCAGATCAT
* *
64413 AAATCAGAACAGAATTCAGGTCATG
1 AAATCAGAACAGAATTCAAGTCAGG
*
64438 -TATCAGAACAGAATTCAAGT-AGG
1 AAATCAGAACAGAATTCAAGTCAGG
64461 AAATCA
1 AAATCA
64467 TATAAAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (25 bp):
AAATCAGAACAGAATTCAAGTCAGG
Found at i:66662 original size:17 final size:18
Alignment explanation
Indices: 66637--66672 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
66627 TTTGAAAATT
66637 TTAACTTTTCGGTCAAAA
1 TTAACTTTTCGGTCAAAA
66655 TTAA-TTTTCGGTCAAAA
1 TTAACTTTTCGGTCAAAA
66672 T
1 T
66673 CAAAGTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (18 bp):
TTAACTTTTCGGTCAAAA
Found at i:75059 original size:26 final size:26
Alignment explanation
Indices: 74991--75066 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
74981 AAAATATAAT
74991 TTATTTTATTATAAAATATAAACATA
1 TTATTTTATTATAAAATATAAACATA
* *
75017 TTGTTTTATAATAAAATATAAACATA
1 TTATTTTATTATAAAATATAAACATA
* * *
75043 TTATTTTGTTATGAAATGTAAACA
1 TTATTTTATTATAAAATATAAACA
75067 CAAATTTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (26 bp):
TTATTTTATTATAAAATATAAACATA
Found at i:75640 original size:28 final size:29
Alignment explanation
Indices: 75585--75661 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
75575 ATAGAAAAGT
* * **
75585 GGGCTAATTGATTTTTTTTAAAGTTTTAA
1 GGGCTTATTTATTTTTTAAAAAGTTTTAA
*
75614 -TGCTTATTTAATTTTTTAAAAAG-TTTAA
1 GGGCTTATTT-ATTTTTTAAAAAGTTTTAA
*
75642 GGGTTTATTTATTTTTTAAA
1 GGGCTTATTTATTTTTTAAA
75662 TAAATTAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.55
Consensus pattern (29 bp):
GGGCTTATTTATTTTTTAAAAAGTTTTAA
Found at i:75698 original size:15 final size:16
Alignment explanation
Indices: 75663--75703 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
75653 TTTTTTAAAT
*
75663 AAATTAAGAAATTATTT
1 AAATTAA-AAATTATTA
75680 AAATTAAAAA-TATTA
1 AAATTAAAAATTATTA
75695 AAA-TAAAAA
1 AAATTAAAAA
75704 AAGAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 3 0.13
17 7 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAATTAAAAATTATTA
Found at i:75736 original size:22 final size:22
Alignment explanation
Indices: 75698--75753 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
75688 AATATTAAAA
*
75698 TAAAAA-AAGAACATAAAAATAC
1 TAAAAATAAAAACAT-AAAATAC
* *
75720 TAAAAATAAAAAC-TAAATTAT
1 TAAAAATAAAAACATAAAATAC
75741 TAAAAATATAAAA
1 TAAAAATA-AAAA
75754 ACATTATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 13 0.45
22 11 0.38
23 5 0.17
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (22 bp):
TAAAAATAAAAACATAAAATAC
Found at i:75744 original size:21 final size:20
Alignment explanation
Indices: 75720--75765 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
75710 ATAAAAATAC
75720 TAAAAATA-AAAACTAAATTAT
1 TAAAAATATAAAA--AAATTAT
*
75741 TAAAAATATAAAAACATTAT
1 TAAAAATATAAAAAAATTAT
75761 TAAAA
1 TAAAA
75766 TTTCCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 8 0.35
22 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAATATAAAAAAATTAT
Found at i:85908 original size:36 final size:36
Alignment explanation
Indices: 85857--86011 Score: 213
Period size: 36 Copynumber: 4.3 Consensus size: 36
85847 AGTCAATCCT
85857 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* * *
85893 AAGCCTTCACTGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
85929 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * * * *
85965 AAGTCTTCACCAGAGAGTAGTGAAGCAAAGCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
86001 AAGTCTTCACC
1 AAGCCTTCACC
86012 AAAAGTAGTG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
35 1 0.01
36 105 0.98
37 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:86491 original size:51 final size:51
Alignment explanation
Indices: 86426--87190 Score: 840
Period size: 51 Copynumber: 14.8 Consensus size: 51
86416 AAGATTATTT
*
86426 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* * * *
86477 GAGTTCCATACTCCCTAGAGAAAAAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* * * *
86528 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* * *
86579 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCT
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTCC
* * * * *
86632 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTGTGAAGATATGC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* * * * *
86683 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCATTTGAAGAGATGTCT
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTCC
* * * *
86736 GAGTTCCATACTCCATAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* *
86787 GAGTTCCATACTCCTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGA-GAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* * *
86838 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCT
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTCC
* * * *
86891 GAGTTCCATACTCCCTAGAGAAAGAGGGAGAGAACCCGTGTGAAGATATCC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* **
86942 GAGTTCCATACTCCTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTT
1 GAGTTCCATACTCCCTAGA-GAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
* ** * * ** * **
86993 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTCC
* * *
87047 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCCATACTCCCTAG-AGAAAGAAGGAGCGAACCC-GTTTGAAGATGTCC
* *
87098 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTCC
* * * *
87149 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTG
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG
87191 TTGAAGATTG
Statistics
Matches: 613, Mismatches: 81, Indels: 38
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.00
50 4 0.01
51 428 0.70
52 9 0.01
53 129 0.21
54 40 0.07
55 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTCC
Found at i:86686 original size:104 final size:104
Alignment explanation
Indices: 86425--87190 Score: 921
Period size: 104 Copynumber: 7.4 Consensus size: 104
86415 GAAGATTATT
*
86425 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
* * * * *
86490 CCTAGAGAAAAAAGGAGCGAACCCGTGTGAAGATATG-C
66 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * * *
86528 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
86592 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
66 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * * * *
86631 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTGTGAAGATATGCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
*
86696 CTTAAAGAAAGAAGGAGCGAACCCATTTGAAGAGATGTC
66 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * * *
86735 TGAGTTCCATACTCCATAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
*
86800 CTTAATGAAAGAAGGAGCGAACCCGTTTG-A-AGATGT-
66 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * *
86836 TCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTCTGAGTTCCAT
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC-GAGTTCCAT
* * * * * *
86900 ACTCCCTAGAGAAAGAGGGAGAGAACCCGTGTG-A-AGATATC
62 ACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * * * *
86941 CGAGTTCCATACTCCTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTTGAGTTCTATACT
1 TGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACT
* * ** * *
87005 CTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTT
65 CCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTC
*
87046 TGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCCATAC
1 TGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTTGAAGATGTTCGAGTTCCATAC
* * *
87109 TCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGT-
64 TCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* * *
87147 TCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTG
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
87191 TTGAAGATTG
Statistics
Matches: 578, Mismatches: 67, Indels: 37
0.85 0.10 0.05
Matches are distributed among these distances:
101 2 0.00
102 216 0.37
103 10 0.02
104 268 0.46
105 80 0.14
106 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (104 bp):
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTC
CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
Found at i:86706 original size:155 final size:155
Alignment explanation
Indices: 86425--87190 Score: 1046
