Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 87 of 145
Found at i:29177880 original size:64 final size:63
Alignment explanation
Indices: 29177548--29177890 Score: 182
Period size: 67 Copynumber: 5.2 Consensus size: 63
29177538 AGGTTCGCTG
* * * * *
29177548 ATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGAGTTAGCTC
1 ATTTAAGATCACAACCTAAGTTCATT--ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
* ** * * * * * *
29177613 ATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATC-TCAACGGA-TATTA-TTAAGGTT
1 ATTTAAGATCACAA--CCTAAG--TTCATT-ATTTAAGATCATGAAC-AATTTTTATTTGA-GTT
** *
29177675 CTCTG
59 AGCTA
* * *
29177680 ATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
1 ATTTAAGATCACAACCTAAGTTCATT--ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
* * *
29177745 ATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATC----AC-ATTTGATATTATTAAGG
1 ATTTAAGATCACAAC-CT--A-AGTTCA-TTATTTAAGATCATGAACAATTT-TTA-T-TTGA-G
* * *
29177805 TTCGTTG
57 TTAGCTA
29177812 ATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGCTA
1 ATTTAAGATCACAACCTAAGTTCATT--ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
*
29177876 ATTTAAGATCGCAAC
1 ATTTAAGATCACAAC
29177891 TCCGAACAGT
Statistics
Matches: 211, Mismatches: 41, Indels: 53
0.69 0.13 0.17
Matches are distributed among these distances:
62 2 0.01
63 14 0.07
64 43 0.20
65 43 0.20
66 15 0.07
67 53 0.25
68 25 0.12
69 14 0.07
70 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (63 bp):
ATTTAAGATCACAACCTAAGTTCATTATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
Found at i:29177914 original size:95 final size:97
Alignment explanation
Indices: 29177804--29178017 Score: 328
Period size: 95 Copynumber: 2.2 Consensus size: 97
29177794 TATTATTAAG
* *
29177804 GTTCGTTGATTTAAGATCACAACCTAAGTTCA-TTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
29177868 AG-TAGCTAATTTAAGATCGCAACTCCGAAC-A
65 AGTTAGCTAATTTAAGATCGCAACTCCGAACAA
29177899 GTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGA
1 GTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGA
* * *
29177964 GTTAGTTTATTTAAGATCGTAACTCCGAACAA
66 GTTAGCTAATTTAAGATCGCAACTCCGAACAA
* *
29177996 CTT-ACTGATTTAAGATCGCAAC
1 GTTCGCTGATTTAAGATCGCAAC
29178018 TGATATTATT
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
94 1 0.01
95 62 0.57
96 43 0.39
97 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (97 bp):
GTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGA
GTTAGCTAATTTAAGATCGCAACTCCGAACAA
Found at i:29178046 original size:132 final size:132
Alignment explanation
Indices: 29177898--29178251 Score: 478
Period size: 132 Copynumber: 2.7 Consensus size: 132
29177888 AACTCCGAAC
29177898 AGTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTT
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTT-GATTTAAGATCATGAACAATTTTTATTT
* * * * *
29177962 GAGTTAGTTTATTTAAGATCGTAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTAT
65 GAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTAT
29178027 TAA
130 TAA
* * * *
29178030 AGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTG
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
* * * ** * *
29178095 AGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTCGTTGATTTAAGCTTGCAAATGATATTATT
66 AGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTATT
29178160 AA
131 AA
* * ** *
29178162 AGTTTGTTGATTTAAGATCAAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
*
29178227 AGTTAGC-AGATTTAAAATCGCAACT
66 AGTTAGCTA-ATTTAAGATCGCAACT
29178252 GATGTTATTA
Statistics
Matches: 194, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 190 0.98
133 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (132 bp):
AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
AGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTATT
AA
Found at i:29178072 original size:227 final size:228
Alignment explanation
Indices: 29177672--29178141 Score: 676
Period size: 227 Copynumber: 2.1 Consensus size: 228
29177662 TATTATTAAG
* *
29177672 GTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
1 GTTCGCTGATTTAAGATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
* * **
29177737 GTTAGCTAATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATCACATTTGATATTATTA
66 GTTAGCTAATTTAAGATCACAACTCCGAACAATTCACTGATTTAAGATCACAACTGATATTATTA
* * * *
29177802 AGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTT
131 AAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTT
29177867 GAG-TAGCTAATTTAAGATCGCAACTCCGAACA
196 GAGTTAGCTAATTTAAGATCGCAACTCCGAACA
* **
29177899 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATCGCAACATAAGTTCA-TTCAATTTAAGATCATGAACAATTTTTATTTG
* * ** *
29177963 AGTTAGTTTATTTAAGATCGTAACTCCGAACAACTT-ACTGATTTAAGATCGCAACTGATATTAT
65 AGTTAGCTAATTTAAGATCACAACTCCGAACAA-TTCACTGATTTAAGATCACAACTGATATTAT
* * *
29178027 TAAAGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCT
129 TAAAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTAT
* *
29178092 TTGAGTTAGCTAATTTAAGATCGCAACTCTGAATA
194 TTGAGTTAGCTAATTTAAGATCGCAACTCCGAACA
* *
29178127 GCTCGTTGATTTAAG
1 GTTCGCTGATTTAAG
29178142 CTTGCAAATG
Statistics
Matches: 215, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
226 1 0.00
227 172 0.80
228 42 0.20
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (228 bp):
GTTCGCTGATTTAAGATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
GTTAGCTAATTTAAGATCACAACTCCGAACAATTCACTGATTTAAGATCACAACTGATATTATTA
AAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTT
GAGTTAGCTAATTTAAGATCGCAACTCCGAACA
Found at i:29178204 original size:359 final size:362
Alignment explanation
Indices: 29177540--29178422 Score: 1091
Period size: 359 Copynumber: 2.4 Consensus size: 362
29177530 TATTATTAAG
* * * * *
29177540 GTTCGCTGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGA
1 GTTCGCTGATTTAAGATC-CAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGA
* * * * * * *
29177605 GTTAGCTCATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACGGATATTATTA
65 GTTAGCTCATTTAAGATTGCAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATTA
* * * *
29177670 AGGTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTT
130 AGGTTCGCTGATATAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTT
* **
29177735 GAGTTAGCTAATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATCACATTTGATATTAT
195 GAGTTAGCTAATTTAAGATCACAACTCTGAACAACTCACTTATTTAAGATCACAAATGATATTAT
* * *
29177800 TAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTAT
260 TAAAGTTCGTTGATTTAAGATCAAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTTAT
* *
29177865 TTGAG-TAGCTA-ATTTAAGATCGCAACT-CCG-A-ACA-
325 TTGAGTTAGC-AGATTTAAAATCGCAACTGACGTATA-AT
*
29177899 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATC-CAACCTAAGTTCA-TTCGATTTAAGATCATGAACAATTTTTATTTG
* * * *
29177963 AGTTAGTTTATTTAAGATCGTAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATT
64 AGTTAGCTCATTTAAGATTGCAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATT
* * * *
29178028 AAAGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTT
129 AAGGTTCGCTGATATAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAACAATTTTTATT
* * * * * **
29178093 TGAGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTC-GTTGATTTAAGCTTGCAAATGATATT
194 TGAGTTAGCTAATTTAAGATCACAACTCTGAACAACTCACTT-ATTTAAGATCACAAATGATATT
* *
29178157 ATTAAAGTTTGTTGATTTAAGATCAAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTT
258 ATTAAAGTTCGTTGATTTAAGATCAAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTT
*
29178222 ATTTGAGTTAGCAGATTTAAAATCGCAACTGATGTTATTAAT
323 ATTTGAGTTAGCAGATTTAAAATCGCAACTGACG-TA-TAAT
** * * * *
29178264 GTTTACTGATTTAAGATTCCAACTTAAGTTCATTCGATTTAAAATCATGAATAATTTTTATTTGT
1 GTTCGCTGATTTAAGA-TCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGA
* * * * * *
29178329 GTTAGCTGATTTAAGATTGCAACCCCGAACATCTCT-CTAATTTAAGATCGCAACTAATATTGTT
65 GTTAGCTCATTTAAGATTGCAACTCCGAACAACT-TACTGATTTAAGATCGCAACTGATATTATT
* * *
29178393 AAGGTCCGATGATATAAGATCACAACCTAA
129 AAGGTTCGCTGATATAAGATCGCAACCTAA
29178423 CTCCAATTAA
Statistics
Matches: 446, Mismatches: 65, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
358 3 0.01
359 285 0.64
360 19 0.04
361 1 0.00
363 1 0.00
364 1 0.00
365 132 0.30
366 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (362 bp):
GTTCGCTGATTTAAGATCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAG
TTAGCTCATTTAAGATTGCAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATTAA
GGTTCGCTGATATAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTG
AGTTAGCTAATTTAAGATCACAACTCTGAACAACTCACTTATTTAAGATCACAAATGATATTATT
AAAGTTCGTTGATTTAAGATCAAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATT
TGAGTTAGCAGATTTAAAATCGCAACTGACGTATAAT
Found at i:29178205 original size:227 final size:220
Alignment explanation
Indices: 29177677--29178382 Score: 582
Period size: 227 Copynumber: 3.1 Consensus size: 220
29177667 TTAAGGTTCT
* * ** *
29177677 CTGATTTAAAATCGCAACATAAGTTCA-TTCAATTTAAGATCATGAACAATTTTTATTTGAGTTA
1 CTGATTTAAGATCGCAACATAAATT-ATTTGGATTTAAGATCA-GAACAA--TCTA--T-AGTTA
* * * * * ** *
29177741 GCTAATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATCACATTTGATATTATTAAGGT
59 GTTTATTTAAGATCATAACTCTGAACAATT-ACTGATTTAAGATCGCAACTGATATTATTAAAGT
* *
29177806 TCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-
123 TCGCTGATTTAAGATC-CAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGT
*
29177870 TAGCTAATTTAAGATCGCAACTCCGAACAGTTCG
187 TAGCTAATTTAAGATCGCAACTCCGAACAGCTCG
* * *
29177904 CTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
1 CTGATTTAAGATCGCAACATAAATTATTTGGATTTAAGATCA-GAACAA--TCTA--T-AGTTAG
* *
29177969 TTTATTTAAGATCGTAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATTAAAGTT
60 TTTATTTAAGATCATAACTCTGAACAA-TTACTGATTTAAGATCGCAACTGATATTATTAAAGTT
* * *
29178034 CGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTGAGTT
124 CGCTGATTTAAGATC-CAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTT
* *
29178099 AGCTAATTTAAGATCGCAACTCTGAATAGCTCG
188 AGCTAATTTAAGATCGCAACTCCGAACAGCTCG
* * *
29178132 TTGATTTAAGCTTGCAA-ATGATATTATTAAAGTTTGTTGATTTAAGATCA-AA-AA-CTA-AGT
1 CTGATTTAAGATCGCAACAT-A-A--ATT--A-TTTG--GATTTAAGATCAGAACAATCTATAGT
* * ** * * * *
29178192 TCA-TTTGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATCGCAACTGATG
57 T-AGTTT-ATTTAAGATCAT-AAC---TCTGA--ACAATTA-CTGATTTAAGATCGCAACTGATA
* ** * * *
29178256 TTATTAATGTTTACTGATTTAAGATTCCAACTTAAGTTCATTCGATTTAAAATCATGAATAATTT
113 TTATTAAAGTTCGCTGATTTAAGA-TCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTT
* * * * * *
29178321 TTATTTGTGTTAGCTGATTTAAGATTGCAACCCCGAACATCTCT
177 TTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAGCTCG
*
29178365 CTAATTTAAGATCGCAAC
1 CTGATTTAAGATCGCAAC
29178383 TAATATTGTT
Statistics
Matches: 396, Mismatches: 60, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
226 8 0.02
227 181 0.46
228 51 0.13
229 1 0.00
230 2 0.01
231 4 0.01
232 3 0.01
233 126 0.32
234 8 0.02
236 12 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (220 bp):
CTGATTTAAGATCGCAACATAAATTATTTGGATTTAAGATCAGAACAATCTATAGTTAGTTTATT
TAAGATCATAACTCTGAACAATTACTGATTTAAGATCGCAACTGATATTATTAAAGTTCGCTGAT
TTAAGATCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTAATT
TAAGATCGCAACTCCGAACAGCTCG
Found at i:29178277 original size:101 final size:101
Alignment explanation
Indices: 29178145--29178351 Score: 265
Period size: 101 Copynumber: 2.0 Consensus size: 101
29178135 ATTTAAGCTT
* ** * *
29178145 GCAAATGATATTATTAAAGTTTGTTGATTTAAGA-TCAAAAAC-TAAGTTCATTTGATTTAAGAT
1 GCAACTGATATTATTAAAGTTTACTGATTTAAGATTC--AAACTTAAGTTCATTCGATTTAAAAT
29178208 CATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
64 CATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
* * *
29178246 GCAACTGATGTTATTAATGTTTACTGATTTAAGATTCCAACTTAAGTTCATTCGATTTAAAATCA
1 GCAACTGATATTATTAAAGTTTACTGATTTAAGATTCAAACTTAAGTTCATTCGATTTAAAATCA
* * * * *
29178311 TGAATAATTTTTATTTGTGTTAGCTGATTTAAGATT
66 TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
29178347 GCAAC
1 GCAAC
29178352 CCCGAACATC
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 3 0.03
101 86 0.95
102 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (101 bp):
GCAACTGATATTATTAAAGTTTACTGATTTAAGATTCAAACTTAAGTTCATTCGATTTAAAATCA
TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
Found at i:29182225 original size:13 final size:13
Alignment explanation
Indices: 29182193--29182244 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
29182183 ACATGGTTCA
*
29182193 CACATTAAGCTCG
1 CACATTGAGCTCG
* *
29182206 CATATTGAGCTTG
1 CACATTGAGCTCG
*
29182219 CACATTGGGCTCG
1 CACATTGAGCTCG
* *
29182232 CATATCGAGCTCG
1 CACATTGAGCTCG
29182245 TATGACACTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (13 bp):
CACATTGAGCTCG
Found at i:29185219 original size:17 final size:17
Alignment explanation
Indices: 29185197--29185282 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 17
29185187 ATCCTAAAAT
29185197 ATTATTTAAAAATCAT-A
1 ATTATTTAAAAAT-ATAA
*
29185214 ATTATTTTCAAAATTATAAA
1 ATTA-TTT-AAAAATAT-AA
*
29185234 AGTTATTAAAAAATATAA
1 A-TTATTTAAAAATATAA
*
29185252 ATTATTAAAATAATAATAA
1 ATTATTTAAA-AAT-ATAA
29185271 ATTA-TTAAAAAT
1 ATTATTTAAAAAT
29185283 TTCAAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
17 16 0.28
18 15 0.26
19 20 0.34
20 4 0.07
21 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (17 bp):