Period size: 155 Copynumber: 4.9 Consensus size: 155
86415 GAAGATTATT
86425 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
*
86490 CCTAGAGAAAAAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAG
66 CCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAG
86555 GAGCGAACCCGTTTG-A-AGATGT-
131 GAGCGAACCCGTTTGAAGAGATGTC
* * * *
86577 TCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATA
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTCCGAGTTCCATA
* *
86642 CTCCCTAGAGAAAGAGGGAGCGAACTCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAG
63 CTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAG
*
86707 AAGGAGCGAACCCATTTGAAGAGATGTC
128 AAGGAGCGAACCCGTTTGAAGAGATGTC
* * *
86735 TGAGTTCCATACTCCATAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
* * * * *
86800 CTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAA
66 CCTAGA-GAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
86864 GGAGCGAACCCGTTTGAAGAGATGTC
130 GGAGCGAACCCGTTTGAAGAGATGTC
* * *
86890 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGAGAACCCGTGTGAAGATATCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
* * * ** * *
86955 CTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTTGAGTTCTATACTCTTTAAAGAGAGAA
66 CCTAGA-GAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
** * *
87019 GGAGCGAACCCGTAAGAAGAAGATTTT
130 GGAGCGAACCCGTTTGAAG-AGATGTC
* *
87046 TGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCCATAC
1 TGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTTGAAGATGTCCGAGTTCCATAC
* * *
87109 TCCCTAGAGAAAGAGGGAGCGAACCC--GTGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAAA
64 TCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATG--CGAGTTCTATACTCCTTAAAGAAA
* *
87172 GAGGGAGCGAACCCATTTG
127 GAAGGAGCGAACCCGTTTG
87191 TTGAAGATTG
Statistics
Matches: 550, Mismatches: 51, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
152 1 0.00
153 39 0.07
154 9 0.02
155 336 0.61
156 118 0.21
157 46 0.08
158 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (155 bp):
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
CCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAG
GAGCGAACCCGTTTGAAGAGATGTC
Found at i:87225 original size:55 final size:54
Alignment explanation
Indices: 87144--87883 Score: 808
Period size: 55 Copynumber: 13.6 Consensus size: 54
87134 CGTGAAGAGA
* * * *
87144 TGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGC-GAACCCATTTGTTGAAGAT
1 TGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGGGCAG-ACCCA-TTGTTGAAGAT
* *
87199 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * * * *
87254 ATATT-GAGTCTTATACTCTCTAAAGATATAGGGGGCAGACACGATCGTTGAAGAT
1 -TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
87309 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
87364 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * * *
87419 T-AT-G-GTTCTTATACTCTCTGAAGAAATAGAGGGCAGACGCAATCGTTGAAGAT
1 TGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
87472 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * *
87527 TG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
87580 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * * **
87635 TG-T-GGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * * *
87688 TGTTCG-GATCTTATACTCTCTGAAGAAATAGGGGGCATATGCGATTGATGAAGAT
1 TGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGCAGA-CCCATTGTTGAAGAT
* * * * *
87743 T-AT-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-CCCATTGTTGAAGAT
*
87796 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-CAAGTTTGTTGAAGA-
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCCA--TTGTTGAAGAT
* *
87850 TGATTCAAGTCTTATACCCTCTGAAGAAATAGGG
1 TG-TTCGAGTCTTATACTCTCTGAAGAAATAGGG
87884 AGCGAACCCA
Statistics
Matches: 607, Mismatches: 57, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
52 1 0.00
53 187 0.31
54 15 0.02
55 396 0.65
56 8 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (54 bp):
TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCCATTGTTGAAGAT
Found at i:87473 original size:108 final size:108
Alignment explanation
Indices: 87206--87883 Score: 1027
Period size: 108 Copynumber: 6.2 Consensus size: 108
87196 GATTGTTCGA
* *
87206 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATATATT-GAGTCTTATAC
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGAT-TGTTCGAGTCTTATAC
* * * * * * *
87270 TCTCTAAAGATATAGGGGGCAGACACGATCGTTGAAGATTGTTCGA
65 TCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATT-AT-GG
*
87316 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
87381 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTATGG
66 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTATGG
* *
87424 TTCTTATACTCTCTGAAGAAATAGAGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
* *
87489 CTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATTGTGG
66 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTATGG
*
87532 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
*
87597 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGG
66 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTATGG
* *
87640 GTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATAC
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG-TCTTATAC
* *
87704 TCTCTGAAGAAATAGGGGGCATATGCGATTGATGAAGATTATGG
65 TCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTATGG
*
87748 GTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
** * * * **
87813 CTCTGAAGAAATAGGGGGCAGACAAGTTTGTTGAAGATGATTCAA
66 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTA-T-GG
*
87858 GTCTTATACCCTCTGAAGAAATAGGG
1 GTCTTATACTCTCTGAAGAAATAGGG
87884 AGCGAACCCA
Statistics
Matches: 527, Mismatches: 36, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
107 1 0.00
108 401 0.76
109 6 0.01
110 119 0.23
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (108 bp):
GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTATGG
Found at i:92226 original size:13 final size:13
Alignment explanation
Indices: 92208--92247 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
92198 GCTGCAACAA
92208 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
*
92221 AAGAAAATCAAAA-
1 AAGAAAA-GAAAAG
92234 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
92247 A
1 A
92248 CTCATACATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (13 bp):
AAGAAAAGAAAAG
Found at i:92488 original size:42 final size:43
Alignment explanation
Indices: 92419--92531 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 43
92409 TGTCGTTCAA
* * * *
92419 AAACGCCGCTAAAGGTGATGTTTTTTAGTGGCATTTTT-TTAC
1 AAACGCCACTAAAGGTAATGATATTTAGTGGCATTTTTATTAC
* *
92461 AAACGCCATTAAAGGTAATGATATTTAGTGGCGTTTTTATTAC
1 AAACGCCACTAAAGGTAATGATATTTAGTGGCATTTTTATTAC
* *
92504 AAATGCCACTAAAGGTTATGATATTTAG
1 AAACGCCACTAAAGGTAATGATATTTAG
92532 CTGCTTTTGG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 32 0.52
43 29 0.48
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (43 bp):
AAACGCCACTAAAGGTAATGATATTTAGTGGCATTTTTATTAC
Found at i:92647 original size:44 final size:45
Alignment explanation
Indices: 92583--92667 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
92573 GTGTTTTGTG
92583 CCAAAAAAAGCCGCTAAATGTCT-TGACATATAGTGGCGTTTCTTC
1 CCAAAAAAAGCCGCTAAATGT-TATGACATATAGTGGCGTTTCTTC
* *
92628 CCAAAAATA-CCGCTAAATGTTATGTCATATAGTGGCGTTT
1 CCAAAAAAAGCCGCTAAATGTTATGACATATAGTGGCGTTT
92668 GTGAATGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 1 0.03
44 28 0.76
45 8 0.22
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
CCAAAAAAAGCCGCTAAATGTTATGACATATAGTGGCGTTTCTTC
Found at i:92828 original size:21 final size:21
Alignment explanation
Indices: 92813--92862 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
92803 TAAACTTAGC
92813 ATCCATAACAACAAACTTGAA
1 ATCCATAACAACAAACTTGAA
* *
92834 ATCCATAACAAGATACTTGAA
1 ATCCATAACAACAAACTTGAA
92855 ATCCATAA
1 ATCCATAA
92863 TAATAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (21 bp):
ATCCATAACAACAAACTTGAA
Found at i:94421 original size:6 final size:6
Alignment explanation
Indices: 94410--94450 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
94400 CCTCATTTAC
* *
94410 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT ACCACT TCCTC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTC
94451 CTCTATAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.05, C:0.51, G:0.00, T:0.44
Consensus pattern (6 bp):
TCCTCT
Found at i:97212 original size:102 final size:110
Alignment explanation
Indices: 97094--97525 Score: 567
Period size: 113 Copynumber: 3.9 Consensus size: 110
97084 AAAAATGGAG
* * *
97094 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGCGTTTTT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
*
97159 CTCAATATGAACTCTACCTGGAAAAGTTGAT-C-C-A-T-T-AA-
66 CTCATTATGAACTCTACCTGGAAAAGTTGATCCACGAGTATGAAT
*
97197 TCAAGCTAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
* *
97261 CTTATTATGAACTCTACCTGGAAATGTTGATCCATCGAGTGATGAAT
66 CTCATTATGAACTCTACCTGGAAAAGTTGATCCA-CGAGT-ATGAAT
* * * *
97308 TCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTAT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCT
* *
97373 TCTCATTATGAACTCTACCTGGCAATGTTGATCCAACGAGTGATGAAT
65 TCTCATTATGAACTCTACCTGGAAAAGTTGATCC-ACGAGT-ATGAAT
** * * *
97421 TGGAGCAAAAGGTTGAACAAGTTATTCTTATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
*
97486 CTCATTATGAACT-TCCTCTGGAAAAGTTGATCCATCGAGT
66 CTCATTATGAACTCTAC-CTGGAAAAGTTGATCCA-CGAGT
97526 GATGGAAATT
Statistics
Matches: 291, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
102 79 0.27
103 10 0.03
105 1 0.00
106 1 0.00
107 1 0.00
109 1 0.00
110 2 0.01
111 11 0.04
112 82 0.28
113 102 0.35
114 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (110 bp):
TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
CTCATTATGAACTCTACCTGGAAAAGTTGATCCACGAGTATGAAT
Found at i:97430 original size:327 final size:322
Alignment explanation
Indices: 96883--97520 Score: 785
Period size: 327 Copynumber: 2.0 Consensus size: 322
96873 TTAAGGCAAG
*
96883 GTTGAATAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTC
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTC
* * *
96948 TTCTGGAAATGTTGATCCATCGATCAAGCTAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTT
66 TCCTGGAAATGTTGATCCATCGATCAAGCAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTT
* * * * * *
97013 CTTCCTCTTTAGATGAGTTCTTTTCATTATGAACTCTACCTGGAAATGGCTCTGCTGCTCTATCT
131 ATTCCTCTTCAGATGAGTTATTCTCATTATGAACTCTACCTGGAAATGGCTCTGATGCTCTAACT
** * *
97078 CTTTCTAAAAATGGAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
196 CAGTCGAAAAATGGAG--AAGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCT
* *
97143 CTTCAAATGCGTTTTTCTCAATATGAACTCTAC-CTGGAAAAGTTGATCCATTAATCAAGCTAAA
259 CTTCAAATGAGTTCTTCTCAATATGAACT-TACTCTGGAAAAGTTGATCCATTAATCAAGCTAAA
*
97207 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAA---CTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
*
97272 CTCTACCTGGAAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTAAACAAGTTCTTCTC
63 CTCT-CCTGGAAATGTTGATCCATC-------G-A-TCAAGCAAAA-GTTAAACAAGTTCTTCTC
*
97337 ATTATGAACTTCTTATTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCTACCTGGCAAT-G-
117 ATTATGAACTTCTTATTCC-TCTTCAGATGAGTTATTCTCATTATGAACTCTACCTGGAAATGGC
* ** * *
97400 T-TGAT-C-C-AAC-GAGT-GATGAATTG-G-AGCAAAAGGTTGAACAAGTTATTCTTATTATGA
181 TCTGATGCTCTAACTCAGTCGAAAAATGGAGAAGCAAAAGGTTGAACAAGTTATTCTCATTATGA
* * * *
97457 ACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGTTGATCCAT
246 ACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCAATATGAACTTACTCTGGAAAAGTTGATCCAT
97521 CGAGTGATGG
Statistics
Matches: 270, Mismatches: 28, Indels: 29
0.83 0.09 0.09
Matches are distributed among these distances:
324 25 0.09
326 2 0.01
327 125 0.46
328 19 0.07
330 1 0.00
331 5 0.02
332 1 0.00
333 2 0.01
334 1 0.00
335 2 0.01
336 4 0.01
337 9 0.03
338 36 0.13
339 38 0.14
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (322 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTC
TCCTGGAAATGTTGATCCATCGATCAAGCAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTT
ATTCCTCTTCAGATGAGTTATTCTCATTATGAACTCTACCTGGAAATGGCTCTGATGCTCTAACT
CAGTCGAAAAATGGAGAAGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTCT
TCAAATGAGTTCTTCTCAATATGAACTTACTCTGGAAAAGTTGATCCATTAATCAAGCTAAA
Found at i:97477 original size:225 final size:214
Alignment explanation
Indices: 97097--97529 Score: 598
Period size: 225 Copynumber: 2.0 Consensus size: 214
97087 AATGGAGTCA
* * * *
97097 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGCGTTTTTCTC
1 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCTTCAAATGAGTTATTCTC
* *
97162 AATATGAACTCTACCTGGAAAAGTTGATCCATTAATCAAGCTAAAGTTGAACAAGTTCTTCTCAT
66 AATATGAACTCTACCTGGAAAAGTTGATCCATTAATCAAGCAAAAGTTGAACAAGTTATTCTCAT
* *
97227 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTATGAACTCTAC-CTGGAAATGTTGA
131 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACT-TACTCTGGAAAAGTTGA
97291 TCCATCGAGTGATGAATTCG
195 TCCATCGAGTGATGAATTCG
*
97311 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTATTCT
1 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTCC-TCTTCAAATGAGTTATTCT
* * * **
97376 CATTATGAACTCTACCTGGCAATGTTGATCCAACGAGTGATGAATTGGAGCAAAAGGTTGAACAA
65 CAATATGAACTCTACCTGGAAAAGTTGAT-C--C-A-T--T-AA-TCAAGCAAAA-GTTGAACAA
* * *
97441 GTTATTCTTATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
120 GTTATTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTG
97506 GAAAAGTTGATCCATCGAGTGATG
185 GAAAAGTTGATCCATCGAGTGATG
97530 GAAATTTTTG
Statistics
Matches: 190, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
214 43 0.23
215 42 0.22
216 1 0.01
218 1 0.01
219 1 0.01
220 1 0.01
222 1 0.01
223 2 0.01
224 9 0.05
225 89 0.47
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (214 bp):
AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCTTCAAATGAGTTATTCTC
AATATGAACTCTACCTGGAAAAGTTGATCCATTAATCAAGCAAAAGTTGAACAAGTTATTCTCAT
TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAAGTTGAT
CCATCGAGTGATGAATTCG
Found at i:98817 original size:54 final size:54
Alignment explanation
Indices: 98728--98869 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 54
98718 ATAATCATTG
* * * * *
98728 GTTCGTAAAACATGTGACAATACATTCATCATTTCTCGTGGCTTCTGCCCAGAT
1 GTTCGTAAAGCATTTAACAACACATTCATCATTTCTCATGGCTTCTGCCCAGAT
* * * * * * *
98782 TTTTGTAAAGCTTTTAATAACACATTCATCCTTTCTTATGGCTTCTGTCCAGAT
1 GTTCGTAAAGCATTTAACAACACATTCATCATTTCTCATGGCTTCTGCCCAGAT
*
98836 GTTCGTAAAGCATTTGACAACACATTCATCATTT
1 GTTCGTAAAGCATTTAACAACACATTCATCATTT
98870 TATGTGATTT
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAGCATTTAACAACACATTCATCATTTCTCATGGCTTCTGCCCAGAT
Found at i:99087 original size:13 final size:13
Alignment explanation
Indices: 99069--99095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99059 AACTGATCTT
99069 GATATCATCTTGA
1 GATATCATCTTGA
99082 GATATCATCTTGA
1 GATATCATCTTGA
99095 G
1 G
99096 CAAGTGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GATATCATCTTGA
Found at i:99858 original size:75 final size:75
Alignment explanation
Indices: 99756--99928 Score: 256
Period size: 75 Copynumber: 2.3 Consensus size: 75
99746 GATATAGGAC
* * * *** * *
99756 TTCAGCATGCCCCAACATTTACCGATACAAGTGTTCAAAATGCGTCAACATTCCTCTTTCTGATT
1 TTCAGCATGCCCCAGCATTTGCTGATACAAACATTCAAAATGCGTCAACATTCCTCATTATGATT
99821 GAAATGGGCT
66 GAAATGGGCT
* *
99831 TTCAGCATGCCCCAGCATTTGCTGATACAAACATTCAAAATGCGTCAATATTCCTGATTATGATT
1 TTCAGCATGCCCCAGCATTTGCTGATACAAACATTCAAAATGCGTCAACATTCCTCATTATGATT
99896 GAAATGGGCT
66 GAAATGGGCT
99906 TTCAGCATGCCCCAGCATTTGCT
1 TTCAGCATGCCCCAGCATTTGCT
99929 TATTGTTGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 88 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (75 bp):
TTCAGCATGCCCCAGCATTTGCTGATACAAACATTCAAAATGCGTCAACATTCCTCATTATGATT
GAAATGGGCT
Found at i:106228 original size:7 final size:7
Alignment explanation
Indices: 106218--106254 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
106208 AGCAAACAAC
106218 AAATGCA
1 AAATGCA
106225 AAATG-A
1 AAATGCA
106231 AAATGCA
1 AAATGCA
106238 AAGATGCA
1 AA-ATGCA
106246 AAATGCA
1 AAATGCA
106253 AA
1 AA
106255 TGTATTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
8 7 0.25
ACGTcount: A:0.59, C:0.11, G:0.16, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:107712 original size:28 final size:26
Alignment explanation
Indices: 107647--107727 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 26