ATTATTTAAAAATATAA
Found at i:29185246 original size:38 final size:36
Alignment explanation
Indices: 29185197--29185281 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 36
29185187 ATCCTAAAAT
* *
29185197 ATTATTTAAAAATCAT-AATTATTTTCAAAATTATAA-AA
1 ATTATTAAAAAAT-ATAAATTA--TT-AAAATAATAATAA
*
29185235 GTTATTAAAAAATATAAATTATTAAAATAATAATAA
1 ATTATTAAAAAATATAAATTATTAAAATAATAATAA
29185271 ATTATTAAAAA
1 ATTATTAAAAA
29185282 TTTCAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 9 0.22
36 14 0.34
37 2 0.05
38 16 0.39
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (36 bp):
ATTATTAAAAAATATAAATTATTAAAATAATAATAA
Found at i:29186888 original size:2 final size:2
Alignment explanation
Indices: 29186875--29186914 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
29186865 TTGATTGAGT
*
29186875 GA GA GA GT GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
29186915 TGATTTGCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
GA
Found at i:29188719 original size:18 final size:18
Alignment explanation
Indices: 29188684--29188720 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29188674 ATTCAGTGGA
*
29188684 ATAAAAGCATGGTTAGTG
1 ATAAAAGCATGGTGAGTG
*
29188702 ATAAAAGCATTGTGAGTG
1 ATAAAAGCATGGTGAGTG
29188720 A
1 A
29188721 AACAGTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (18 bp):
ATAAAAGCATGGTGAGTG
Found at i:29190266 original size:42 final size:42
Alignment explanation
Indices: 29190176--29190268 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
29190166 ACATACAGAA
* * * **
29190176 ATAAAGCCTGCTAGGCTCAAGGCCTAATACAATTACATCGGC
1 ATAAAGCCTGCTAGGCTCAAGGCATAATACAAATACACCAAC
* * * *
29190218 ACAAAGCCTTCTAGGCTCGAGGCATGATACAAATACACCAAC
1 ATAAAGCCTGCTAGGCTCAAGGCATAATACAAATACACCAAC
29190260 ATAAAGCCT
1 ATAAAGCCT
29190269 AATATAAATC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (42 bp):
ATAAAGCCTGCTAGGCTCAAGGCATAATACAAATACACCAAC
Found at i:29191717 original size:131 final size:131
Alignment explanation
Indices: 29191480--29191742 Score: 463
Period size: 131 Copynumber: 2.0 Consensus size: 131
29191470 TATCTTAGTG
*
29191480 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATCAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATAAAAAATTTTCA
*
29191545 GAAAAGGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
66 GAAAAAGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
29191610 C
131 C
*
29191611 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAATATATAAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATAAAAAATTTTCA
* * * *
29191676 GAAAAAGGGCATATTTCACGTTAATCGAGAAAGAGACTTATGTCCCGTAAGTTAGGTCACTATGT
66 GAAAAAGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
29191741 C
131 C
29191742 T
1 T
29191743 TAAACCCCGA
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (131 bp):
TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATAAAAAATTTTCA
GAAAAAGGGCATACTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
C
Found at i:29192368 original size:17 final size:17
Alignment explanation
Indices: 29192342--29192379 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
29192332 GTAGTGAAAT
*
29192342 TAAAATAAAA-AATACAA
1 TAAAAGAAAATAATA-AA
29192359 TAAAAGAAAATAATAAA
1 TAAAAGAAAATAATAAA
29192376 TAAA
1 TAAA
29192380 TAAATGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAAGAAAATAATAAA
Found at i:29192371 original size:22 final size:21
Alignment explanation
Indices: 29192343--29192383 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
29192333 TAGTGAAATT
29192343 AAAATAAAAAATACAATAAAAG
1 AAAATAAAAAATA-AATAAAAG
*
29192365 AAAATAATAAATAAATAAA
1 AAAATAAAAAATAAATAAA
29192384 TGTGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAATAAATAAAAG
Found at i:29194520 original size:18 final size:18
Alignment explanation
Indices: 29194482--29194531 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
29194472 ATCAAAACTC
29194482 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAA-TTTTAAA
*
29194501 GTTTCTCCAAATTTTCAA
1 GTTTCTCCAAATTTTAAA
*
29194519 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
29194532 AAGTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (18 bp):
GTTTCTCCAAATTTTAAA
Found at i:29194544 original size:14 final size:15
Alignment explanation
Indices: 29194517--29194545 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29194507 CCAAATTTTC
29194517 AAGTTTTCAAAATTT
1 AAGTTTTCAAAATTT
29194532 AAGTTTT-AAAATTT
1 AAGTTTTCAAAATTT
29194546 TTATTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (15 bp):
AAGTTTTCAAAATTT
Found at i:29197888 original size:15 final size:15
Alignment explanation
Indices: 29197868--29197898 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29197858 ACATCTATCG
*
29197868 AAATAGATGAATTAC
1 AAATAGACGAATTAC
29197883 AAATAGACGAATTAC
1 AAATAGACGAATTAC
29197898 A
1 A
29197899 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:29198846 original size:21 final size:23
Alignment explanation
Indices: 29198804--29198846 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
29198794 TAATTAATCA
*
29198804 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
29198827 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
29198847 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:29208355 original size:157 final size:157
Alignment explanation
Indices: 29208069--29208382 Score: 522
Period size: 157 Copynumber: 2.0 Consensus size: 157
29208059 AACTATCTTA
*
29208069 AGTTAATCAATTAACTAATAGAAATTTAATGTTTTTAACTTTTACGATTTAGTCCTTTTTACTTA
1 AGTTAATCAATTAACTAATAGAAATTTAATGTTTTTAACTTTTACGATTTAGACCTTTTTACTTA
* * * *
29208134 ATTAGCTATTTAAATGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTA
66 ATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTTA
*
29208199 TGGGCTCAGTTTATAAAAACGAGGTCT
131 CGGGCTCAGTTTATAAAAACGAGGTCT
* * *
29208226 AGTTAATCAATTAACTAATAGAAA-TTAATTTTTTTAAATTTTTATGATTTAGACCTTTTTACTT
1 AGTTAATCAATTAACTAATAGAAATTTAATGTTTTT-AACTTTTACGATTTAGACCTTTTTACTT
29208290 AATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTT
65 AATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTT
*
29208355 ACGGGCTCAGTTTATAAAAATGAGGTCT
130 ACGGGCTCAGTTTATAAAAACGAGGTCT
29208383 CGATACCTCA
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
156 10 0.07
157 136 0.93
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (157 bp):
AGTTAATCAATTAACTAATAGAAATTTAATGTTTTTAACTTTTACGATTTAGACCTTTTTACTTA
ATTAGCTATTTAAACGCTAAAATTTCATAACCAAATTTTAATATAACCCTAATAACACATATTTA
CGGGCTCAGTTTATAAAAACGAGGTCT
Found at i:29209715 original size:52 final size:52
Alignment explanation
Indices: 29209636--29209734 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
29209626 TCAGTGATGG
* *
29209636 TTTTTGAAGTGAAGAAATCATAGCCACTACCGAGGATGTCGTAACACCTATT
1 TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGTCGCAACACCTATT
* *
29209688 TTTTTGAAGTGAAAAAATTAT-GACCACTATCGAGGATGTCGCAACAC
1 TTTTTGAAGTGAAAAAATCATAG-CCACTACCGAGGATGTCGCAACAC
29209735 TAGCTACTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 41 0.98
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGTCGCAACACCTATT
Found at i:29210051 original size:25 final size:26
Alignment explanation
Indices: 29210003--29210051 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
29209993 CTTTTCCTTT
* *
29210003 CTTTTCGTTTTTAGATTAGGTTTTTC
1 CTTTTCGTTTTTAGAATAGATTTTTC
*
29210029 CTTTTC-TTTTTAGAATATATTTT
1 CTTTTCGTTTTTAGAATAGATTTT
29210052 ATTTCTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (26 bp):
CTTTTCGTTTTTAGAATAGATTTTTC
Found at i:29212921 original size:21 final size:24
Alignment explanation
Indices: 29212896--29212939 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
29212886 TCTTATTATT
29212896 AATAT-TATTT-TT-AAGAGATAA
1 AATATATATTTATTCAAGAGATAA
29212917 AATATCATATTTATTCAAGAGAT
1 AATAT-ATATTTATTCAAGAGAT
29212940 TTTTGGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 5 0.26
24 2 0.11
25 7 0.37
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
AATATATATTTATTCAAGAGATAA
Found at i:29214782 original size:28 final size:26
Alignment explanation
Indices: 29214745--29214801 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 26
29214735 AAATTTTAAA
29214745 AAATTCAAAAAACTATAAAATATATATTT
1 AAATTCAAAAAAC-ATAAAA-AT-TATTT
*
29214774 AAATT-AAAAAACATTAAAATTATTT
1 AAATTCAAAAAACATAAAAATTATTT
29214799 AAA
1 AAA
29214802 AAGTATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 8 0.30
26 2 0.07
27 5 0.19
28 7 0.26
29 5 0.19
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATTCAAAAAACATAAAAATTATTT
Found at i:29214826 original size:11 final size:11
Alignment explanation
Indices: 29214810--29214843 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
29214800 AAAAGTATAG
29214810 AAATATTTTTA
1 AAATATTTTTA
29214821 AAATATTTTT-
1 AAATATTTTTA
29214831 AAA-ATTTTTA
1 AAATATTTTTA
29214841 AAA
1 AAA
29214844 AGTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTTTA
Found at i:29214852 original size:20 final size:19
Alignment explanation
Indices: 29214786--29214853 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
29214776 ATTAAAAAAC
29214786 ATTAAAATTATTTAAAAAGT
1 ATTAAAATT-TTTAAAAAGT
* *
29214806 ATAGAAATATTTTTAAAATATT
1 AT-TAAA-ATTTTTAAAA-AGT
*
29214828 TTTAAAATTTTTAAAAAGT
1 ATTAAAATTTTTAAAAAGT
29214847 AATTAAA
1 -ATTAAA
29214854 TGTTGACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 17 0.45
21 13 0.34
22 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATTAAAATTTTTAAAAAGT
Found at i:29218286 original size:29 final size:30
Alignment explanation
Indices: 29218220--29218283 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
29218210 TTATGGGAGG
29218220 AAAAAAA-GAAAATAAGAGAAATAGAAAGA
1 AAAAAAAGGAAAATAAGAGAAATAGAAAGA
* * *
29218249 ATAAAAAGGAGAATAA-AGAAATA-ATAGA
1 AAAAAAAGGAAAATAAGAGAAATAGAAAGA
29218277 AAAAAAA
1 AAAAAAA
29218284 AGGGTAGGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 10 0.33
29 13 0.43
30 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (30 bp):
AAAAAAAGGAAAATAAGAGAAATAGAAAGA
Found at i:29219112 original size:86 final size:86
Alignment explanation
Indices: 29218997--29219173 Score: 207
Period size: 86 Copynumber: 2.1 Consensus size: 86
29218987 TAAAAAGCCA
* * * *
29218997 CTAAAGGTCATGTTCTTTAGCGGCACTTTT-CTCACAAA-CGCCACTAAAGATCATGTTCTTTAG
1 CTAAAAGTCATGTTCTATAGCGGCACTTTTCCT-A-AAATCGCCACTAAAAATCATGATCTTTAG
* * *
29219060 -TGCCGTTTTTAGTAAATGCGCTG
64 CTG-CGTTTGTAGTAAAAGCGCCG
* * *
29219083 CTAAAAGTCATGTTCTATAGTGGCGCTTTTCCTAAAATTGCCACTAAAAATCATGATCTTTAGCT
1 CTAAAAGTCATGTTCTATAGCGGCACTTTTCCTAAAATCGCCACTAAAAATCATGATCTTTAGCT
*
29219148 GCGTTTGTGGTAAAAGCGCCG
66 GCGTTTGTAGTAAAAGCGCCG
29219169 CTAAA
1 CTAAA
29219174 GAACATGATC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
85 3 0.04
86 70 0.91
87 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (86 bp):
CTAAAAGTCATGTTCTATAGCGGCACTTTTCCTAAAATCGCCACTAAAAATCATGATCTTTAGCT
GCGTTTGTAGTAAAAGCGCCG
Found at i:29219190 original size:86 final size:86
Alignment explanation
Indices: 29219036--29219198 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 86
29219026 TCTCACAAAC
* * * * * * *
29219036 GCCACTAAAGATCATGTTCTTTAGTGCCGTTTTTAGTAAATGCGCTGCTAAAAGTCATGTTCTAT
1 GCCACTAAAAATCATGATCTTTAGTGCCGTTTGTAGTAAAAGCGCCGCTAAAAGACATGATCTAT
29219101 AGTGGCGCTTTTCCTAAAATT
66 AGTGGCGCTTTTCCTAAAATT
*
29219122 GCCACTAAAAATCATGATCTTTAGCTG-CGTTTGTGGTAAAAGCGCCGCT-AAAGAACATGATCT
1 GCCACTAAAAATCATGATCTTTAG-TGCCGTTTGTAGTAAAAGCGCCGCTAAAAG-ACATGATCT
* *
29219185 TTAGTGGCGTTTTT
64 ATAGTGGCGCTTTT
29219199 GGGAAAAGCG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 4 0.06
86 59 0.91
87 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
GCCACTAAAAATCATGATCTTTAGTGCCGTTTGTAGTAAAAGCGCCGCTAAAAGACATGATCTAT
AGTGGCGCTTTTCCTAAAATT
Found at i:29219206 original size:43 final size:43
Alignment explanation
Indices: 29218956--29219218 Score: 182
Period size: 43 Copynumber: 6.2 Consensus size: 43
29218946 AAAAACGCTG
*
29218956 CTAAAGAACATGA-CTTTTAGTGGC-TTTTTGGTAAAA-AGCCA
1 CTAAAGAACATGATC-TTTAGTGGCGTTTTTGGTAAAAGCGCCA
** * * ** *
29218997 CTAAAGGTCATGTTCTTTAGCGGCACTTTT-CTCACAAA-CGCCA
1 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGT-A-AAAGCGCCA
* * * * * **
29219040 CTAAAGATCATGTTCTTTAGTGCCGTTTTTAGTAAATGCGCTG
1 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
* * * * ** **
29219083 CTAAA-AGTCATGTTCTATAGTGGCGCTTTTCCTAAAATTGCCA
1 CTAAAGA-ACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
* *
29219126 CTAAA-AATCATGATCTTTAGCT-GCGTTTGTGGTAAAAGCGCCG
1 CTAAAGAA-CATGATCTTTAG-TGGCGTTTTTGGTAAAAGCGCCA
*
29219169 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGGAAAAGCGCCA
1 CTAAAGAACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
29219212 CTAAAGA
1 CTAAAGA
29219219 TTCTTTAGCG
Statistics
Matches: 172, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
41 19 0.11
42 10 0.06
43 139 0.81
44 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (43 bp):
CTAAAGAACATGATCTTTAGTGGCGTTTTTGGTAAAAGCGCCA
Found at i:29220242 original size:397 final size:397
Alignment explanation
Indices: 29219509--29220302 Score: 1588
Period size: 397 Copynumber: 2.0 Consensus size: 397
29219499 TCTTCATCAT
29219509 ATTCTGAAGCTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCTTCTGCTTCCCTCGCTGTTGTCT
1 ATTCTGAAGCTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCTTCTGCTTCCCTCGCTGTTGTCT
29219574 CTGCTTTAAGTTGTAGCTAGAGCTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTACC
66 CTGCTTTAAGTTGTAGCTAGAGCTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTACC
29219639 TTCGTTTTAAGTTGAGTAATTTGCTCAACCGTGCTCGCTTGCATCTGAGCCATTTGGTCTCTTAA
131 TTCGTTTTAAGTTGAGTAATTTGCTCAACCGTGCTCGCTTGCATCTGAGCCATTTGGTCTCTTAA
29219704 CCTTTGAACTTTAGCTTGAGCCTGATTCACCGAAGGCATGTATTGCTACGAGCTGGATTCAAAAA
196 CCTTTGAACTTTAGCTTGAGCCTGATTCACCGAAGGCATGTATTGCTACGAGCTGGATTCAAAAA
29219769 ATTGGGTTGCGTTAACAAAAGATCCTTGAAATCGAACTCGACCATACCTTTCAGAACCCAAAACT
261 ATTGGGTTGCGTTAACAAAAGATCCTTGAAATCGAACTCGACCATACCTTTCAGAACCCAAAACT
29219834 TCAGTAATAATTCTGTTATCAATGTCGTCCAGATTAATAGAACTATCACTTCATACTCTGCCCTT
326 TCAGTAATAATTCTGTTATCAATGTCGTCCAGATTAATAGAACTATCACTTCATACTCTGCCCTT
29219899 TTATCCC
391 TTATCCC
29219906 ATTCTGAAGCTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCTTCTGCTTCCCTCGCTGTTGTCT
1 ATTCTGAAGCTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCTTCTGCTTCCCTCGCTGTTGTCT
29219971 CTGCTTTAAGTTGTAGCTAGAGCTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTACC
66 CTGCTTTAAGTTGTAGCTAGAGCTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTACC
29220036 TTCGTTTTAAGTTGAGTAATTTGCTCAACCGTGCTCGCTTGCATCTGAGCCATTTGGTCTCTTAA
131 TTCGTTTTAAGTTGAGTAATTTGCTCAACCGTGCTCGCTTGCATCTGAGCCATTTGGTCTCTTAA
29220101 CCTTTGAACTTTAGCTTGAGCCTGATTCACCGAAGGCATGTATTGCTACGAGCTGGATTCAAAAA
196 CCTTTGAACTTTAGCTTGAGCCTGATTCACCGAAGGCATGTATTGCTACGAGCTGGATTCAAAAA
29220166 ATTGGGTTGCGTTAACAAAAGATCCTTGAAATCGAACTCGACCATACCTTTCAGAACCCAAAACT
261 ATTGGGTTGCGTTAACAAAAGATCCTTGAAATCGAACTCGACCATACCTTTCAGAACCCAAAACT
29220231 TCAGTAATAATTCTGTTATCAATGTCGTCCAGATTAATAGAACTATCACTTCATACTCTGCCCTT
326 TCAGTAATAATTCTGTTATCAATGTCGTCCAGATTAATAGAACTATCACTTCATACTCTGCCCTT
29220296 TTATCCC
391 TTATCCC
29220303 TTAGTTTCTC
Statistics
Matches: 397, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
397 397 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (397 bp):
ATTCTGAAGCTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCTTCTGCTTCCCTCGCTGTTGTCT
CTGCTTTAAGTTGTAGCTAGAGCTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTACC
TTCGTTTTAAGTTGAGTAATTTGCTCAACCGTGCTCGCTTGCATCTGAGCCATTTGGTCTCTTAA
CCTTTGAACTTTAGCTTGAGCCTGATTCACCGAAGGCATGTATTGCTACGAGCTGGATTCAAAAA
ATTGGGTTGCGTTAACAAAAGATCCTTGAAATCGAACTCGACCATACCTTTCAGAACCCAAAACT
TCAGTAATAATTCTGTTATCAATGTCGTCCAGATTAATAGAACTATCACTTCATACTCTGCCCTT
TTATCCC
Found at i:29221068 original size:23 final size:23
Alignment explanation
Indices: 29221042--29221110 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
29221032 TTTAGAAAGT
29221042 AAAATATAAATGAAACTTAAACC
1 AAAATATAAATGAAACTTAAACC
* *
29221065 AAAATAT-TATGAAA-GT-----
1 AAAATATAAATGAAACTTAAACC
29221081 AAAATATAAATGAAACTTAAACC
1 AAAATATAAATGAAACTTAAACC
29221104 AAAATAT
1 AAAATAT
29221111 TATAAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
16 7 0.20
17 6 0.17
18 1 0.03
21 1 0.03
22 6 0.17
23 14 0.40
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.25
Consensus pattern (23 bp):
AAAATATAAATGAAACTTAAACC
Found at i:29221079 original size:39 final size:39
Alignment explanation
Indices: 29221036--29221113 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
29221026 CACAAGTTTA
29221036 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
1 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
29221075 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
1 GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
29221114 AAATTACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (39 bp):
GAAAGTAAAATATAAATGAAACTTAAACCAAAATATTAT
Found at i:29249721 original size:9 final size:9
Alignment explanation
Indices: 29249707--29249735 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
29249697 TAAACAATTC
29249707 AATAATATA
1 AATAATATA
29249716 AATAATATA
1 AATAATATA
29249725 AATAATATA
1 AATAATATA
29249734 AA
1 AA
29249736 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:29250147 original size:9 final size:9
Alignment explanation
Indices: 29250133--29250169 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
29250123 TATAGTTTGA
29250133 TATTCGAAT
1 TATTCGAAT
29250142 TATTCGAAT
1 TATTCGAAT
* *
29250151 TATTTGAGT
1 TATTCGAAT
29250160 TATTCGAAT
1 TATTCGAAT
29250169 T
1 T
29250170 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29251843 original size:13 final size:13
Alignment explanation
Indices: 29251822--29251852 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29251812 TATTTTAATT
*
29251822 ATTTTCTAATAAA
1 ATTTCCTAATAAA
29251835 ATTTCCTAATAAA
1 ATTTCCTAATAAA
29251848 ATTTC
1 ATTTC
29251853 TGCCTGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCCTAATAAA
Found at i:29252585 original size:76 final size:75
Alignment explanation
Indices: 29252433--29252699 Score: 274
Period size: 76 Copynumber: 3.5 Consensus size: 75
29252423 TGCACATATA
* ** * *
29252433 TCGGGGAGGGCGAACTAATTTGGGGAAAAGAAATTCAGAAAAAAAAAGAAAGGGATTTTGGAAAA
1 TCGGGGAGGGGGAACTAATTTGGGGAAAAGAAATT--GGGAAAAAAAGAAAGGGGTTTGGGAAAA
29252498 AA-TTAAGGATT
64 AACTTAAGGATT
* * * * *
29252509 TTGTGGAGGGGGAATTAATTTGGGGAAAAGAAATTGGGGAAAAAAGAAAGGGGTCTGGGAAAGAA
1 TCGGGGAGGGGGAACTAATTTGGGGAAAAGAAATTGGGAAAAAAAGAAAGGGGTTTGGGAAA-AA
29252574 ACTT-AGAGATT
65 ACTTAAG-GATT
*
29252585 TCGGGGAGAAGGGGAACTGA-TTGTGGG-AAA-AAATTGGGAAAAAAAGAAAGGGGTTTGGGAAA
1 TCGGGGAG--GGGGAACTAATTTG-GGGAAAAGAAATTGGGAAAAAAAGAAAGGGGTTTGGG-AA
29252647 AAAACTTAAGGATT
62 AAAACTTAAGGATT
* * * *
29252661 TCGGGGAGAGGGGGAATTGATTTGGGAAAAAGAATTTGG
1 TC-GGG-GAGGGGGAACTAATTTGGGGAAAAGAAATTGG
29252700 AGTTTTAGGG
Statistics
Matches: 159, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
74 21 0.13
75 5 0.03
76 93 0.58
77 20 0.13
78 20 0.13
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (75 bp):
TCGGGGAGGGGGAACTAATTTGGGGAAAAGAAATTGGGAAAAAAAGAAAGGGGTTTGGGAAAAAA
CTTAAGGATT
Found at i:29253682 original size:29 final size:29
Alignment explanation
Indices: 29253640--29253698 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
29253630 AAAGTGCATG
29253640 TTAGAATCATTATGAAGATAACATTTCAT
1 TTAGAATCATTATGAAGATAACATTTCAT
*
29253669 TTAGAATCATTATGCAGATAACATTTCAT
1 TTAGAATCATTATGAAGATAACATTTCAT
29253698 T
1 T
29253699 AGGTTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
TTAGAATCATTATGAAGATAACATTTCAT
Found at i:29255484 original size:17 final size:19
Alignment explanation
Indices: 29255462--29255500 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
29255452 AATATTGACA
*
29255462 GATTGAA-GTTGTG-ATAT
1 GATTGAATGATGTGTATAT
29255479 GATTGAATGATGTGTATAT
1 GATTGAATGATGTGTATAT
29255498 GAT
1 GAT
29255501 GTATATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (19 bp):
GATTGAATGATGTGTATAT
Found at i:29256128 original size:138 final size:138
Alignment explanation
Indices: 29255859--29256113 Score: 361
Period size: 138 Copynumber: 1.8 Consensus size: 138
29255849 AGTTCTTGCC
* * **
29255859 TAGGTTCTCAACTCTTGCATATGTTGCGGACTAAAGGATACAGATTTAGGTTCCCAAATCCTGTA
1 TAGGTTCTCAACTCCTGCATATGTTGCGGACTAAAGAATACAGATTTAGGTTCCCAAATCCTACA
29255924 TACATTACAAACTGGAGAATACAGATTCAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAA
66 TACATTACAAACTGGAGAATACAGATTCAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAA
29255989 TACAGGTT
131 TACAGGTT
* * **
29255997 TAGGTTC-CAAGCTCCTGCATATGTTGCGGACTAGAGAATACAGGTTTAGGTTCCCAGCTCCTAC
1 TAGGTTCTCAA-CTCCTGCATATGTTGCGGACTAAAGAATACAGATTTAGGTTCCCAAATCCTAC
** * * *
29256061 ATATGTTGCAAACTGGAGAATACA-AGTTTAGGTTCCCAACTCCTGCATATGTT
65 ATACATTACAAACTGGAGAATACAGA-TTCAGGTTCCCAACTCCTACATATGTT
29256114 GTGGATTGGA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
137 4 0.04
138 98 0.96
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (138 bp):
TAGGTTCTCAACTCCTGCATATGTTGCGGACTAAAGAATACAGATTTAGGTTCCCAAATCCTACA
TACATTACAAACTGGAGAATACAGATTCAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAA
TACAGGTT
Found at i:29256139 original size:46 final size:46
Alignment explanation
Indices: 29255859--29256114 Score: 271
Period size: 46 Copynumber: 5.6 Consensus size: 46
29255849 AGTTCTTGCC
* * * * * * *
29255859 TAGGTTCTCAACTCTTGCATATGTTGCGGACTAAAGGATACAGATT
1 TAGGTTCCCAACTCCTACATATGTTGCAGACTAGAGAATACAGGTT
* ** ** * * * *
29255905 TAGGTTCCCAAATCCTGTATACATTACAAACTGGAGAATACAGATT
1 TAGGTTCCCAACTCCTACATATGTTGCAGACTAGAGAATACAGGTT
* *
29255951 CAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAATACAGGTT
1 TAGGTTCCCAACTCCTACATATGTTGCAGACTAGAGAATACAGGTT
* *
29255997 TAGGTT-CCAAGCTCCTGCATATGTTGCGGACTAGAGAATACAGGTT
1 TAGGTTCCCAA-CTCCTACATATGTTGCAGACTAGAGAATACAGGTT
* * * *
29256043 TAGGTTCCCAGCTCCTACATATGTTGCAAACTGGAGAATACAAGTT
1 TAGGTTCCCAACTCCTACATATGTTGCAGACTAGAGAATACAGGTT
*
29256089 TAGGTTCCCAACTCCTGCATATGTTG
1 TAGGTTCCCAACTCCTACATATGTTG
29256115 TGGATTGGAG
Statistics
Matches: 175, Mismatches: 33, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
45 4 0.02
46 168 0.96
47 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
TAGGTTCCCAACTCCTACATATGTTGCAGACTAGAGAATACAGGTT
Found at i:29257974 original size:15 final size:16
Alignment explanation
Indices: 29257956--29257991 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
29257946 ATCTGTTCTG
29257956 TTTCA-AATTTTACTT
1 TTTCATAATTTTACTT
29257971 TTTCATAATTTTACTT
1 TTTCATAATTTTACTT
29257987 TTTCA
1 TTTCA
29257992 CTTTCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTCATAATTTTACTT
Found at i:29258292 original size:51 final size:51
Alignment explanation
Indices: 29258216--29258406 Score: 190
Period size: 51 Copynumber: 3.8 Consensus size: 51
29258206 GATACCGTTT
* * * *
29258216 CACATAGTAGCCTGCACATAGTACTACACATGTGTCCATCA-CTAACCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCCGGTA
* *
29258267 CACATAGTAGCCTGCACATAGTACTACAAACGTGATCGA-AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCCGGTA
* * * * * * * **
29258318 CGCATAATAGCTTGCACATAGTACTACACATGCGACC-TATCTTTTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTA
* *
29258368 CACGTAGTAGCCTGCACAAAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
29258407 CACTTTCTAT
Statistics
Matches: 112, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
50 40 0.36
51 70 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTA
Found at i:29262302 original size:112 final size:112
Alignment explanation
Indices: 29262103--29262319 Score: 299
Period size: 112 Copynumber: 1.9 Consensus size: 112
29262093 GTAACACGCA
* * *
29262103 TATGACGAGTTCATTAGACAAGCACTAGATAACTAGCTGTCGTAATGGTATATAATAGGGAAAGC
1 TATGACGAGGTCATTAGACAACCACTAGATAACTAGCTGTCATAATGGTATATAATAGGGAAAGC
** * *
29262168 TCATTCATGGTACTTTATTAGAATTCCTCCATGACTAAATAGTTTTG
66 AAATTCATGATACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTG
* * * * *
29262215 TATGATGAGGTCATTAGACAACCACTAGATAAGTAGCTTTCATTATGGTATATAATAGGGAGAGC
1 TATGACGAGGTCATTAGACAACCACTAGATAACTAGCTGTCATAATGGTATATAATAGGGAAAGC
* **
29262280 AAATTCATGATACTTTGGTAGAATTCCTCTGTGACTAAAT
66 AAATTCATGATACTTTAGTAGAATTCCTCCATGACTAAAT
29262320 GATCTGCCAT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 90 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (112 bp):
TATGACGAGGTCATTAGACAACCACTAGATAACTAGCTGTCATAATGGTATATAATAGGGAAAGC
AAATTCATGATACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTG
Found at i:29263001 original size:148 final size:148
Alignment explanation
Indices: 29262733--29263020 Score: 576
Period size: 148 Copynumber: 1.9 Consensus size: 148
29262723 TCAACTTTAG
29262733 GACAAAAATTAAACACGAAACAGGGGTGTTTTGGTCTATACAATCAAACTTAAAGCTTGGGAACG
1 GACAAAAATTAAACACGAAACAGGGGTGTTTTGGTCTATACAATCAAACTTAAAGCTTGGGAACG
29262798 TCGTCTGGCCTAGGGTTAAGGACAATAGCCATCTGAATGCTATAAATAGGCTCCTTTGGCACATG
66 TCGTCTGGCCTAGGGTTAAGGACAATAGCCATCTGAATGCTATAAATAGGCTCCTTTGGCACATG
29262863 TTATGGACACTTTCCTTT
131 TTATGGACACTTTCCTTT
29262881 GACAAAAATTAAACACGAAACAGGGGTGTTTTGGTCTATACAATCAAACTTAAAGCTTGGGAACG
1 GACAAAAATTAAACACGAAACAGGGGTGTTTTGGTCTATACAATCAAACTTAAAGCTTGGGAACG
29262946 TCGTCTGGCCTAGGGTTAAGGACAATAGCCATCTGAATGCTATAAATAGGCTCCTTTGGCACATG
66 TCGTCTGGCCTAGGGTTAAGGACAATAGCCATCTGAATGCTATAAATAGGCTCCTTTGGCACATG
29263011 TTATGGACAC
131 TTATGGACAC
29263021 CATTCCATTA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 140 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (148 bp):
GACAAAAATTAAACACGAAACAGGGGTGTTTTGGTCTATACAATCAAACTTAAAGCTTGGGAACG
TCGTCTGGCCTAGGGTTAAGGACAATAGCCATCTGAATGCTATAAATAGGCTCCTTTGGCACATG
TTATGGACACTTTCCTTT
Found at i:29275194 original size:22 final size:23
Alignment explanation
Indices: 29275163--29275215 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
29275153 GGTAAGCAAC
*
29275163 ACTTCCTAATTACATCATATGTA
1 ACTTCCTAATTACAGCATATGTA
29275186 ACTT-CTAATTACAGCATATGTA
1 ACTTCCTAATTACAGCATATGTA
29275208 A-TTCCTAA
1 ACTTCCTAA
29275216 AGTTTGGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 22 0.79
23 4 0.14
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.38
Consensus pattern (23 bp):
ACTTCCTAATTACAGCATATGTA
Found at i:29275392 original size:12 final size:13
Alignment explanation
Indices: 29275375--29275403 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29275365 GTCATACACG
29275375 AATAAATAAA-GC
1 AATAAATAAATGC
29275387 AATAAATAAATGC
1 AATAAATAAATGC
29275400 AATA
1 AATA
29275404 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:29277940 original size:27 final size:27
Alignment explanation
Indices: 29277910--29278211 Score: 345
Period size: 27 Copynumber: 11.2 Consensus size: 27