107637 ATTTAATACT
107647 TGAAAATAA-A-ATA-A-AAATATTA
1 TGAAAATAATAGATATATAAATATTA
*
107669 -AAAAATAATAGATATATAAATATTA
1 TGAAAATAATAGATATATAAATATTA
* *
107694 TGAAAATAATAAGTATATATAAAAATTT
1 TGAAAATAAT-AG-ATATATAAATATTA
107722 TGAAAA
1 TGAAAA
107728 GAAAGAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.15
22 1 0.02
23 3 0.06
24 1 0.02
25 8 0.17
26 8 0.17
27 2 0.04
28 18 0.38
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
TGAAAATAATAGATATATAAATATTA
Found at i:110066 original size:41 final size:41
Alignment explanation
Indices: 110009--110405 Score: 375
Period size: 41 Copynumber: 9.6 Consensus size: 41
109999 GCAAAAATGT
*
110009 CGCTAAAGACTGGTACTTTAGTGGCATTTTTATACAAACGC
1 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * * ** *
110050 CACTATACACTAGTACTTTAGTGGTGTTTTGATACAAACGC
1 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * * *
110091 CGCTAAAGATTCTTATTTTAGTGGCATTTTGATACAAACAC
1 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * * *
110132 CACTAAAGATTCTTACTTTAGTGACATTTTGATAC-AACGC
1 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * * * *
110172 CACTAAAGAATCTTACTTTAGTGGCGTTTGTGTTTACAAACAC
1 CGCTAAAGACTCGTACTTTAGTGGCATTT-T-TATACAAACGC
* ** *
110215 CGCTATAGACTCGTACTTTAGTGGTGTTTTTATACAAACGT
1 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * *
110256 CGCTATAAAACTAGTACTTTGGTGGCATTTTTATACAAAAGC
1 CGCTA-AAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * *
110298 CGCTAAAGACTCATACTTTAGTGGCATTTTTATATAAATGC
1 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * * *
110339 CGCTAAAGATTCGTACTTTAGTGGCGTTTGTGTTTAAAAATGC
1 CGCTAAAGACTCGTACTTTAGTGGCATTT-T-TATACAAACGC
110382 CGCTAAAGACTC-TACTTTAGTGGC
1 CGCTAAAGACTCGTACTTTAGTGGC
110406 GTTTGTTTTT
Statistics
Matches: 295, Mismatches: 55, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
40 30 0.10
41 167 0.57
42 50 0.17
43 48 0.16
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (41 bp):
CGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
Found at i:110293 original size:83 final size:81
Alignment explanation
Indices: 110009--110405 Score: 318
Period size: 83 Copynumber: 4.8 Consensus size: 81
109999 GCAAAAATGT
* * * * *
110009 CGCTAAAGACTGGTACTTTAGTGGCATTTTTATACAAACGCCACTATACACTAGTACTTTAGTGG
1 CGCTAAAAACT-GTACTTTAGTGGCATTTTTATACAAACACCACTAAAGACTCGTACTTTAGTGG
**
110074 TGTTTTGATACAAACGC
65 CATTTTGATACAAACGC
* * * * *
110091 CGCTAAAGATTCT-TATTTTAGTGGCATTTTGATACAAACACCACTAAAGATTCTTACTTTAGTG
1 CGCTAAA-A-ACTGTACTTTAGTGGCATTTTTATACAAACACCACTAAAGACTCGTACTTTAGTG
*
110155 ACATTTTGATAC-AACGC
64 GCATTTTGATACAAACGC
* * * * *
110172 CACTAAAGAATCT-TACTTTAGTGGCGTTTGTGTTTACAAACACCGCTATAGACTCGTACTTTAG
1 CGCTAAA-AA-CTGTACTTTAGTGGCATTT-T-TATACAAACACCACTAAAGACTCGTACTTTAG
** * *
110236 TGGTGTTTTTATACAAACGT
62 TGGCATTTTGATACAAACGC
* * *
110256 CGCTATAAAACTAGTACTTTGGTGGCATTTTTATACAAA-AGCCGCTAAAGACTCATACTTTAGT
1 CGCTA-AAAACT-GTACTTTAGTGGCATTTTTATACAAACA-CCACTAAAGACTCGTACTTTAGT
* * *
110320 GGCATTTTTATATAAATGC
63 GGCATTTTGATACAAACGC
* * * * * ** *
110339 CGCTAAAGATTCGTACTTTAGTGGCGTTTGTGTTTAAAAATGCCGCTAAAGACTC-TACTTTAGT
1 CGCTAAAAACT-GTACTTTAGTGGCATTT-T-TATACAAACACCACTAAAGACTCGTACTTTAGT
110403 GGC
63 GGC
110406 GTTTGTTTTT
Statistics
Matches: 255, Mismatches: 47, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
81 29 0.11
82 80 0.31
83 98 0.38
84 32 0.13
85 16 0.06
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (81 bp):
CGCTAAAAACTGTACTTTAGTGGCATTTTTATACAAACACCACTAAAGACTCGTACTTTAGTGGC
ATTTTGATACAAACGC
Found at i:116550 original size:10 final size:10
Alignment explanation
Indices: 116531--116564 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
116521 TCTTGGGGTG
*
116531 TTAAGAAAGC
1 TTAAGGAAGC
116541 TTAAGGAAGC
1 TTAAGGAAGC
*
116551 TGAAGGAAGC
1 TTAAGGAAGC
116561 TTAA
1 TTAA
116565 AGAGTAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (10 bp):
TTAAGGAAGC
Found at i:120104 original size:59 final size:59
Alignment explanation
Indices: 119728--120077 Score: 551
Period size: 59 Copynumber: 6.0 Consensus size: 59
119718 ATTCATACCT
*
119728 AGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAG--CACAA
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* * * * *
119785 AGTGCCTTATCTGGAAATTCATACAATTAGTATGATTTCCTTATTATTTTAGCACGCCA
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* * * *
119844 AGTGCCCTATCTAGAAATTCATACACTCAGTATAATTTCCTTATTATTTTAGCACACAA
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* **
119903 AGTGCCCTATCTGGAAATTCATACACTTAGTATAATTTCCTTATTGTTTTAGCACACAA
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
*
119962 AGTGCCCTATTTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
*
120021 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACAC
1 AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
120078 TTAGTGCCAT
Statistics
Matches: 269, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
57 48 0.18
59 221 0.82
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (59 bp):
AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
Found at i:120535 original size:54 final size:55
Alignment explanation
Indices: 120469--120588 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 55
120459 ACCCCCTTCG
* * * *
120469 GGTATCGATACCAAAAATAGGTTCTATGTTTCCTGGTATTAATA-CCCTTACCAT
1 GGTATCGATACCAAAAATAGATTCGATGTTTCATGGTATCAATACCCCTTACCAT
* * *
120523 GGTATCGATACCAAAATTAGATTCGATGTTTCATGGTATCGATACCCCTTATCAT
1 GGTATCGATACCAAAAATAGATTCGATGTTTCATGGTATCAATACCCCTTACCAT
120578 GGTATCGATAC
1 GGTATCGATAC
120589 TACATCTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 38 0.66
55 20 0.34
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (55 bp):
GGTATCGATACCAAAAATAGATTCGATGTTTCATGGTATCAATACCCCTTACCAT
Found at i:126356 original size:61 final size:61
Alignment explanation
Indices: 126240--126356 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
126230 GCTAAACCTG
* * * * * *
126240 CACTAAGCTTACGCCATAGTGCTAATTTGGATATGACACATAAGGTCGTGCCCACCACTTA
1 CACTAAGCTTAAGCCATAGTGCAAATATGGACATGACACATAAGGTCATACCCACCACTTA
* * * *
126301 CACTAAGCTTAAGCTATAGTGCAAATATGGACATGATACATAAGGTTATATCCACC
1 CACTAAGCTTAAGCCATAGTGCAAATATGGACATGACACATAAGGTCATACCCACC
126357 TTCCCGCACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (61 bp):
CACTAAGCTTAAGCCATAGTGCAAATATGGACATGACACATAAGGTCATACCCACCACTTA
Found at i:126675 original size:15 final size:16
Alignment explanation
Indices: 126655--126691 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
126645 CTTCCTGATG
126655 ATGTATAA-AACATAC
1 ATGTATAATAACATAC
*
126670 ATGTATAATATCATAC
1 ATGTATAATAACATAC
126686 ATGTAT
1 ATGTAT
126692 TGCACTCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (16 bp):
ATGTATAATAACATAC
Found at i:133146 original size:235 final size:236
Alignment explanation
Indices: 132730--133244 Score: 782
Period size: 235 Copynumber: 2.2 Consensus size: 236
132720 AATTCAATAG
* * * *
132730 GAAATTCATACAATTAGTATGATTTCATTATCATTTTAGCACACGAAGTGCCTTATCTAGAAATT
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTAGAAATT
* * * *
132795 CATACACTTAGTATGATTTCCTTATTATTTTAGCACACCAAGTGCCCTATCTAAAAATTCATACA
66 CATACACTCAGTATAATTTCCTTATTATTTTAGCACACAAAGTGCCATATCTAAAAATTCATACA
* **
132860 CTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCTCTATCTGGAAATTCATACACTCAGT
131 CTTAGTATAATTTCCTTATCATTTTAGCACACAAAGACCTCTATCTGGAAATTCATACACTCAGT
* *
132925 ATGATTTCCTTATTATTTTAGCAAACCAAGTGCCCTACCTA
196 ATGATTTCCTTATCATTTTAGCAAACAAAGTGCCCTACCTA
*
132966 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGGAAATT
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTAGAAATT
* *
133031 CATACACTCAGTA-AATTTCCTTATTATTTTAGCACACAAAGTGCCATATCTAGAAATTTATACA
66 CATACACTCAGTATAATTTCCTTATTATTTTAGCACACAAAGTGCCATATCTAAAAATTCATACA
* * * *
133095 GTTAGTATAATTTCCTTATTATTTTAGCACACAAAGCACCT-TATTTGGAAATTCATACACTTAG
131 CTTAGTATAATTTCCTTATCATTTTAGCACACAAAG-ACCTCTATCTGGAAATTCATACACTCAG
* * *
133159 TATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTG
195 TATGATTTCCTTATCATTTTAGCAAACAAAGTGCCCTACCTA
* *
133201 GAAATTCATACACTTAATATGATTTCCTTATCAATTTAGCACAC
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
133245 TTAGTGCATT
Statistics