29277900 GATTCGTGGG
29277910 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* **
29277937 AAAATTATCGAAATACCCTTAAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
29277964 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
*** * *
29277991 AAAATTATAAAAATACCCTCAAATGCGT
1 AAAATTACCGAAATACCCTCGAA-GGGT
* *
29278019 AAAATTATCGACATACCC-CGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
** * *
29278045 AAAATTACTAAAATACCCCCAAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
***
29278072 AAAATTATTAAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
29278099 AAAATTACCAAAATACCCTCGAAGGCT
1 AAAATTACCGAAATACCCTCGAAGGGT
** * *
29278126 AAAATTATAGAAATACCCTTGAAGGTT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
29278153 AAAATTACCGAAATACCCTCGAAGGCT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
29278180 AAAATTACCAAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
29278207 AAAAT
1 AAAAT
29278212 GACTGTTATA
Statistics
Matches: 232, Mismatches: 41, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 17 0.07
27 197 0.85
28 18 0.08
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:29279137 original size:20 final size:20
Alignment explanation
Indices: 29279112--29279154 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
29279102 TTCCAAACTT
29279112 AAGAAACAAGTTTTATCAAC
1 AAGAAACAAGTTTTATCAAC
*
29279132 AAGAAACGAGTTTTATCAAC
1 AAGAAACAAGTTTTATCAAC
29279152 AAG
1 AAG
29279155 TCTAAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (20 bp):
AAGAAACAAGTTTTATCAAC
Found at i:29291753 original size:19 final size:19
Alignment explanation
Indices: 29291719--29291755 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29291709 ATAGGAAATA
* *
29291719 GATTTGTGCTCTTTGGAAC
1 GATTTGTGCACCTTGGAAC
29291738 GATTTGTGCACCTTGGAA
1 GATTTGTGCACCTTGGAA
29291756 TGAATATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (19 bp):
GATTTGTGCACCTTGGAAC
Found at i:29294489 original size:8 final size:9
Alignment explanation
Indices: 29294462--29294489 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
29294452 TTCTAATATC
29294462 AATTATAAA
1 AATTATAAA
29294471 AATTATAAA
1 AATTATAAA
29294480 AATTATAAA
1 AATTATAAA
29294489 A
1 A
29294490 CCATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:29300801 original size:105 final size:104
Alignment explanation
Indices: 29300619--29300815 Score: 263
Period size: 105 Copynumber: 1.9 Consensus size: 104
29300609 GTGTGTCAGC
* * *
29300619 CCGTGTGAAAACTTCACCTATACTGTTTTGAAACACATTTAGGGTACACGCCCGTGTGGGTTGCC
1 CCGTGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGGGTTGCC
* *
29300684 TGTGCATATCACACGATCGTGTGACAGCCCATGACCCAGG
66 TGTGCA-ATCACACGACCGAGTGACAGCCCATGACCCAGG
* * * *
29300724 CCGTGTGAAAACTGT-ATCTATATTGTTTTGAAACACGTTCAGGGCACACGCCCATGTGTGTTGC
1 CCGTGTGAAAACT-TCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGGGTTG-
29300788 CCGTGTGC-ATCACACGACCGAGTGACAG
64 CC-TGTGCAATCACACGACCGAGTGACAG
29300816 TCCGTGTCCC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
105 72 0.90
106 3 0.04
107 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (104 bp):
CCGTGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGGGTTGCC
TGTGCAATCACACGACCGAGTGACAGCCCATGACCCAGG
Found at i:29304696 original size:30 final size:30
Alignment explanation
Indices: 29304662--29304724 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
29304652 ACTTATTTTA
29304662 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
29304692 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
29304722 TTG
1 TTG
29304725 CTTATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:29313865 original size:30 final size:31
Alignment explanation
Indices: 29313826--29313885 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
29313816 AAAGGTGGGA
*
29313826 TGGGAAGGGAATAAAAGTTTTAGGAGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
* * *
29313857 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAA
29313886 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
Found at i:29314187 original size:9 final size:9
Alignment explanation
Indices: 29314170--29314209 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
29314160 TCGAGTTGAT
29314170 TCGAATAAC
1 TCGAATAAC
*
29314179 TCGATTAAC
1 TCGAATAAC
29314188 TCGAATAAC
1 TCGAATAAC
*
29314197 TCAAATAAC
1 TCGAATAAC
29314206 TCGA
1 TCGA
29314210 TTCGTTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:29317146 original size:77 final size:78
Alignment explanation
Indices: 29317057--29317215 Score: 311
Period size: 77 Copynumber: 2.1 Consensus size: 78
29317047 CATCAATTAA
29317057 TTTATTTAGGTGTCAAAAATTATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTTTATAAA
1 TTTATTTAGGTGTCAAAAATTATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTTTATAAA
29317122 -TTTTTATAATTT
66 TTTTTTATAATTT
29317134 TTTATTTAGGTGTCAAAAATTATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTTTATAAA
1 TTTATTTAGGTGTCAAAAATTATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTTTATAAA
29317199 TTTTTTATAATTT
66 TTTTTTATAATTT
29317212 TTTA
1 TTTA
29317216 AAAATAGAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 65 0.80
78 16 0.20
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (78 bp):
TTTATTTAGGTGTCAAAAATTATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTTTATAAA
TTTTTTATAATTT
Found at i:29321390 original size:13 final size:13
Alignment explanation
Indices: 29321363--29321403 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
29321353 TTCTTTAACG
29321363 TTTTCTTTTTCTTC
1 TTTTC-TTTTCTTC
*
29321377 TTTTCTTTTGTTC
1 TTTTCTTTTCTTC
29321390 -TTTC-TTTCTTC
1 TTTTCTTTTCTTC
29321401 TTT
1 TTT
29321404 CACCTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 7 0.29
14 5 0.21
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTCTTTTCTTC
Found at i:29321424 original size:14 final size:14
Alignment explanation
Indices: 29321364--29321424 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 14
29321354 TCTTTAACGT
29321364 TTTCTTTTTC-TTC
1 TTTCTTTTTCTTTC
29321377 TTTTCTTTTGTTCTTTC
1 -TTTC-TTT-TTCTTTC
29321394 TTTCTTCTTTCACCTTTC
1 TTTCTT-TTT---CTTTC
29321412 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
29321425 TTGCTTGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
14 8 0.20
15 7 0.17
16 8 0.20
17 6 0.15
18 11 0.28
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:29324195 original size:40 final size:41
Alignment explanation
Indices: 29324150--29324246 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
29324140 ATCTTCAAGG
29324150 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
*
29324190 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
29324233 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
29324247 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 30 0.60
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:29324223 original size:19 final size:19
Alignment explanation
Indices: 29324149--29324220 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
29324139 AATCTTCAAG
29324149 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29324168 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
29324187 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
29324208 GATATGCAATCTT
1 GATATGCAATCTT
29324221 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:29329570 original size:15 final size:15
Alignment explanation
Indices: 29329552--29329580 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29329542 TATTCTAAAA
29329552 AAAAAGAAAAGAAAG
1 AAAAAGAAAAGAAAG
29329567 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
29329581 AAGGAGAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAG
Found at i:29331908 original size:43 final size:43
Alignment explanation
Indices: 29330965--29331958 Score: 320
Period size: 44 Copynumber: 22.6 Consensus size: 43
29330955 CATCGAAAGC
** * * *
29330965 GAAGCAGATCGAAGATACCAACCTTGCCTCCTTAGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * * ** * * *
29331008 GGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGACAGC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
29331053 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * * * ** * * **
29331096 GGAGCAGGTTGAATATAGCAGATCTTGTCTTCCTGTATCGACAAC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
29331141 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCG-T
* * ** * ** * ** *
29331185 G-AGCAGGTTGAAGATAGAAGATCTTGCCTTCCTGTATCGAAAGC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTG-TCGT
* * *
29331229 GAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * **** *
29331272 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * * * *
29331317 GAAGCAAATAGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * **** *
29331360 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * * * *
29331405 AAAGAAGATCAAAGATACCAG-CGTTGCCTCCCTGGGTTATAGT
1 GAAGCAGATCGAAGATACCAGTC-TTGCCTCCCTGGGTTGTCGT
* * * * * **** *
29331448 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * *
29331493 GAAGCAGATCGAAGATACCAGCCTTGCCTACCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * ** * * **
29331536 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAAC
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* * *
29331581 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * ** * *******
29331624 GGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCAAAAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTG-GGTTGTCGT
* * * * ** *
29331669 TAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGGATCATAGTT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCG-T
* * * * **** *
29331713 G-AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
29331757 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * **** *
29331800 GAAGCAGGTTGAAGGTAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTC-GT
* *
29331845 GAAGCAGATCAAAGGTACCAGTCTTGCCTCCCTGGGTTGTCGT
1 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
* * * * * * ** *
29331888 GAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGGCGT
1 GAAGCAGATCGAAGATACCAG-TCTTGCCTCCCTGGGTTGTCGT
* *
29331932 GAAGCAGATCAAAGATAGCAGATCTTG
1 GAAGCAGATCGAAGATACCAG-TCTTG
29331959 TCTTCATGTA
Statistics
Matches: 647, Mismatches: 277, Indels: 53
0.66 0.28 0.05
Matches are distributed among these distances:
43 191 0.30
44 283 0.44
45 173 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (43 bp):
GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTCGT
Found at i:29331910 original size:88 final size:88
Alignment explanation
Indices: 29330850--29331948 Score: 1552
Period size: 88 Copynumber: 12.5 Consensus size: 88
29330840 TTGTAGTTAA
* * * *
29330850 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAAATCGAAGATACCAGCCTTACCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
29330915 CTAGTGGAGCAGGTTGAATATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * * * *
29330938 CAGACCTTGCCTTCCTGCATCGAAAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCTTAGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
29331003 GTAGTGGAGCAGGTTGAATATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* *
29331026 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
29331091 GTAGTGGAGCAGGTTGAATATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* **
29331114 CAGATCTTGTCTTCCTGTATCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
29331179 GTAGTTGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * *
29331202 AAGATCTTGCCTTCCTGTATCGAAAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
29331267 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * *
29331290 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAAATAGAAGATACCAGCCTTGCCTCCCTGGGTC
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
29331355 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * *
29331378 CAGATCTTGCCTTCCTGTACCGACAGTAAAGAAGATCAAAGATACCAGCGTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
*
29331443 ATAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* *
29331466 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTACCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
29331531 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* ** *
29331554 CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
29331619 GTAGTGGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * * * * *
29331642 TAGATCTTGCCTTCCTGTACCAAAAGTTAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGGATC
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
29331707 ATAGTTGAGCAGGTTGAAGATAG
66 GTAGTGGAGCAGGTTGAAGATAG
*
29331730 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
29331795 GTAGTGAAGCAGGTTGAAGGTAG
66 GTAGTGGAGCAGGTTGAAGATAG
* * * *
29331818 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGGTACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* * * * * * *
29331883 GTCGTGAAGTAGATCGAAGAAAC
66 GTAGTGGAGCAGGTTGAAGATAG
* * * * * *
29331906 CAGATATTGTCTTCATGTATTGGC-GTGAAGCAGATCAAAGATA
1 CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATA
29331949 GCAGATCTTG
Statistics
Matches: 917, Mismatches: 94, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
87 18 0.02
88 899 0.98
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
GTAGTGGAGCAGGTTGAAGATAG
Found at i:29331941 original size:44 final size:44
Alignment explanation