Matches: 253, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
235 179 0.71
236 74 0.29
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (236 bp):
GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTAGAAATT
CATACACTCAGTATAATTTCCTTATTATTTTAGCACACAAAGTGCCATATCTAAAAATTCATACA
CTTAGTATAATTTCCTTATCATTTTAGCACACAAAGACCTCTATCTGGAAATTCATACACTCAGT
ATGATTTCCTTATCATTTTAGCAAACAAAGTGCCCTACCTA
Found at i:133251 original size:59 final size:59
Alignment explanation
Indices: 132729--133244 Score: 746
Period size: 59 Copynumber: 8.8 Consensus size: 59
132719 AAATTCAATA
* * * *
132729 GGAAATTCATACAATTAGTATGATTTCATTATCATTTTAGCACACGAAGTGCCTTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* * *
132788 AGAAATTCATACACTTAGTATGATTTCCTTATTATTTTAGCACACCAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
** *
132847 AAAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCTCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* * * * *
132906 GGAAATTCATACACTCAGTATGATTTCCTTATTATTTTAGCAAACCAAGTGCCCTACCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
*
132965 AGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* * * *
133024 GGAAATTCATACACTCAGTA-AATTTCCTTATTATTTTAGCACACAAAGTGCCATATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* * * * * ** * *
133082 AGAAATTTATACAGTTAGTATAATTTCCTTATTATTTTAGCACACAAAGCACCTTATTT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
133141 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* *
133200 GGAAATTCATACACTTAATATGATTTCCTTATCAATTTAGCACAC
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
133245 TTAGTGCATT
Statistics
Matches: 408, Mismatches: 48, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
58 51 0.12
59 357 0.88
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
Found at i:135387 original size:11 final size:11
Alignment explanation
Indices: 135371--135401 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
135361 ATGGGAGACG
135371 CCTAGCACACA
1 CCTAGCACACA
135382 CCTAGCACACA
1 CCTAGCACACA
135393 CCTAGCACA
1 CCTAGCACA
135402 TGCAGAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.45, G:0.10, T:0.10
Consensus pattern (11 bp):
CCTAGCACACA
Found at i:137491 original size:2 final size:2
Alignment explanation
Indices: 137484--137516 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
137474 AAAACCCCAA
137484 AT 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 AT A
137517 ATAAATCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:137617 original size:25 final size:28
Alignment explanation
Indices: 137588--137640 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 28
137578 AGTAAACACT
*
137588 TAATATATAAATA-ATAA-TC-ATTACG
1 TAATATAAAAATATATAATTCAATTACG
137613 TAATATAAAAATATATAATTCAATTACG
1 TAATATAAAAATATATAATTCAATTACG
137641 ATTATGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 12 0.50
26 4 0.17
27 2 0.08
28 6 0.25
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (28 bp):
TAATATAAAAATATATAATTCAATTACG
Found at i:138297 original size:15 final size:16
Alignment explanation
Indices: 138279--138324 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
138269 TATTATTTTA
138279 ATTAAAATATTAAT-T
1 ATTAAAATATTAATAT
*
138294 ATTAAAATATTATTAT
1 ATTAAAATATTAATAT
138310 ATTTAATAATATTAA
1 A-TTAA-AATATTAA
138325 AATAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.50
16 2 0.08
17 4 0.15
18 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTAAAATATTAATAT
Found at i:138335 original size:32 final size:32
Alignment explanation
Indices: 138266--138337 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
138256 TAAAATATTT
* *
138266 TAATATTATTTTAATTAAAATATTAATTATTAA
1 TAATATTATTATAATTAAAATATTAA-TAATAA
*
138299 -AATATTATTATATTTAATAATATTAA-AATAA
1 TAATATTATTATAATTAA-AATATTAATAATAA
138330 TAATATTA
1 TAATATTA
138338 AGTTTTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 4 0.12
32 22 0.65
33 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TAATATTATTATAATTAAAATATTAATAATAA
Found at i:138428 original size:11 final size:11
Alignment explanation
Indices: 138392--138460 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
138382 ATAAATGATT
138392 TTTAAAAAATA
1 TTTAAAAAATA
*
138403 TCTAAAAAATGA
1 TTTAAAAAAT-A
*
138415 TTTAAACAATA
1 TTTAAAAAATA
*
138426 TTT-TAAAATA
1 TTTAAAAAATA
* * *
138436 TCGTAAAATAGTT
1 T-TTAAAA-AATA
138449 TTTAAAAAATA
1 TTTAAAAAATA
138460 T
1 T
138461 AATTCGTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
10 6 0.14
11 17 0.40
12 16 0.38
13 3 0.07
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (11 bp):
TTTAAAAAATA
Found at i:138433 original size:23 final size:24
Alignment explanation
Indices: 138372--138433 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
138362 TATTGTATTT
138372 AATATTTATAATAAATGATTTTTAAAA
1 AATATTT-TAA-AAATGA-TTTTAAAA
* * *
138399 AATATCTAAAAAATGA-TTTAAAC
1 AATATTTTAAAAATGATTTTAAAA
138422 AATATTTTAAAA
1 AATATTTTAAAA
138434 TATCGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 16 0.53
25 6 0.20
26 2 0.07
27 6 0.20
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (24 bp):
AATATTTTAAAAATGATTTTAAAA
Found at i:140094 original size:21 final size:19
Alignment explanation
Indices: 140067--140127 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
140057 GATTCCCTAA
140067 GAAAAAGGATCGATCCCTT
1 GAAAAAGGATCGATCCCTT
*
140086 TAACCAAAGGA-CTGATCCCCTT
1 GAA--AAAGGATC-GAT-CCCTT
*
140108 GAAAAATGATCGATCCCTT
1 GAAAAAGGATCGATCCCTT
140127 G
1 G
140128 GATTCCAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
19 8 0.24
20 9 0.26
21 10 0.29
22 7 0.21
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (19 bp):
GAAAAAGGATCGATCCCTT
Found at i:140171 original size:20 final size:21
Alignment explanation
Indices: 140143--140195 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
140133 CAGTAGCGAT
140143 GGATCGATCCCTTCACC-AAA
1 GGATCGATCCCTTCACCTAAA
*
140163 GGATTGATCCCTTCACCTAAA
1 GGATCGATCCCTTCACCTAAA
140184 GGATCGATCCCT
1 GGATCGATCCCT
140196 GTCATGCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (21 bp):
GGATCGATCCCTTCACCTAAA
Found at i:141240 original size:20 final size:20
Alignment explanation
Indices: 141182--141240 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
141172 ATTATATATA
* *
141182 TATATTTAATTTTAATAATT
1 TATATTTATTTTTAATATTT
* *
141202 TA-ATTT-TTGTTAGTATTT
1 TATATTTATTTTTAATATTT
141220 TATATTTATTTTTAATATTT
1 TATATTTATTTTTAATATTT
141240 T
1 T
141241 TAATTTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 10 0.32
19 8 0.26
20 13 0.42
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TATATTTATTTTTAATATTT
Found at i:141821 original size:27 final size:27
Alignment explanation
Indices: 141780--141841 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
141770 CGAACACAAG
*
141780 ATTTTATGTTAGGAAGGGAACTTATAAA
1 ATTTTAAGTTAGGAA-GGAACTTATAAA
*
141808 ATTTTAAG-TAGGAATGAACTTATAAA
1 ATTTTAAGTTAGGAAGGAACTTATAAA
141834 ATTTTAAG
1 ATTTTAAG
141842 AGAGAGGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 19 0.59
27 6 0.19
28 7 0.22
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTTTAAGTTAGGAAGGAACTTATAAA
Found at i:146742 original size:31 final size:31
Alignment explanation
Indices: 146685--146743 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
146675 TTTCTTTTTG
* *
146685 GCTTAATATACGTATTAGTGTTTAAATTGTA
1 GCTTAAAATACGTATTAGTGTCTAAATTGTA
*
146716 GCTTAAAATACG-ATTTGATGTCTAAATT
1 GCTTAAAATACGTATTAG-TGTCTAAATT
146744 TTTTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (31 bp):
GCTTAAAATACGTATTAGTGTCTAAATTGTA
Found at i:150464 original size:34 final size:34
Alignment explanation
Indices: 150426--150512 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
150416 AATACTTACT
150426 TTATTTTGTTAATTTTGTTGGA-TTTTT-TTAAAAC
1 TTATTTTGTTAATTTTGTTGGACTTTTTGTT--AAC
*
150460 TTATTTTGTTAATTTTGTTGGACTTTTTGTTAAT
1 TTATTTTGTTAATTTTGTTGGACTTTTTGTTAAC
150494 TTATTTTGTTAATTTTGTT
1 TTATTTTGTTAATTTTGTT
150513 TATTACCATT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
34 43 0.86
35 5 0.10
36 2 0.04
ACGTcount: A:0.20, C:0.02, G:0.13, T:0.66
Consensus pattern (34 bp):
TTATTTTGTTAATTTTGTTGGACTTTTTGTTAAC
Found at i:150502 original size:13 final size:13
Alignment explanation
Indices: 150484--150508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150474 TTGTTGGACT
150484 TTTTGTTAATTTA
1 TTTTGTTAATTTA
150497 TTTTGTTAATTT
1 TTTTGTTAATTT
150509 TGTTTATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTGTTAATTTA
Found at i:153881 original size:22 final size:22
Alignment explanation
Indices: 153853--153899 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
153843 ACAATAAAAT
*
153853 TTTTACATATAAACGTAAATAA
1 TTTTACACATAAACGTAAATAA
*
153875 TTTTACACATAGACGTAAATAA
1 TTTTACACATAAACGTAAATAA
153897 TTT
1 TTT
153900 AAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (22 bp):
TTTTACACATAAACGTAAATAA
Found at i:163039 original size:3 final size:3
Alignment explanation
Indices: 163033--163086 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
163023 TCTAAAAAAA
*
163033 TAT TAT TAAG TAT -AT TAT TAT TAT TAT TAT TAT TA- TAT CTAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
163078 TATT TAT TA
1 TA-T TAT TA
163087 CAATTAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 4 0.09
3 32 0.73
4 8 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:175000 original size:46 final size:46
Alignment explanation
Indices: 174947--175034 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
174937 ACCACTACTT
* * *
174947 ATTTTCATTTGTGGCATCCTTTTATGCCAATTATGCACTGTTATAC
1 ATTTTCATTTATAGCATCCTTTCATGCCAATTATGCACTGTTATAC
174993 ATTTTCATTTATAGCATCCTTTCATGCCAATTATGCACTGTT
1 ATTTTCATTTATAGCATCCTTTCATGCCAATTATGCACTGTT
175035 CTTCATCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTTCATTTATAGCATCCTTTCATGCCAATTATGCACTGTTATAC
Found at i:175480 original size:110 final size:111
Alignment explanation
Indices: 175324--175871 Score: 738
Period size: 110 Copynumber: 5.0 Consensus size: 111
175314 CCCACTACCA
175324 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGTAAAT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGTAAAT
* *
175389 TCA-AAACTTATTATGAATTTATTAGCTTTTGCACACAAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
175434 ATACGAAAATTCAT-AACTTATTATGAATTTTTTAGTTTTTGTACACAAAGTGCCCATGCAG-AA
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATAC-GTAA
* * * * *
175497 ATTCATAAACTCATTAAGAATTTATTAGTTTTTTCACA-AAAGTTCCC
64 ATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
175544 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGTAAAT
*
175609 TCATAAACTCATTATGTATTTCTTAGCTTTTGCACACAAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* ** * *
175655 AAACGAAAATTCACCAACTTATTATGAATTTCTTAGCTTTTGAACACAAAGTGCCCATACATAAA
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGTAAA
* * * *
175720 TTCATAAACTCATTATAAATTTCTTAGCTTTTGCACAAAAAGTTCTC
65 TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
175767 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACAC--A---CCTATACGAAAA
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGTAAA
* * *
175827 TTCATAAACTTATTATGAATTTCTTAG-TTTTGCACGCATAGTGCC
65 TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCC
175872 ATTTGGTAAT
Statistics
Matches: 386, Mismatches: 45, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
106 13 0.03
107 34 0.09
109 21 0.05
110 120 0.31
111 89 0.23
112 109 0.28
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (111 bp):
ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGTAAAT
TCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
Found at i:175646 original size:56 final size:56
Alignment explanation
Indices: 175324--175871 Score: 726
Period size: 56 Copynumber: 10.0 Consensus size: 56
175314 CCCACTACCA
175324 ATACGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
175379 ATACGTAAATTCA-AAACTTATTATGAATTTATTAGCTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
175434 ATACGAAAATTCAT-AACTTATTATGAATTTTTTAGTTTTTGTACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * * * * * *
175489 ATGC-AGAAATTCATAAACTCATTAAGAATTTATTAGTTTTTTCACA-AAAGTTCCC
1 ATACGA-AAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
*
175544 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
175599 ATACGGAAATTCATAAACTCATTATGTATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* ** *
175655 AAACGAAAATTCACCAACTTATTATGAATTTCTTAGCTTTTGAACACAAAGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * * * *
175711 ATAC-ATAAATTCATAAACTCATTATAAATTTCTTAGCTTTTGCACAAAAAGTTCTC
1 ATACGA-AAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
175767 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACAC--A---CCT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
175818 ATACGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACGCATAGTGCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCC
175872 ATTTGGTAAT
Statistics
Matches: 435, Mismatches: 44, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
50 9 0.02
51 36 0.08
52 1 0.00
54 31 0.07
55 175 0.40
56 182 0.42
57 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (56 bp):
ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
Found at i:177379 original size:30 final size:31
Alignment explanation
Indices: 177332--177390 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
177322 TGACTTATGA
177332 AAGATGATAAGGGTTAGGTGTCTTGGTTTGG
1 AAGATGATAAGGGTTAGGTGTCTTGGTTTGG
*
177363 AAGATGATAA-GGTTAGGTTTCTTGGTTT
1 AAGATGATAAGGGTTAGGTGTCTTGGTTT
177391 AATGGTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.24, C:0.03, G:0.34, T:0.39
Consensus pattern (31 bp):
AAGATGATAAGGGTTAGGTGTCTTGGTTTGG
Found at i:179982 original size:8 final size:8
Alignment explanation
Indices: 179969--179998 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
179959 ATAACTTAGG
179969 TTTTCCCC
1 TTTTCCCC
179977 TTTTCCCC
1 TTTTCCCC
179985 TTTTCCCC
1 TTTTCCCC
*
179993 TATTCC
1 TTTTCC
179999 ATCTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTTCCCC
Found at i:185068 original size:56 final size:54
Alignment explanation
Indices: 184855--185391 Score: 718
Period size: 56 Copynumber: 9.7 Consensus size: 54
184845 ACCAATACAT
* *
184855 AAATTCATAAACTTACTATGAAGTTT-TTAGTTTTTCACACAAAGTGCCCATACG
1 AAATTCATAAACTTATTATGAA-TTTCTTAGTTTTGCACACAAAGTGCCCATACG
* * *
184909 AAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAATGCTCATATG
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACG
* *
184964 AAAATTCAT-AACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCCATAAAG
1 -AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCAT-ACG
* * *
185019 AAATTCATAAACTCATTACGAATTTCTTAGCGTTTGCACACAAAGTGCCCATACG
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACG
* * *
185074 AAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACACAAAGTGCCAATACAT
1 -AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC-G
** *
185130 AAATTCATAAACCAATTATGAATTTCTTAGCTTTTGTACACAAAGTGCCCATACG
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACG
*
185185 AAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACTCAAAGTGCCCATACGG
1 -AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATAC-G
* * * * *
185242 AAATTCATAATCTCATTATGAATTTCTTAGGTTTTTCACACAAAGTACGCATACG
1 AAATTCATAAACTTATTATGAATTTCTTA-GTTTTGCACACAAAGTGCCCATACG
*
185297 AAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATATGG
1 -AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATA-CG
185354 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
185392 GTATAGTGCC
Statistics
Matches: 428, Mismatches: 40, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.01
54 51 0.12
55 122 0.29
56 249 0.58
57 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (54 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACG
Found at i:190454 original size:22 final size:23
Alignment explanation
Indices: 190415--190476 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
190405 TCCCCTGTGG
190415 GGGGGAATCGGTTCCCCTTCA-AA
1 GGGGGAATCGGTT-CCCTTCATAA
*
190438 GGGGGAATCGGTTCCC-TCATGA
1 GGGGGAATCGGTTCCCTTCATAA
* *
190460 GGGGGGATCGATTCCCT
1 GGGGGAATCGGTTCCCT
190477 CTGCACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.09
22 18 0.53
23 13 0.38
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCTTCATAA
Found at i:190464 original size:23 final size:21
Alignment explanation
Indices: 190414--190477 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 21
190404 TTCCCCTGTG