Indices: 29331885--29332315 Score: 422
Period size: 44 Copynumber: 9.8 Consensus size: 44
29331875 CCTGGGTTGT
* *
29331885 CGTGAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * *
29331929 CGTGAAGCAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * *** *
29331973 CGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * * * *
29332017 TGGCGAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATTTG
1 -CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
29332062 AGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
29332106 TGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTTATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
29332150 CATGAAGTAGATCGAAGAGAGCATATCTTGTCTTCCCATACTGA-TGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT--CAT-GT-ATTGG
*
29332197 C--GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT-G
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * **
29332238 -GTAAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * * **
29332281 CATGAAATAGACCAAAGGTAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
29332316 CCATACTGGT
Statistics
Matches: 317, Mismatches: 60, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 36 0.11
43 4 0.01
44 207 0.65
45 60 0.19
46 2 0.01
47 5 0.02
48 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:29331958 original size:88 final size:88
Alignment explanation
Indices: 29330965--29332310 Score: 539
Period size: 88 Copynumber: 15.3 Consensus size: 88
29330955 CATCGAAAGC
* * * * * * * *
29330965 GAAGCAGATCGAAGATACCA-ACCTTGCCTCCTTAGG-TTGTAGTGGAGCAGGTTGAATATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCAT-GGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * * *
29331028 GATCTTGCCTTCCTGCA-TCGACAGC
65 GATCTTGTCTTCATGTACT-GGC-GT
* * * * * * * * *
29331053 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * **
29331117 ATCTTGTCTTCCTGTA-TCGACAAC
66 ATCTTGTCTTCATGTACT-GGC-GT
* * * * * * * *
29331141 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTTG-AGCAGGTTGAAGATAGAA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAG-TGAAGTAGATCGAAGATAGCA
* * ** *
29331204 GATCTTGCCTTCCTGTA-TCGAAAGC
65 GATCTTGTCTTCATGTACT-G-GCGT
* * * * * * * *
29331229 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * * *
29331293 ATCTTGCCTTCCTGTACCGACAGT
66 ATCTTGTCTTCATGTACTGGC-GT
* * * * * * * * *
29331317 GAAGCAAAT-AGAAGATACCAG-CCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCA
1 GAAGCAGATCA-AAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * *
29331380 GATCTTGCCTTCCTGTACCGACAGT
65 GATCTTGTCTTCATGTACTGGC-GT
* * * * * * * * *
29331405 AAAGAAGATCAAAGATACCAG--CGTTGCCTCCCTGGGTTATAGTGGAGCAGGTTGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATC-TTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * *
29331468 GATCTTGCCTTCCTGTACCGACAGT
65 GATCTTGTCTTCATGTACTGGC-GT
* * * * * * *
29331493 GAAGCAGATCGAAGATACCAG-CCTTGCCTACC-TGGGTTGTAGTGGAGCAGGTTGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCT-CCATGGATTGTAGTGAAGTAGATCGAAGATAGCA
* * * * **
29331556 GATCTTGCCTTCCTGCA-TCGACAAC
65 GATCTTGTCTTCATGTACT-GGC-GT
* * * * * * * *
29331581 GAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * ****
29331645 ATCTTGCCTTCCTGTACCAAAAGT
66 ATCTTGTCTTCATGTA-CTGGCGT
* * * * * ** * * *
29331669 TAAGTAGATCGAAGATACCAG-CCTTGCCTCCCTGGATCATAGTTG-AGCAGGTTGAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAG-TGAAGTAGATCGAAGATAGCA
* * * *
29331732 GATCTTGCCTTCCTGTACCGACAGT
65 GATCTTGTCTTCATGTACTGGC-GT
* * * * * * * *
29331757 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAAGGTAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * * *
29331821 ATCTTGCCTTCCTGTACCGACAGT
66 ATCTTGTCTTCATGTACTGGC-GT
* * * * * *
29331845 GAAGCAGATCAAAGGTACCAG-TCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGAAACCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* *
29331909 ATATTGTCTTCATGTATTGGCGT
66 ATCTTGTCTTCATGTACTGGCGT
* * * * ** *
29331932 GAAGCAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
*** * *
29331997 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCATGTACTGG-CGT
* ** * * ** * * *
29332021 GAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATT-TGAGTGAAGTAGATCAAAGATAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGT-AGTGAAGTAGATCGAAGATAGCA
* * *
29332085 GATCTTGTTTTCATGTATTGGTGT
65 GATCTTGTCTTCATGTACTGGCGT
* * * ** * * *
29332109 GAAGTAGATCAAAGATAGCAGATCTTGTCTTTATGTATTGGCA-TGAAGTAGATCGAAGAGAGCA
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATT-GTAGTGAAGTAGATCGAAGATAGCA
* *** *
29332173 TATCTTGTCTTCCCATACTGATG-GC
65 GATCTTGTCTTCATGTACTG--GCGT
* * * ** * * * * *
29332198 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTG--GTAAAGTAGATCGAAGAAAGCAG
1 GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
* * *
29332261 ATCTTATCTTCATGTACCGGCAT
66 ATCTTGTCTTCATGTACTGGCGT
** * * *
29332284 GAAATAGACCAAAGGTAGCAGATCTTG
1 GAAGCAGATCAAAGATACCAGATCTTG
29332311 TCTTCCCATA
Statistics
Matches: 1088, Mismatches: 142, Indels: 58
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.00
86 21 0.02
87 66 0.06
88 882 0.81
89 117 0.11
90 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
GAAGCAGATCAAAGATACCAGATCTTGCCTCCATGGATTGTAGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCATGTACTGGCGT
Found at i:29332052 original size:133 final size:133
Alignment explanation
Indices: 29331888--29332139 Score: 405
Period size: 133 Copynumber: 1.9 Consensus size: 133
29331878 GGGTTGTCGT
* *
29331888 GAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGGCGTGAAGCAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAACCAGATATTATCTTCATGTATTGGAGTGAAGCAGATCAAAGATAGCAG
*
29331953 ATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
29332018 GGC
131 GGC
* * * * *
29332021 GAAGTAGATTGAAGAAATCAGATCTTATCTTCATGTATTTGAGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAACCAGATATTATCTTCATGTATTGGAGTGAAGCAGATCAAAGATAGCAG
* * *
29332086 ATCTTGTTTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
66 ATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGCAGATCTTGTCTT
29332140 TATGTATTGG
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 108 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAACCAGATATTATCTTCATGTATTGGAGTGAAGCAGATCAAAGATAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGC
Found at i:29332126 original size:177 final size:175
Alignment explanation
Indices: 29331886--29332315 Score: 619
Period size: 177 Copynumber: 2.4 Consensus size: 175
29331876 CTGGGTTGTC
* * *
29331886 GTGAAGTAGATCGAAGAAACCAGATATTGTCTTCATGTATTGGCGTGAAGCAGATCAAAGATAGC
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
* *
29331951 AGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
66 AGATCTTGTCTTCATGTATTGGCATGAAATAGATCGAAGAGAGCAGATCTTGTCTTCCCATACTG
* *
29332016 GTGGCGAAGTAGATTGAAGAAA-TCAGATCTTATCTTCATGTATTTG
131 ATGGCGAAGTAGATCGAAGAAAGT-AGATCTTATCTTCATGTA-TTG
* * * *
29332062 AGTGAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCAAAGATAG
1 -GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
* * *
29332127 CAGATCTTGTCTTTATGTATTGGCATGAAGTAGATCGAAGAGAGCATATCTTGTCTTCCCATACT
65 CAGATCTTGTCTTCATGTATTGGCATGAAATAGATCGAAGAGAGCAGATCTTGTCTTCCCATACT
*
29332192 GATGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTG
130 GATGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATTG
* * ** * * * *
29332238 GTAAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGGTAGC
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
29332303 AGATCTTGTCTTC
66 AGATCTTGTCTTC
29332316 CCATACTGGT
Statistics
Matches: 224, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
175 65 0.29
176 3 0.01
177 155 0.69
178 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (175 bp):
GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
AGATCTTGTCTTCATGTATTGGCATGAAATAGATCGAAGAGAGCAGATCTTGTCTTCCCATACTG
ATGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATTG
Found at i:29332286 original size:131 final size:133
Alignment explanation
Indices: 29332065--29332343 Score: 384
Period size: 131 Copynumber: 2.1 Consensus size: 133
29332055 GTATTTGAGT
* * * * *
29332065 GAAGTAGATCAAAGATAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCAAAGAAAGCAG
* * ** * * * *
29332130 ATCTTGTCTTTATGTATTGGCATGAAGTAGATCGAAGAG-AGCATATCTTGTCTTCCCATACTGA
66 ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAG-GTAGCAGATCTTGTCTTCCCATACTGA
29332194 TGGC
130 TGGC
* *
29332198 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT-G-GTAAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCAAAGAAAGCAG
*
29332261 ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTGAT
29332326 GGC
131 GGC
29332329 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
29332344 TACAAGTCTT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
130 1 0.01
131 92 0.71
132 1 0.01
133 35 0.27
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCAAAGAAAGCAG
ATCTTATCTTCATGTACCGGCATGAAATAGACCAAAGGTAGCAGATCTTGTCTTCCCATACTGAT
GGC
Found at i:29332761 original size:19 final size:19
Alignment explanation
Indices: 29332691--29332758 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
29332681 CTTTAAGGAT
29332691 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
29332710 TGCAATCTTAGATATAATATA
1 TGCAATCTTAGATAT--GATA
*
29332731 TGCAATCTTGGATATGATA
1 TGCAATCTTAGATATGATA
29332750 TGCAATCTT
1 TGCAATCTT
29332759 GGAAGATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 27 0.61
21 17 0.39
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:29338244 original size:149 final size:150
Alignment explanation
Indices: 29337974--29338275 Score: 597
Period size: 149 Copynumber: 2.0 Consensus size: 150
29337964 AACCAAATCC
29337974 AAAAGTTAGAAAATCTAGCATTTGGTTTTTCAAAAAGCTAATTTGAGTGCCAAATCATTAATTTT
1 AAAAGTTAGAAAATCTAGCATTTGGTTTTTCAAAAAGCTAATTTGAGTGCCAAATCATTAATTTT
29338039 CTTCTCATTTATATAAATTAAAAATTAAAATATAATTGATATATTCAAATTAAATTTTATAAATA
66 CTTCTCATTTATATAAATTAAAAATTAAAATATAATTGATATATTCAAATTAAATTTTATAAATA
29338104 ATTTATATTA-TTATTAAAA
131 ATTTATATTAGTTATTAAAA
29338123 AAAAGTTAGAAAATCTAGCATTTGGTTTTTCAAAAAGCTAATTTGAGTGCCAAATCATTAATTTT
1 AAAAGTTAGAAAATCTAGCATTTGGTTTTTCAAAAAGCTAATTTGAGTGCCAAATCATTAATTTT
29338188 CTTCTCATTTATATAAATTAAAAATTAAAATATAATTGATATATTCAAATTAAATTTTATAAATA
66 CTTCTCATTTATATAAATTAAAAATTAAAATATAATTGATATATTCAAATTAAATTTTATAAATA
29338253 ATTTATATTAGTTATTAAAA
131 ATTTATATTAGTTATTAAAA
29338273 AAA
1 AAA
29338276 GTAGTTAAAT
Statistics
Matches: 152, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
149 140 0.92
150 12 0.08
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (150 bp):
AAAAGTTAGAAAATCTAGCATTTGGTTTTTCAAAAAGCTAATTTGAGTGCCAAATCATTAATTTT
CTTCTCATTTATATAAATTAAAAATTAAAATATAATTGATATATTCAAATTAAATTTTATAAATA
ATTTATATTAGTTATTAAAA
Found at i:29343264 original size:14 final size:13
Alignment explanation
Indices: 29343245--29343270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29343235 TTAGTCTTTA
29343245 TTTTTTTCTATTG
1 TTTTTTTCTATTG
29343258 TTTTTTTCTATTG
1 TTTTTTTCTATTG
29343271 AAATAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTATTG
Found at i:29344394 original size:15 final size:15
Alignment explanation
Indices: 29344374--29344408 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
29344364 TTTCTATGAC
29344374 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
29344389 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
29344404 ATTGT
1 ATTGT
29344409 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:29355170 original size:25 final size:26
Alignment explanation
Indices: 29355123--29355171 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
29355113 CAGAATTTGT
29355123 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTTGTAATACTTTATTCTTCA
29355149 TTGTTCTTG-AATATCTTT-TTCTT
1 TTGTTCTTGTAATA-CTTTATTCTT
29355172 TTCAAGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.61
Consensus pattern (26 bp):
TTGTTCTTGTAATACTTTATTCTTCA
Found at i:29356129 original size:133 final size:132
Alignment explanation
Indices: 29355836--29356584 Score: 697
Period size: 133 Copynumber: 5.7 Consensus size: 132
29355826 CTAAAAAAAA
* * * * *
29355836 AGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATA-AAGATCCTGTCTTCCTATA
* * *
29355901 -T--TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCT-TACTGGTGGTGAAGTAGATCGA
65 CTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT-CATGTATTGGTAGTGAAGTAGATCGA
*
29355962 AGAA
129 AGAT
* * * *
29355966 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAA-AGATCCTGTCTTCCTATA
* * * *
29356031 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGG-CGTGAAATAAATCGAA
65 CTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGGTAGTGAAGTAGATCGAA
29356095 GAT
130 GAT
* * ** *
29356098 AGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCT-T
1 AGCAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAAAGATCCTGTCTT-CCTAT
* * * * *
29356162 ACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGT-GTGAAGTAGATCG
64 ACTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTATTGGTAGTGAAGTAGATCG
29356226 AAGAT
128 AAGAT
* * * * * * * *
29356231 AACAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAA-ATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTATATT-GGAGTGAAGTAGATCGAAGAT-AAAGATCCTGTCTTCCTAT
* * * ** * * * *
29356295 ACTGGTGGCGAAGTAGATCGAAGATAACAGATCCAGTCTTCCTATATTGGTAGCGAAGTGGATCG