190414 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
*
190437 AGGGGGAATCGGTTCCCTCATGA
1 GGGGGGAATCGGTTCCCTCA--A
*
190460 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
190478 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 14 0.39
23 19 0.53
ACGTcount: A:0.17, C:0.25, G:0.36, T:0.22
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:197605 original size:20 final size:21
Alignment explanation
Indices: 197582--197621 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
197572 CACTGCAGGA
197582 ATTT-ATGGCCTT-AACAAAAG
1 ATTTCATGG-CTTCAACAAAAG
197602 ATTTCATGGCTTCAACAAAA
1 ATTTCATGGCTTCAACAAAA
197622 ACCTTGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (21 bp):
ATTTCATGGCTTCAACAAAAG
Found at i:199086 original size:162 final size:161
Alignment explanation
Indices: 198815--199138 Score: 594
Period size: 162 Copynumber: 2.0 Consensus size: 161
198805 AGGATGAGGT
198815 AGGCAATTTTTTTCATACTGAAGCAAATGCAGAGTTTACTGAAGATAGAACAAATGAAGAGTCTG
1 AGGCAATTTTTTTCATACTGAAGCAAATGCAGAGTTTACTGAAGATAGAACAAATGAAGAGTCTG
198880 AGGATTACTCATTGGAGGTGGAACAAGCTAGCGTACTTCAAGCTAGACAAGGTATGAGATTCGAA
66 AGGATTACTCATTGGAGGTGGAACAAGCTAGCGTACTTCAAGCTAGACAAGGTATGAGATTCGAA
198945 CATCTTGAATTCAATGAATTTATTCCTCCAA
131 CATCTTGAATTCAATGAATTTATTCCTCCAA
*
198976 AGGCAAATTTTTTTCATACTGAAGTAAATGCAGAGTTTACTGAAGATAGAACAAATGAAGAGTCT
1 AGGC-AATTTTTTTCATACTGAAGCAAATGCAGAGTTTACTGAAGATAGAACAAATGAAGAGTCT
* *
199041 GAGGATTATTCATTGGAGGTGGAACAAGCTAGCGTACTTCAAGCTAGACTAGGTATGAGATTCGA
65 GAGGATTACTCATTGGAGGTGGAACAAGCTAGCGTACTTCAAGCTAGACAAGGTATGAGATTCGA
* *
199106 ACATCTTGAATTTAATGATTTTATTCCTCCAA
130 ACATCTTGAATTCAATGAATTTATTCCTCCAA
199138 A
1 A
199139 ACCTTCGTTA
Statistics
Matches: 157, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
161 4 0.03
162 153 0.97
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (161 bp):
AGGCAATTTTTTTCATACTGAAGCAAATGCAGAGTTTACTGAAGATAGAACAAATGAAGAGTCTG
AGGATTACTCATTGGAGGTGGAACAAGCTAGCGTACTTCAAGCTAGACAAGGTATGAGATTCGAA
CATCTTGAATTCAATGAATTTATTCCTCCAA
Found at i:207467 original size:14 final size:15
Alignment explanation
Indices: 207448--207482 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
207438 TCTTTTTTTG
207448 TTTTTTCATTTCT-A
1 TTTTTTCATTTCTAA
207462 TTTTTTCATTTCTAA
1 TTTTTTCATTTCTAA
207477 TTTTTT
1 TTTTTT
207483 TGTTTTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTCATTTCTAA
Found at i:208512 original size:128 final size:129
Alignment explanation
Indices: 208273--208538 Score: 322
Period size: 127 Copynumber: 2.1 Consensus size: 129
208263 TCAGATATGG
* * * *
208273 AAATGTTGATTCACTCCACTGCTCTTCAGGGAAGATTGAATCGAGGTATATTTGTTCCACTACTC
1 AAAT-TTGATTCACTACACTGCTCTTCAAGGAAGATTGAATCGAGGCAGATTTGTTCCACTACTC
* ** *
208338 CTCAGGGAAGATCAAATATAAAAAAGGGGTATGTTCCACTTCTTTCA-AGTAGATCAGATCCAAA
65 CTCAAGGAAGATCAAATATAAAAAAGGGGTATACTCCACTACTTTCAGAGTAGATCAGATCCAAA
* *
208402 AAATTTGATTCACTACACTGCTCTTCAAGGAA-ATTGAATCGGGGCAGATTTGTTCCACTGCTCC
1 AAATTTGATTCACTACACTGCTCTTCAAGGAAGATTGAATCGAGGCAGATTTGTTCCACTACTCC
* * * * * * *
208466 TTAAGGAAGATGAAATCTGAAAAAA-GGGTCTACTCCGCTACGTTTCAGGGTAGATCAGATCTAA
66 TCAAGGAAGATCAAATAT-AAAAAAGGGGTATACTCCACTAC-TTTCAGAGTAGATCAGATCCAA
208530 A
129 A
*
208531 AACTTTGA
1 AAATTTGA
208539 CTCGCTCCAC
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
127 53 0.46
128 37 0.32
129 26 0.22
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (129 bp):
AAATTTGATTCACTACACTGCTCTTCAAGGAAGATTGAATCGAGGCAGATTTGTTCCACTACTCC
TCAAGGAAGATCAAATATAAAAAAGGGGTATACTCCACTACTTTCAGAGTAGATCAGATCCAAA
Found at i:208569 original size:129 final size:127
Alignment explanation
Indices: 208273--208570 Score: 294
Period size: 127 Copynumber: 2.3 Consensus size: 127
208263 TCAGATATGG
* * * * *
208273 AAATGTTGATTCACTCCACTGCTCTTCAGGGAAGATTGAATCGAGGTATATTTGTTCCACTACTC
1 AAAT-TTGACTCACTACACTGATCTTCAGGG-AGATTGAATCGAGGCAGATTTGTTCCACTACTC
* ** *
208338 CTCAGGGAAGATCAAATATAAAAAAGGGGTATGTTCCACTTCTTTCAAGTAGATCAGATCCAAA
64 CTCAAGGAAGATCAAATATAAAAAAGGGGTATACTCCACTACTTTCAAGTAGATCAGATCCAAA
* * * * * *
208402 AAATTTGATTCACTACACTGCTCTTCAAGGAAATTGAATCGGGGCAGATTTGTTCCACTGCTCCT
1 AAATTTGACTCACTACACTGATCTTCAGGGAGATTGAATCGAGGCAGATTTGTTCCACTACTCCT
* * * * * * *
208467 TAAGGAAGATGAAATCTGAAAAAA-GGGTCTACTCCGCTACGTTTCAGGGTAGATCAGATCTAAA
66 CAAGGAAGATCAAATAT-AAAAAAGGGGTATACTCCACTAC-TTTCA-AGTAGATCAGATCCAAA
* * * *
208531 AACTTTGACTCGCTCCACT-ATTTTCAGGGTAGATTGAATC
1 AAATTTGACTCACTACACTGATCTTCAGGG-AGATTGAATC
208571 AAGTTTGATT
Statistics
Matches: 139, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
127 54 0.39
128 42 0.30
129 43 0.31
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (127 bp):
AAATTTGACTCACTACACTGATCTTCAGGGAGATTGAATCGAGGCAGATTTGTTCCACTACTCCT
CAAGGAAGATCAAATATAAAAAAGGGGTATACTCCACTACTTTCAAGTAGATCAGATCCAAA
Found at i:209800 original size:26 final size:25
Alignment explanation
Indices: 209771--209837 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
209761 TTTTATTTGT
209771 TTTTTCTTTTTATTTCTCTTCTTTTC-
1 TTTTTCTTTTTATTT-T-TTCTTTTCA
*
209797 TTTTTC-TTTAATTTTTTCTTTTCA
1 TTTTTCTTTTTATTTTTTCTTTTCA
*
209821 TTTTT-TTCTTATTTTTT
1 TTTTTCTTTTTATTTTTT
209838 AGGTAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 8 0.22
24 15 0.42
25 7 0.19
26 6 0.17
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTCTTTTTATTTTTTCTTTTCA
Found at i:210019 original size:18 final size:19
Alignment explanation
Indices: 209982--210019 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
209972 TTTCCTCAGA
**
209982 AATCTTTTTGAATTGGCAG
1 AATCTTTTTGAATTACCAG
210001 AATCTTTTT-AATTACCAG
1 AATCTTTTTGAATTACCAG
210019 A
1 A
210020 TCTCCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (19 bp):
AATCTTTTTGAATTACCAG
Found at i:219405 original size:33 final size:35
Alignment explanation
Indices: 219363--219428 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
219353 AATACAAAGA
*
219363 GGTACCGATACCCCC-A-GGGGTATCCATACCCTG
1 GGTACCGATACCCCCGACGGGGTATCAATACCCTG
*
219396 GGTACCGATACCCCCGACTGGGTATCAATACCC
1 GGTACCGATACCCCCGACGGGGTATCAATACCC
219429 CATGAAGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.52
34 1 0.03
35 13 0.45
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (35 bp):
GGTACCGATACCCCCGACGGGGTATCAATACCCTG
Found at i:221598 original size:23 final size:23
Alignment explanation
Indices: 221572--221640 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
221562 CACCACAGCT
*
221572 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
221595 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
221618 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
221641 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:221835 original size:103 final size:103
Alignment explanation
Indices: 221656--221868 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
221646 TAATGTCCAT
* *
221656 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
221721 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
221759 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
221824 GACTTCACACATGTTCCAAAGAATACATATATGTTCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
221862 AAGGACC
1 AAGGACC
221869 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:222709 original size:20 final size:20
Alignment explanation
Indices: 222684--222731 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
222674 CTCTTTATAA
222684 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
222704 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
222724 ACATCTAT
1 ACATCTAT
222732 CGACTTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:223305 original size:20 final size:22
Alignment explanation
Indices: 223236--223320 Score: 129
Period size: 22 Copynumber: 4.0 Consensus size: 22
223226 TCTGGTTCGT
* *
223236 TTGAGTGGGTATCGATTCCCCA
1 TTGAATGGGTACCGATTCCCCA
*
223258 TTGAATGGGTACTGATTCCCCA
1 TTGAATGGGTACCGATTCCCCA
223280 TTGAATGGGTACCGATT-CCC-
1 TTGAATGGGTACCGATTCCCCA
223300 TTGAATGGGTACCGATTCCCC
1 TTGAATGGGTACCGATTCCCC
223321 TTGCCCAGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
20 17 0.29
21 6 0.10
22 35 0.60
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.31
Consensus pattern (22 bp):
TTGAATGGGTACCGATTCCCCA
Found at i:223317 original size:42 final size:44
Alignment explanation
Indices: 223236--223320 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 44
223226 TCTGGTTCGT
* * *
223236 TTGAGTGGGTATCGATTCCCCATTGAATGGGTACTGATTCCCCA
1 TTGAATGGGTACCGATTCCCCATTGAATGGGTACCGATTCCCCA
223280 TTGAATGGGTACCGATT-CCC-TTGAATGGGTACCGATTCCCC
1 TTGAATGGGTACCGATTCCCCATTGAATGGGTACCGATTCCCC
223321 TTGCCCAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 20 0.53
43 3 0.08
44 15 0.39
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.31
Consensus pattern (44 bp):
TTGAATGGGTACCGATTCCCCATTGAATGGGTACCGATTCCCCA
Found at i:225830 original size:18 final size:19
Alignment explanation
Indices: 225807--225843 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
225797 CAACAATTGG
225807 TAACAATTGATAT-ATTTT
1 TAACAATTGATATCATTTT
225825 TAACAATTGATATCATTTT
1 TAACAATTGATATCATTTT
225844 GTTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
TAACAATTGATATCATTTT
Found at i:226135 original size:21 final size:21
Alignment explanation
Indices: 226120--226168 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
226110 CTGGGTACTG
226120 ATACCCCCTGCCTGGGTATCA
1 ATACCCCCTGCCTGGGTATCA
226141 ATACCCCCTGCCTGGGTATCA
1 ATACCCCCTGCCTGGGTATCA
226162 ATACCCC
1 ATACCCC
226169 ATGAAGGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.22
Consensus pattern (21 bp):
ATACCCCCTGCCTGGGTATCA
Found at i:226229 original size:18 final size:17
Alignment explanation
Indices: 226206--226263 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
226196 AAGGATACCA
226206 ATACCCCTATGGGTATCC
1 ATACCCC-ATGGGTATCC
226224 ATACCCC-T-GGTA-CC
1 ATACCCCATGGGTATCC
*
226238 GATACCCCCAGGGGTATCC
1 -ATA-CCCCATGGGTATCC
226257 ATACCCC
1 ATACCCC
226264 CTGGCTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
14 2 0.06
15 7 0.21
16 5 0.15
17 4 0.12
18 14 0.41
19 2 0.06
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (17 bp):
ATACCCCATGGGTATCC
Found at i:226253 original size:33 final size:33
Alignment explanation
Indices: 226201--226263 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
226191 ACAAAAAGGA
* *
226201 TACCAATACCCCTATGGGTATCCATACCCCTGG
1 TACCAATACCCCCAGGGGTATCCATACCCCTGG
*
226234 TACCGATACCCCCAGGGGTATCCATACCCC
1 TACCAATACCCCCAGGGGTATCCATACCCC
226264 CTGGCTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.21
Consensus pattern (33 bp):
TACCAATACCCCCAGGGGTATCCATACCCCTGG
Found at i:226414 original size:20 final size:22
Alignment explanation
Indices: 226376--226415 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
226366 TTTTAGCAGA
226376 AAAATCATCCCCAAATGGCTCC
1 AAAATCATCCCCAAATGGCTCC
226398 AAAA-CATCCCC-AATGGCT
1 AAAATCATCCCCAAATGGCT
226416 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAATCATCCCCAAATGGCTCC
Found at i:229409 original size:20 final size:20
Alignment explanation
Indices: 229386--229429 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
229376 CCCCTCCCCC
*
229386 TTTTTCTCTCTATTTCTTTT
1 TTTTTCTCCCTATTTCTTTT
*
229406 TTTTTCTCCCTTTTTCTTTT
1 TTTTTCTCCCTATTTCTTTT
229426 TTTT
1 TTTT
229430 AAAGTGGTTA
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:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTCTCCCTATTTCTTTT
Found at i:231074 original size:56 final size:57
Alignment explanation
Indices: 230946--231122 Score: 205
Period size: 59 Copynumber: 3.1 Consensus size: 57
230936 AGTGCTAACT
* * * * *
230946 CGAGTATGACATATAAAGTCGTGCCCACTAT-CTGCACTAGTTATACTTTACTGCAGTCC
1 CGAGTATGACACATAAGGTCGTGCCCACAATAC-GCACTA--TATACTTTAGTGCAATCC
* * *
231005 CGAATATGTCACATAAGGTCGTGCCCACAATACGCACTA-ATACTTTAGTACAATCC
1 CGAGTATGACACATAAGGTCGTGCCCACAATACGCACTATATACTTTAGTGCAATCC
* *
231061 CGAGTATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATCC
1 CGAGTATGACACATAAGGTCGTGCCCACAATACGCACTA--TATACTTTAGTGCAATCC
231120 CGA
1 CGA
231123 ATATACAGCT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
56 49 0.49
59 51 0.50
60 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (57 bp):
CGAGTATGACACATAAGGTCGTGCCCACAATACGCACTATATACTTTAGTGCAATCC
Found at i:231293 original size:22 final size:22
Alignment explanation
Indices: 231267--231313 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
231257 ACTTGAAATA
*
231267 ATATTCGA-AATAAACATCGTAT
1 ATATTC-ATAATAAACATCATAT
*
231289 ATATTCATGATAAACATCATAT
1 ATATTCATAATAAACATCATAT
231311 ATA
1 ATA
231314 ATAAACAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATTCATAATAAACATCATAT
Found at i:237526 original size:59 final size:59
Alignment explanation
Indices: 237444--237621 Score: 247
Period size: 59 Copynumber: 3.1 Consensus size: 59
237434 CTAACCCGAG
* *
237444 TATGACACATAAGGTCGTGCCCACCATCTGCACTAGTTATACTTTAGTGCAGTCCAGAA
1 TATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCAGAA
* * * ** *
237503 TATGACACATAAGGTTGTTCCCACCATGTGCACTA---ATACTTTAGTGCAATCTTGAG
1 TATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCAGAA
237559 TATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCCA-AA
1 TATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAAT-CCAGAA
237618 TATG
1 TATG
237622 TAGCCTACTA
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
56 49 0.48
59 52 0.51
60 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (59 bp):
TATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCAGAA
Found at i:238287 original size:24 final size:24
Alignment explanation
Indices: 238260--238312 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
238250 GACAAAATCT
238260 GTTTTAAGCAGAATCTACTGCCCC
1 GTTTTAAGCAGAATCTACTGCCCC
*
238284 GTTTTGAGCAGAATCTACTGCCCC
1 GTTTTAAGCAGAATCTACTGCCCC
238308 GTTTT
1 GTTTT
238313 CTTACCTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (24 bp):
GTTTTAAGCAGAATCTACTGCCCC
Found at i:240498 original size:15 final size:17
Alignment explanation
Indices: 240478--240510 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
240468 TCCAGAAAAT
240478 AAAAATAA-AAA-TTAA
1 AAAAATAATAAAGTTAA
240493 AAAAATAATAAAGTTAA
1 AAAAATAATAAAGTTAA
240510 A
1 A
240511 TAATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATAATAAAGTTAA
Found at i:240533 original size:16 final size:15
Alignment explanation
Indices: 240510--240539 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
240500 ATAAAGTTAA
240510 ATAATATTATTATTT
1 ATAATATTATTATTT
240525 ATAATTATTATTATT
1 ATAA-TATTATTATT
240540 AACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATAATATTATTATTT
Found at i:242474 original size:77 final size:77
Alignment explanation
Indices: 242343--242493 Score: 275
Period size: 77 Copynumber: 2.0 Consensus size: 77
242333 TTACTACCTT
* *
242343 TGCCTTTTGAACATGTTATCAGCAAGGATGACAAGAACAAGGCTAAATTCGTGAAGAAACTTCAT
1 TGCCTTTTGAACATGTGATCAGCAAGGATGACAAGAACAAGGCTAAATTCGTGAAGAAACTCCAT
242408 GAAGAGGTAAGA
66 GAAGAGGTAAGA
*
242420 TGCCTTTTGAACATGTGATCAGCAAGGATGACAAGAACAAGGCTAAATTTGTGAAGAAACTCCAT
1 TGCCTTTTGAACATGTGATCAGCAAGGATGACAAGAACAAGGCTAAATTCGTGAAGAAACTCCAT
242485 GAAGAGGTA
66 GAAGAGGTA
242494 CGAGAAAATA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (77 bp):
TGCCTTTTGAACATGTGATCAGCAAGGATGACAAGAACAAGGCTAAATTCGTGAAGAAACTCCAT
GAAGAGGTAAGA
Found at i:247285 original size:60 final size:60
Alignment explanation
Indices: 247212--247344 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 60
247202 AAAATATGGT
* * * * * * *
247212 AAAGTT-CATAAATGGTTTTTCAACTGT-GGGATATTATTTTGTTGAGTCTCTTGACTATTG
1 AAAGTTACA-AAATGGTTCTCCAACTATAGGG-TATTATTTTATTGAGTCACTCGACTATTA
* *
247272 AAAGTTACAAAATGGTTCTCCAACTATAGGGTGTTGTTTTATTGAGTCACTCGACTATTA
1 AAAGTTACAAAATGGTTCTCCAACTATAGGGTATTATTTTATTGAGTCACTCGACTATTA
247332 AAAGTTACAAAAT
1 AAAGTTACAAAAT
247345 TGTCATATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
60 57 0.92
61 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (60 bp):
AAAGTTACAAAATGGTTCTCCAACTATAGGGTATTATTTTATTGAGTCACTCGACTATTA
Found at i:252647 original size:14 final size:14
Alignment explanation
Indices: 252628--252669 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
252618 TACCTAATAA
252628 TATTTTTATTTTTT
1 TATTTTTATTTTTT
* * *
252642 TATTTTGATCTTTA
1 TATTTTTATTTTTT
252656 TA-TTTTATTTTTT
1 TATTTTTATTTTTT
252669 T
1 T
252670 CAAATTAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TATTTTTATTTTTT
Done.