64 ACTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTATTGGTAGTGAAGTAGATCG
29356360 AAGAT
128 AAGAT
* * *
29356365 -GCAGATCTTATCTTCCCATATTGGAGTGAAGTAGATCGAAGATAGAAGATCCTGTCTTCCAATA
1 AGCAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATA-AAGATCCTGTCTTCCTATA
* * *** * * *
29356429 TTGGTAGCAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
65 CTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGGTAGTGAAGTAGATCGAA
*
29356494 GAA
130 GAT
* * * * * * * * * * *
29356497 AGCGGATCTTGTCTTCATGTATTGGCGTGACGTAGATAGAAAATAGCAGATCTTGCCTTCCTGTA
1 AGCAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATA-AAGATCCTGTCTTCCTATA
* * **
29356562 CTGGCAGTGAAGCAGATCGAAGA
65 CTGGTAGCGAAGTGGATCGAAGA
29356585 CATTAGTCTT
Statistics
Matches: 519, Mismatches: 83, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
130 61 0.12
131 1 0.00
132 128 0.25
133 311 0.60
134 18 0.03
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
AGCAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAAAGATCCTGTCTTCCTATAC
TGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGGTAGTGAAGTAGATCGAAG
AT
Found at i:29356175 original size:177 final size:178
Alignment explanation
Indices: 29355862--29356584 Score: 731
Period size: 177 Copynumber: 4.1 Consensus size: 178
29355852 ATGTATTAGC
* * *
29355862 GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGC--GAAGTGGATCGAAGATGCA
1 GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCATATATTGGCGTGAAATGGATCGAAGATGCA
* * * *
29355925 GATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
66 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTG
* *
29355990 G-CGTGAAGTAGATCGAAGATAATAGATCCTATCTTCCTATATTGGTA
131 GTAGTGAAGTAGATCGAAGATAACAGATCCTATCTTCCTATATTGGTA
* * * * **
29356037 GCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTATTGGCGTGAAATAAATCGAAGATAGC
1 GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCATATATTGGCGTGAAATGGATCGAAGAT-GC
* * * * * * * *
29356101 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCT-TAC
65 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT-CCTATAT
* * * *
29356164 TGGTGGTGAAGTAGATCGAAGA-AAGCAGAT-CTCGTCTTCATGTATTGGT-
129 TGGTAGTGAAGTAGATCGAAGATAA-CAGATCCT-ATCTTCCTATATTGGTA
* * ** * *
29356213 GTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGC
1 GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCATATATT-GGCGTGAAATGGATCGAAGATGC
* **
29356278 AAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAA-CAGATCCAGTCTTCCTATAT
65 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCCTATAT
* * * * *
29356342 TGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTATCTTCCCATATTGG-A
129 TGGTAGTGAAGTAGATCGAAGATAACAGATCCTATCTTCCTATATTGGTA
*
29356390 GTGAAGTAGATCGAAGATAGAAGATCCTGTCTTCCA-ATATT-G-GTAGCAAAGTGGATCGAAGA
1 GTGAAGTAGATCGAAGATAGCAGATCCTGTCTT-CATATATTGGCGT-G-AAA-TGGATCGAAGA
* * *
29356452 TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTGTCTTCATGT
62 TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTAT
* * * * * * ** * * *
29356517 ATTGG-CGTGACGTAGATAGAAAATAGCAGATCTTGCCTTCCTGTACTGGCA
127 ATTGGTAGTGAAGTAGATCGAAGATAACAGATCCTATCTTCCTATATTGGTA
*
29356568 GTGAAGCAGATCGAAGA
1 GTGAAGTAGATCGAAGA
29356585 CATTAGTCTT
Statistics
Matches: 447, Mismatches: 79, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
174 22 0.05
175 17 0.04
176 70 0.16
177 271 0.61
178 66 0.15
179 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (178 bp):
GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCATATATTGGCGTGAAATGGATCGAAGATGCA
GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTG
GTAGTGAAGTAGATCGAAGATAACAGATCCTATCTTCCTATATTGGTA
Found at i:29356219 original size:221 final size:221
Alignment explanation
Indices: 29355837--29356558 Score: 981
Period size: 221 Copynumber: 3.3 Consensus size: 221
29355827 TAAAAAAAAA
*
29355837 GCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA-
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
29355901 T--TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAG
66 TGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAG
* * * *
29355964 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAGATCCTATCTTCCTA
131 AAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
29356029 TATTGGTAGCGAAGTGGATCGAAGAT
196 TATTGGTAGCGAAGTGGATCGAAGAT
* *
29356055 GCAGATCTTGTCTTCATGTATTGGCGTGAAATAAATCGAAGATAGCAGATCCTGTCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
*
29356120 TGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAG
66 TGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAG
29356185 AAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
131 AAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
*
29356250 TATTAGTAGCGAAGTGGATCGAAGAT
196 TATTGGTAGCGAAGTGGATCGAAGAT
* *** * * * * *
29356276 GCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCCAGTCTTCCTATA
1 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * *
29356341 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATATTGG-AGTGAAGTAGATCGAA
65 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAA
* * * ** * * *
29356405 GATAGAAGATC-CTGTCTTCCA-ATATTGGTAGCAAAGTGGATCGAAGAT-GCAGATCTTGTCTT
130 GAAAGCAGATCTC-GTCTT-CATGTATTGGT-GTGAAGTAGATCGAAGATAACAGATCCTGTCTT
* * * * *
29356467 CCCATACTGGTGGCGAAGTAGATCGAAGAAA
192 CCTATATTGGTAGCGAAGTGGATCGAAG-AT
* * * * * *
29356498 GCGGATCTTGTCTTCATGTATTGGCGTGACGTAGATAGAAAATAGCAGATCTTGCCTTCCT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
29356559 GTACTGGCAG
Statistics
Matches: 442, Mismatches: 54, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
218 61 0.14
219 1 0.00
220 1 0.00
221 265 0.60
222 114 0.26
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (221 bp):
GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
TGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAG
AAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
TATTGGTAGCGAAGTGGATCGAAGAT
Found at i:29356492 original size:310 final size:309
Alignment explanation
Indices: 29355864--29356584 Score: 932
Period size: 310 Copynumber: 2.3 Consensus size: 309
29355854 GTATTAGCGT
* * * * *
29355864 GAAGTAGATCGAAGATAGCAGATC-CTGTCTTCCTATATT--AGCGAAGTGGATCGAAGAT-GCA
1 GAAGTAGATCGAAGAAAGCAGATCTC-GTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAGCA
* * * * ** *
29355925 GATCTTGTCTTCCCTTACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
65 GATCTTGTCTT-CCTTACTAGTAGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCACATACTG
* *
29355990 GCGTGAAGTAGATCGAAGATAATAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
129 GCGCGAAGTAGATCGAAGATAACAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
* ** * * *
29356055 GCAGATCTTGTCTTCATGTATTGGCGTGAAATAAATCGAAGATAGCAGATCCTGTCTTCCTATAT
194 GCAGATCTTATCTTCACATATTGGAGTGAAATAAATCGAAGATAGAAGATCCTGTCTTCCAATAT
** * *
29356120 TGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCTTACTGGTGGT
259 TGGTAGCAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
* *
29356171 GAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAGCAG
* * * * *
29356236 ATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAG-ATGCAAATCTTGTCTTCCCATACTGG
66 ATCTTGTCTTCCT-TACTAGTAGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCACATACTGG
*
29356300 TGGCGAAGTAGATCGAAGATAACAGATCC-AGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGA
130 -CGCGAAGTAGATCGAAGATAACAGATCCTA-TCTTCCTATATTGGTAGCGAAGTGGATCGAAGA
* * *
29356364 TGCAGATCTTATCTTCCCATATTGGAGTGAAGTAGATCGAAGATAGAAGATCCTGTCTTCCAATA
193 TGCAGATCTTATCTTCACATATTGGAGTGAAATAAATCGAAGATAGAAGATCCTGTCTTCCAATA
29356429 TTGGTAGCAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
258 TTGGTAGCAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
* * * * * *
29356481 GAAGTAGATCGAAGAAAGCGGATCTTGTCTTCATGTATTGGCGTGACGTAGATAGAAAATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAGCAG
* * * * *
29356546 ATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAGA
66 ATCTTGTCTTCCT-TACTAGTAGCGAAGTAGATCGAAGA
29356585 CATTAGTCTT
Statistics
Matches: 355, Mismatches: 51, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
307 34 0.10
308 1 0.00
309 40 0.11
310 280 0.79
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (309 bp):
GAAGTAGATCGAAGAAAGCAGATCTCGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCCTTACTAGTAGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCACATACTGGC
GCGAAGTAGATCGAAGATAACAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGC
AGATCTTATCTTCACATATTGGAGTGAAATAAATCGAAGATAGAAGATCCTGTCTTCCAATATTG
GTAGCAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
Found at i:29358958 original size:27 final size:27
Alignment explanation
Indices: 29358910--29358962 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
29358900 CATGTCATCG
* * *
29358910 TTTATTTTTTTTATGTATATTAGTTTCA
1 TTTATTTTATTTATATACATTA-TTTCA
29358938 TTTA-TTTATTTATATACATTATTTC
1 TTTATTTTATTTATATACATTATTTC
29358963 TATGACATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTATATACATTATTTCA
Found at i:29358989 original size:15 final size:15
Alignment explanation
Indices: 29358969--29359003 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
29358959 TTTCTATGAC
29358969 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
29358984 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
29358999 ATTGT
1 ATTGT
29359004 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:29362066 original size:40 final size:40
Alignment explanation
Indices: 29362010--29362448 Score: 378
Period size: 40 Copynumber: 10.7 Consensus size: 40
29362000 CTTTAACCTA
* *
29362010 CTCCACTACTGTTTAGGGAGATAAGACTTGAGGGGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
* *
29362050 CTCCACTACTACTTAGGGAGATAAGACTTGAGGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
* *
29362090 CTCCACTACTGCTTAAGGAGATAAGA-TATGTGGTTTTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT-TGAGG---TGATCTG
29362132 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
* *
29362172 CTCCACTACTGCTTAGGGGGATAAGATCTGTG-GTTCTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG--GTGATCTG
** * *
29362214 CTCCACTACTTATTAGGGAGATAAGACTTGAGGCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
*
29362254 CTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-TCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG--GTGATCTG
* * * *
29362296 CTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTAATCCG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGG---TGATCTG
* *
29362339 CTCCACTGTAACT--TTAGGGAGATAGGA-TTG-GTTTTTTTCG-TCTG
1 CTCCAC--T-ACTGCTTAGGGAGATAAGACTTGAG-----GT-GATCTG
* * *
29362383 CTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
*
29362423 CTCCACTATTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
29362449 TCTGTGGTTT
Statistics
Matches: 327, Mismatches: 37, Indels: 70
0.75 0.09 0.16
Matches are distributed among these distances:
39 5 0.02
40 153 0.47
41 14 0.04
42 96 0.29
43 29 0.09
44 26 0.08
45 1 0.00
46 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (40 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTG
Found at i:29362149 original size:82 final size:82
Alignment explanation
Indices: 29362046--29362459 Score: 546
Period size: 82 Copynumber: 5.0 Consensus size: 82
29362036 CTTGAGGGGA
* *
29362046 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAAGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
29362111 TAAGATATGTGGTTTTG
66 TAAGATCTGTGGTTTTG
* *
29362128 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGTGATCTGCTCCACTACTGCTTAGGGGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
29362193 TAAGATCTGTGGTTCTG
66 TAAGATCTGTGGTTTTG
** *
29362210 TCTGCTCCACTACTTATTAGGGAGATAAGACTTGAGGCGATCTACTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
29362275 TAAGATCTGTGGTTCTG
66 TAAGATCTGTGGTTTTG
* * ** *
29362292 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGTAACT--TTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGG---CGATCTGCTCCAC--T-ACTGCTTA
* **
29362355 GGGAGATAGGAT-TGGTTTTTTTCG
60 GGGAGATAAGATCT-GTGGTTTT-G
* * *
29362379 TCTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
29362444 TAAGATCTGTGGTTTT
66 TAAGATCTGTGGTTTT
29362460 AATCCGCTCC
Statistics
Matches: 287, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
81 2 0.01
82 187 0.65
83 20 0.07
84 11 0.04
85 10 0.03
86 19 0.07
87 35 0.12
88 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (82 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTG
Found at i:29362531 original size:127 final size:127
Alignment explanation
Indices: 29362026--29362535 Score: 392
Period size: 127 Copynumber: 4.1 Consensus size: 127
29362016 TACTGTTTAG
* * * ***
29362026 GGAGATAAGACTTGAGGGGATCTGCTCCACTACTACTTAGGGAGATAAGA-CT-TGAG--GCGAT
1 GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTTTAAT
* * ** * * ** ** *
29362087 CTGCTCCACTACTGCTTAAG-GAGATAAGATAT-GTGGTTTT-GTCTGCTCCACTACTGCTTAG
65 CCGCTCCACTGCAACTTCAGAGAGATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACAACTTAC
* * * * *
29362148 GGAGATAAGACTTGAGGTGATCTGCTCCACTACTGCTTAGGGGGATAAGATCTGTGGTTCT-GTC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
* * * * * * * **
29362212 TGCTCCACTACTTA-TT-AGGGAGATAAGACTTGAG------GCGATCTACTCCACTACTGCTTA
66 CGCTCCACTGC-AACTTCAGAGAGATAGGA-TTG-GTTTTTTTCG-TCTGCTCCACTACAACTTA
*
29362269 G
127 C
* * *
29362270 GGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTA
1 GGAGATAAGA-CT-TGATGC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTA
* * * **
29362334 ATCCGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACTGCTTAC
63 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACAACTTAC
*
29362399 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
* * *
29362464 CGCTCCACTGCAACTTCAGAGAGATAGGA-TGGTTTTTTTTGTCTGCTCTACTGCAACTT-C
66 CGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACAACTTAC
29362524 AGAGAGATAAGA
1 -G-GAGATAAGA
29362536 TCTGTTTTCT
Statistics
Matches: 325, Mismatches: 37, Indels: 47
0.79 0.09 0.11
Matches are distributed among these distances:
121 1 0.00
122 76 0.23
123 7 0.02
124 69 0.21
125 19 0.06
126 39 0.12
127 82 0.25
128 2 0.01
129 28 0.09
130 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (127 bp):
GGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATC
CGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACAACTTAC
Found at i:29362601 original size:44 final size:44
Alignment explanation
Indices: 29362534--29362805 Score: 233
Period size: 44 Copynumber: 6.2 Consensus size: 44
29362524 AGAGAGATAA
* * * * *
29362534 GATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAG
* * * **
29362579 GATCTGC-ATATTCGATCCACTTCCTAGAAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
* * * * * * *
29362622 GACCTACTATCTTCGATCTACTTCACGCCAATACATGAAAACAG
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
* * * * *
29362666 GATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAG
* * *
29362711 GATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
* * * * * *
29362754 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
29362798 GATCTGCT
1 GATCTGCT
29362806 TTAATGACTT
Statistics
Matches: 174, Mismatches: 50, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
43 40 0.23
44 111 0.64
45 23 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAG
Found at i:29362702 original size:132 final size:132
Alignment explanation
Indices: 29362532--29362807 Score: 462
Period size: 132 Copynumber: 2.1 Consensus size: 132
29362522 TCAGAGAGAT
**
29362532 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
1 AAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
*
29362597 ACTTCCTAGAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
66 ACTTCCTACAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
29362662 AC
131 AC
* * *
29362664 AGGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCC
1 AAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
* * *
29362729 ACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
66 ACTTCCTACAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
29362794 AC
131 AC
*
29362796 AAGATCTGCTTT
1 AAGATCTACTTT
29362808 AATGACTTCA
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
AAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCC
ACTTCCTACAAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAA
AC
Found at i:29363185 original size:24 final size:25
Alignment explanation
Indices: 29363133--29363186 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
29363123 ATTGCCCCCA
29363133 CTGTAATCTTCAAAGTTCAATCCGT
1 CTGTAATCTTCAAAGTTCAATCCGT
*
29363158 -TGTAATCTTCAAGGTT-AAGTCC-T
1 CTGTAATCTTCAAAGTTCAA-TCCGT
29363181 CTGTAA
1 CTGTAA
29363187 ATTTGGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (25 bp):
CTGTAATCTTCAAAGTTCAATCCGT
Found at i:29364052 original size:12 final size:13
Alignment explanation
Indices: 29364031--29364059 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29364021 CGCCTCTCCA
29364031 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
29364044 TTTTC-TTTTCTT
1 TTTTCTTTTTCTT
29364056 TTTT
1 TTTT
29364060 TTCGTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:29364061 original size:14 final size:13
Alignment explanation
Indices: 29364031--29364075 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
29364021 CGCCTCTCCA
*
29364031 TTTTCTTTTTCTT
1 TTTTCTTTTTTTT
29364044 TTTTCTTTTCTTTT
1 TTTTCTTTT-TTTT
* *
29364058 TTTTCGTTTGTTT
1 TTTTCTTTTTTTT
29364071 TTTTC
1 TTTTC
29364076 AAGTGAAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:29364522 original size:9 final size:9
Alignment explanation
Indices: 29364508--29364568 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
29364498 CCAGTAGAGG
29364508 TTTTTTGTT
1 TTTTTTGTT
*
29364517 TTTTTTGTC
1 TTTTTTGTT
*
29364526 TCTTTTGTT
1 TTTTTTGTT
29364535 CTTTTTT-TT
1 -TTTTTTGTT
*
29364544 TGTTTTTGTG
1 T-TTTTTGTT
*
29364554 TTTTTGGTT
1 TTTTTTGTT
29364563 TTTTTT
1 TTTTTT
29364569 TGCCTCCACT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
8 1 0.02
9 33 0.80
10 7 0.17
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:29364549 original size:28 final size:25
Alignment explanation
Indices: 29364506--29364569 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
29364496 CCCCAGTAGA
*
29364506 GGTTTTTTGTTTTTTTTGTCTCTTTT
1 GGTTTTTTTTTTTTTTTGTCT-TTTT
* *
29364532 GTTCTTTTTTTTTGTTTTTGTGTTTTT
1 GGT-TTTTTTTTT-TTTTTGTCTTTTT
29364559 GGTTTTTTTTT
1 GGTTTTTTTTT
29364570 GCCTCCACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 8 0.25
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.80
Consensus pattern (25 bp):
GGTTTTTTTTTTTTTTTGTCTTTTT
Found at i:29372519 original size:12 final size:12
Alignment explanation
Indices: 29372504--29372544 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
29372494 AATAAAATAC
29372504 TTAATAATAAAA
1 TTAATAATAAAA
29372516 TTAA-ATATAATAA
1 TTAATA-ATAA-AA
29372529 TTAATAATAAAA
1 TTAATAATAAAA
29372541 TTAA
1 TTAA
29372545 ATATGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 14 0.54
13 10 0.38
14 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAATAATAAAA
Found at i:29372548 original size:25 final size:25
Alignment explanation
Indices: 29372489--29372548 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
29372479 ATAATTCTGC
* *
29372489 AATTAAATAAAATACTTAATAATAA
1 AATTAAATATAATAATTAATAATAA
29372514 AATTAAATATAATAATTAATAATAA
1 AATTAAATATAATAATTAATAATAA
29372539 AATTAAATAT
1 AATTAAATAT
29372549 GTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAATATAATAATTAATAATAA
Found at i:29375833 original size:37 final size:36
Alignment explanation
Indices: 29375787--29375862 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
29375777 ATTCTAAAAA
29375787 TAATATTATTTCAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTCAATAGTATTAA-ATT-AATTTAATAT
* *
29375823 TAATACTTATTTTAATAGTATTTAATTAATTTAATAT
1 TAATA-TTATTTCAATAGTATTAAATTAATTTAATAT
29375860 TAA
1 TAA
29375863 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 19 0.54
38 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATTTCAATAGTATTAAATTAATTTAATAT
Found at i:29375870 original size:20 final size:18
Alignment explanation
Indices: 29375788--29375894 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 18
29375778 TTCTAAAAAT
*
29375788 AATATT-ATTTCAATAGTTT
1 AATATTAATTT-AATA-TTA
29375807 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* *
29375824 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
29375843 TTTAATTAATTTAATATTA
1 AAT-ATTAATTTAATATTA
29375862 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
29375882 AAT-TTAATTTAAT
1 AATATTAATTTAAT
29375895 GTTTATCTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
17 18 0.26
18 7 0.10
19 22 0.31
20 19 0.27
21 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:29379955 original size:21 final size:21
Alignment explanation
Indices: 29379921--29379989 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
29379911 TCAGTATACG
29379921 ACACATAAGTGCCTGAAACGAC
1 ACACA-AAGTGCCTGAAACGAC
* * * *
29379943 ACACGAGGTGCCTCATACGAC
1 ACACAAAGTGCCTGAAACGAC
*
29379964 ACATAAAGTGCCTGAGATACGAC
1 ACACAAAGTGCCTGA-A-ACGAC
29379987 ACA
1 ACA
29379990 TTACGACACA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
21 24 0.67
22 4 0.11
23 8 0.22
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (21 bp):
ACACAAAGTGCCTGAAACGAC
Found at i:29382243 original size:16 final size:15
Alignment explanation
Indices: 29382195--29382246 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
29382185 CTATTAGAAT
*
29382195 TTTTCCTTCCTTTCTC
1 TTTTCTTTCCTTT-TC
*
29382211 TATTTCTTCCCTCTTTC
1 T-TTTCTTTCCT-TTTC
29382228 TTTTCTTTTCCTTTTC
1 TTTTC-TTTCCTTTTC
29382244 TTT
1 TTT
29382247 GTATCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCCTTTTC
Found at i:29383198 original size:34 final size:34
Alignment explanation
Indices: 29383140--29383235 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 34
29383130 AATACATGAT
*
29383140 AAGCATGTAT-TTTCTACCGTATTGATTTACTAA
1 AAGCATGTATATTGCTACCGTATTGATTTACTAA
* * * ** *
29383173 AAGCATGTCTATTGCTATCGTATTGATCTGTTAT
1 AAGCATGTATATTGCTACCGTATTGATTTACTAA
* * *
29383207 AAGCATATTTATTGCTACCATATTGATTT
1 AAGCATGTATATTGCTACCGTATTGATTT
29383236 GTTATAAACA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 9 0.18
34 41 0.82
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (34 bp):
AAGCATGTATATTGCTACCGTATTGATTTACTAA
Found at i:29383239 original size:34 final size:34
Alignment explanation
Indices: 29383153--29383256 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 34
29383143 CATGTATTTT
** * *
29383153 CTACCGTATTGATTTACTAAAAGCATGTCTATTG
1 CTACCGTATTGATTTGTTATAAGCATATCTATTG
* * *
29383187 CTATCGTATTGATCTGTTATAAGCATATTTATTG
1 CTACCGTATTGATTTGTTATAAGCATATCTATTG
* * *
29383221 CTACCATATTGATTTGTTATAAACATGTCATATTG
1 CTACCGTATTGATTTGTTATAAGCATATC-TATTG
29383256 C
1 C
29383257 ATTGCATAGG
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
34 50 0.89
35 6 0.11
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (34 bp):
CTACCGTATTGATTTGTTATAAGCATATCTATTG
Found at i:29383332 original size:21 final size:21
Alignment explanation
Indices: 29383308--29383376 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
29383298 AACTTATCTG
29383308 CACCGATTAGTGGTTTATCCA
1 CACCGATTAGTGGTTTATCCA
* * * *
29383329 CACCGTACTAGCAGCTTTTATCTA
1 CACCG-ATTAG-TG-GTTTATCCA
*
29383353 CATCGATTAGTGGTTTATCCA
1 CACCGATTAGTGGTTTATCCA
29383374 CAC
1 CAC
29383377 TGTACTAACA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
21 14 0.40
22 5 0.14
23 5 0.14
24 11 0.31
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (21 bp):
CACCGATTAGTGGTTTATCCA
Found at i:29383365 original size:45 final size:45
Alignment explanation
Indices: 29383301--29383441 Score: 151
Period size: 45 Copynumber: 3.1 Consensus size: 45
29383291 TATAAGCAAC
* * *
29383301 TTATCTGCACCGATTAGTGGTTTATCCACACCGTACTAGCAGCTT
1 TTATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
* *
29383346 TTATCTACATCGATTAGTGGTTTATCCACACTGTACTAACAACTT
1 TTATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
* * * * * *
29383391 TAATTTGTAC-T-AATGAGTGGTTTATCCATACCATACTAGCAACTT
1 T--TATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
29383436 TTATCT
1 TTATCT
29383442 GTACTAATGA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.04
45 70 0.89
46 1 0.01
47 5 0.06
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (45 bp):
TTATCTACATCGATTAGTGGTTTATCCACACCGTACTAGCAACTT
Found at i:29383445 original size:45 final size:45
Alignment explanation
Indices: 29383316--29383474 Score: 178
Period size: 45 Copynumber: 3.5 Consensus size: 45
29383306 TGCACCGATT
* * * *
29383316 AGTGGTTTATCCACACCGTACTAGCAGCTTTTATC--TACATCGATT
1 AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTAC-T-AATG
** * * *
29383361 AGTGGTTTATCCACACTGTACTAACAACTTTAATTTGTACTAATG
1 AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTACTAATG
*
29383406 AGTGGTTTATCCATACCATACTAGCAACTTTTATCTGTACTAATG
1 AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTACTAATG
* *
29383451 AGTGGTTTATTCACACTATACTAG
1 AGTGGTTTATCCACACCATACTAG
29383475 TAGTTTATCT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
45 92 0.96
46 1 0.01
47 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (45 bp):
AGTGGTTTATCCACACCATACTAGCAACTTTTATCTGTACTAATG
Found at i:29384062 original size:24 final size:24
Alignment explanation
Indices: 29384035--29384080 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
29384025 ATTAGTAAGT
29384035 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
29384059 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
29384081 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:29386008 original size:24 final size:24
Alignment explanation
Indices: 29385981--29386026 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
29385971 ATTAGTAAGT
29385981 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
29386005 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
29386027 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:29387312 original size:19 final size:18
Alignment explanation
Indices: 29387290--29387332 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
29387280 ATATTTAAAT
*
29387290 TTATTATATTTATTATTTA
1 TTATTATATTTAAT-TTTA
29387309 TTATTATATTTAATTTTA
1 TTATTATATTTAATTTTA
29387327 TTATTA
1 TTATTA
29387333 ATTAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTATATTTAATTTTA
Found at i:29387331 original size:25 final size:25
Alignment explanation
Indices: 29387298--29387351 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
29387288 ATTTATTATA
* ** *
29387298 TTTATTATTTATTATTATATTTAAT
1 TTTATTATTAATTAAAACATTTAAT
29387323 TTTATTATTAATTAAAACATTTAAT
1 TTTATTATTAATTAAAACATTTAAT
29387348 TTTA
1 TTTA
29387352 AAAAAGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTATTATTAATTAAAACATTTAAT
Found at i:29388961 original size:21 final size:22
Alignment explanation
Indices: 29388937--29388977 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29388927 CGGGTTTGGG
*
29388937 GTTTAATGATTTA-GGTTTAAA
1 GTTTAAGGATTTAGGGTTTAAA
*
29388958 GTTTAAGGGTTTAGGGTTTA
1 GTTTAAGGATTTAGGGTTTA
29388978 GGATTACGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (22 bp):
GTTTAAGGATTTAGGGTTTAAA
Found at i:29390034 original size:10 final size:10
Alignment explanation
Indices: 29390016--29390047 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
29390006 ATGCCAAAAG
*
29390016 AAGACCAACA
1 AAGAACAACA
29390026 AAGAACAACA
1 AAGAACAACA
29390036 AAGAACAACA
1 AAGAACAACA
29390046 AA
1 AA
29390048 AAGAGTGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.69, C:0.22, G:0.09, T:0.00
Consensus pattern (10 bp):
AAGAACAACA
Found at i:29393862 original size:114 final size:114
Alignment explanation
Indices: 29393690--29394246 Score: 613
Period size: 114 Copynumber: 4.9 Consensus size: 114
29393680 GCGTTTTTCA
* * * * * **
29393690 GAAAGCGCCGC-AAAATACATAGGCCTAACGACGCCGTTTTCCGAGCTTTCGGGGGATTTAGCGG
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTC-GGGGATTTAGCGG
* * * *
29393754 CGCTTTTAAGAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCGTTTTTAC
65 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* *
29393804 GAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
29393869 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC-ATTTT-C
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* * * ** * *
29393916 GGTAAAGCGCAACAAAAGAACCTAAGCCCAACGATGCCGTTTACTGAGC-TTCGAGGCTTTAGCG
1 -G-AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCG
* * * * * * * *
29393980 GCTTTTTTAAGTAAGCGCCGGTAATGCTCCGGGCTTTAGCAGTGATTCTGG
64 GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* * *
29394031 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTATTGAGCTTTCGGGGCTTTAGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
* * * * * *
29394096 ATTTTTAAGTAAGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGT
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
* *** * *
29394145 GAAAGGCGCCGCAAAGGGACCTAAGCCCAACGACGCCGTTTTCTT-AGCTTTTGGGGATTTAGTG
1 GAAA-GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTT-TTGAGCTTTCGGGGATTTAGCG
* *
29394209 GCGTTTTT-GGTAAAGCGCCGCTAATGCTCAGGGATTTA
64 GCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGCTTTA
29394247 AAATAATTTA
Statistics
Matches: 376, Mismatches: 58, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
112 1 0.00
113 96 0.26
114 166 0.44
115 111 0.30
116 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGC
Found at i:29394047 original size:227 final size:228
Alignment explanation
Indices: 29393716--29394246 Score: 618
Period size: 227 Copynumber: 2.3 Consensus size: 228
29393706 ACATAGGCCT
* * * *
29393716 AACGACGCCGTTTTCCGAGCTTTCGGGGGATTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCT
1 AACGACGCCGTTTACTGAGC-TTC-GAGGCTTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCT
* * * *
29393781 CAGGGCTTTAGCGGCGTTTTTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTTT
64 CAGGGCTTTAGCAGCGATTCTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTAT
*
29393846 TGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCA
129 TGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCA
29393911 TTTTCGGT-AAA-GCGCAACAAAAGAACCTAAGCCC
194 TTTT-GGTGAAAGGCGCAACAAAAGAACCTAAGCCC
* ** * ** *
29393945 AACGATGCCGTTTACTGAGCTTCGAGGCTTTAGCGGCTTTTTTAAGTAAGCGCCGGTAATGCTCC
1 AACGACGCCGTTTACTGAGCTTCGAGGCTTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTCA
* ** * * *
29394010 GGGCTTTAGCAGTGATTCTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTATTG
66 GGGCTTTAGCAGCGATTCTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTATTG
* * * * *
29394075 AGCTTTCGGGGCTTTAGCGGCATTTTTAAGTAAGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTT
131 AGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATT
* ** * *
29394140 TTTGTGAAAGGCGCCGCAAAGGGACCTAAGCCC
196 TTGGTGAAAGGCGCAACAAAAGAACCTAAGCCC
* * * * * * ** *
29394173 AACGACGCCGTTTTCTTAGCTTTTGGGGATTTAGTGGCG-TTTTTGGTAAAGCGCCGCTAATGCT
1 AACGACGCCGTTTACTGAGC-TTCGAGGCTTTAGCGGCGCTTTTAAG-AAAGCGCCACTAATGCT
*
29394237 CAGGGATTTA
64 CAGGGCTTTA
29394247 AAATAATTTA
Statistics
Matches: 252, Mismatches: 46, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
226 2 0.01
227 153 0.61
228 44 0.17
229 53 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (228 bp):
AACGACGCCGTTTACTGAGCTTCGAGGCTTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTCA
GGGCTTTAGCAGCGATTCTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTATTG
AGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATT
TTGGTGAAAGGCGCAACAAAAGAACCTAAGCCC
Found at i:29395290 original size:84 final size:84
Alignment explanation
Indices: 29395169--29395335 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
29395159 TTTTCCAAAG
* * * * *
29395169 CGGCTCCGTTTCTTTACTGGAATAAAATCATTTAGTGGCGTTTTGTAGGAAAATGCCGCAAAAGT
1 CGGCACCGTTTCTCTACTCGAATAAAATCATTTAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
29395234 GAATTAATGTTGGCCAATA
66 GAATTAATGTTGGCCAATA
* * * *
29395253 CGGCACCGTTTCTCTACTCGAATGAAATC-TTATAGTGGCGTTTTTTAAGAAAACGCTGCAAGAG
1 CGGCACCGTTTCTCTACTCGAATAAAATCATT-TAGTGGCGTTTTGTAAGAAAACGCCGCAAAAG
*
29395317 TGAATTAATGTTTGCCAAT
65 TGAATTAATGTTGGCCAAT
29395336 GTGACACCGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 2 0.03
84 70 0.97
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (84 bp):
CGGCACCGTTTCTCTACTCGAATAAAATCATTTAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
GAATTAATGTTGGCCAATA
Found at i:29395735 original size:84 final size:84
Alignment explanation
Indices: 29395647--29395858 Score: 259
Period size: 84 Copynumber: 2.5 Consensus size: 84
29395637 TTTATCTTGA
* * * * * *
29395647 GGAATGAAATATTTTTGTAGCGTTTTTGATAAAAACGCCGCAAGGA-TGTACTAAAATTTGCCAA
1 GGAATGAAATCTTATAGTGGCGTTTTTTA-AAAAACGCCGCAAGGAGTGAACTAAAATTTGCCAA
29395711 -AGCGGCGCCGTTTCTCTACT
65 TA-CGGCGCCGTTTCTCTACT
* * * **
29395731 GGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAA-GAGTGAATTAATGTTTGCCAA
1 GGAATGAAATCTTATAGTGGCGTTTTTTA-AAAAACGCCGCAAGGAGTGAACTAAAATTTGCCAA
*
29395795 TACGGCGCTGTTTCTCTACT
65 TACGGCGCCGTTTCTCTACT
29395815 GGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG
1 GGAATGAAATCTTATAGTGGCGTTTTTTAA-AAAACGCCGCAAG
29395859 TGTTAATTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
83 2 0.02
84 106 0.97
85 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (84 bp):
GGAATGAAATCTTATAGTGGCGTTTTTTAAAAAACGCCGCAAGGAGTGAACTAAAATTTGCCAAT
ACGGCGCCGTTTCTCTACT
Found at i:29395867 original size:84 final size:84
Alignment explanation
Indices: 29395703--29395892 Score: 292
Period size: 84 Copynumber: 2.3 Consensus size: 84
29395693 TGTACTAAAA
*
29395703 TTTGCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAAC
1 TTTGCCAATA-CGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAAC
29395767 GCCGCAAGAGTGAATTAATG
65 GCCGCAAGAGTGAATTAATG
* *
29395787 TTTGCCAATACGGCGCTGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
1 TTTGCCAATACGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACG
* *
29395852 CCGCAAGTGTTAATTAATG
66 CCGCAAGAGTGAATTAATG
* * *
29395871 TTTGTCAATGCGGCACCGTTTC
1 TTTGCCAATACGGCGCCGTTTC
29395893 GCTTCATGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 95 0.99
85 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (84 bp):
TTTGCCAATACGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACG
CCGCAAGAGTGAATTAATG
Found at i:29395932 original size:84 final size:84
Alignment explanation
Indices: 29395703--29395924 Score: 252
Period size: 84 Copynumber: 2.7 Consensus size: 84
29395693 TGTACTAAAA
* * * * * *
29395703 TTTGCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAAC
1 TTTGCCAATA-CGGCACCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAAC
29395767 GCCGCAAGAGTGAATTAATG
65 GCCGCAAGAGTGAATTAATG
* * * * *
29395787 TTTGCCAATACGGCGCTGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
1 TTTGCCAATACGGCACCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACG
* *
29395852 CCGCAAGTGTTAATTAATG
66 CCGCAAGAGTGAATTAATG
* * * *
29395871 TTTGTCAATGCGGCACCGTTTCGCTTCATGAAATG-AAT-TTATACTGGTGTTTTT
1 TTTGCCAATACGGCACCGTTTCGCTAC-TGAAATGAAATCTTATACTGGCGTTTTT
29395925 GCTAGAAACG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
83 14 0.11
84 101 0.83
85 7 0.06
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (84 bp):
TTTGCCAATACGGCACCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACG
CCGCAAGAGTGAATTAATG
Found at i:29396309 original size:82 final size:83
Alignment explanation
Indices: 29396223--29396396 Score: 228
Period size: 84 Copynumber: 2.1 Consensus size: 83
29396213 GATTTTGATA
* *
29396223 AAAACGCCGCAAG-GATGTATTAAAATTTGCCAA-AGCGGC-CGTTTCTCTACTAGAATAAAATC
1 AAAACGCAGCAAGAG-TGAATTAAAATTTGCCAATA-CGGCGCGTTTCTCTACTAGAATAAAATC
*
29396285 TTATAGTGGCATTTTTTAGG
64 TTATAGTGGCATTTTTTAAG
** * *
29396305 AAAACGCAGCAAGAGTGAATTAATGTTTGCCAATACGGCGTCGTTTCTCTACTGGAATGAAATCT
1 AAAACGCAGCAAGAGTGAATTAAAATTTGCCAATACGGCG-CGTTTCTCTACTAGAATAAAATCT
*
29396370 TATAGTGGCGTTTTTTAAG
65 TATAGTGGCATTTTTTAAG
29396389 AAAACGCA
1 AAAACGCA
29396397 AATGCCACAA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
82 31 0.39
83 2 0.03
84 47 0.59
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (83 bp):
AAAACGCAGCAAGAGTGAATTAAAATTTGCCAATACGGCGCGTTTCTCTACTAGAATAAAATCTT
ATAGTGGCATTTTTTAAG
Found at i:29396481 original size:90 final size:90
Alignment explanation
Indices: 29396261--29396473 Score: 219
Period size: 84 Copynumber: 2.4 Consensus size: 90
29396251 GCCAAAGCGG
* * * * *
29396261 CCGTTTCTCTACT-AGAATAAAATCTTATAGTGGCATTTTTTAGGAAAACGC--A-G---CAAGA
1 CCGTTTCGCTACTGA-AATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGA
*
29396319 GTGAATTAATGTTTGCCAATACGGCG
65 GTGAATTAATGTTTGCCAATACGGCA
* * * * *
29396345 TCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGTG
1 CCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGAG
* *
29396410 TGAATTAATGTTTGTCAATGCGGCA
66 TGAATTAATGTTTGCCAATACGGCA
*
29396435 CCGTTTCGCTTCATGAAATG-AAT-TTATACTGGCGTTTTT
1 CCGTTTCGCTAC-TGAAATGAAATCTTATACTGGCGTTTTT
29396474 GCTAGAAATG
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
84 45 0.42
86 1 0.01
87 1 0.01
89 15 0.14
90 39 0.36
91 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (90 bp):
CCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCAAATGCCACAAGAG
TGAATTAATGTTTGCCAATACGGCA
Found at i:29398569 original size:47 final size:45
Alignment explanation
Indices: 29398492--29398605 Score: 160
Period size: 47 Copynumber: 2.5 Consensus size: 45
29398482 TTGTTTCATA
* *
29398492 TACTTACATTACTTA--AATATATATTCTTAAGTATATATTACAT
1 TACTTACATCACTTACTAAAATATATTCTTAAGTATATATTACAT
*
29398535 TACTTACATCACTTACTGAAACATATATTTTTAAGTATATATTACAT
1 TACTTACATCACTTACT-AAA-ATATATTCTTAAGTATATATTACAT
*
29398582 TACTTACATTACTTACTAAAATAT
1 TACTTACATCACTTACTAAAATAT
29398606 GTTACATTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.22
45 4 0.06
46 5 0.08
47 40 0.63
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (45 bp):
TACTTACATCACTTACTAAAATATATTCTTAAGTATATATTACAT
Found at i:29398615 original size:18 final size:18
Alignment explanation
Indices: 29398589--29398679 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
29398579 CATTACTTAC
29398589 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
* *
29398606 GTTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
29398624 ATTAC-TTACTAAAATTTAT
1 ATTACATTACTAAAA--TAT
*
29398643 AATTTACATTACTTAAATAT
1 -A-TTACATTACTAAAATAT
29398663 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
29398680 TTATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.20
18 24 0.39
19 9 0.15
20 4 0.07
21 4 0.07
22 8 0.13
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:29398629 original size:31 final size:31
Alignment explanation
Indices: 29398571--29398660 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 31
29398561 ATTTTTAAGT
*
29398571 ATATATTACATTACTTACATTACTTACTAAA
1 ATATATTACATTACTTAAATTACTTACTAAA
*
29398602 ATATGTTACATTACTTAAATATATTACTTACTAAA
1 ATATATTACATTACTT--A-A-ATTACTTACTAAA
29398637 ATTTATAATTTACATTACTTAAAT
1 A--TAT-A-TTACATTACTTAAAT
29398661 ATATTACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
31 15 0.31
33 1 0.02
35 16 0.33
36 1 0.02
37 4 0.08
39 11 0.23
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (31 bp):
ATATATTACATTACTTAAATTACTTACTAAA
Found at i:29398632 original size:22 final size:22
Alignment explanation
Indices: 29398580--29398672 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
29398570 TATATATTAC
*
29398580 ATTACTTACATTACTTACTAAAAT
1 ATTACTTACATTACTTA--AATAT
*
29398604 A-T-GTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
*
29398624 ATTACTTAC--TA---AAATTT
1 ATTACTTACATTACTTAAATAT
* *
29398641 ATAATTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
29398663 ATTACATTAC
1 ATTAC-TTAC
29398673 TTAAAATTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 17
0.67 0.12 0.22
Matches are distributed among these distances:
17 12 0.23
19 2 0.04
20 7 0.13
21 1 0.02
22 24 0.46
23 5 0.10
24 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (22 bp):
ATTACTTACATTACTTAAATAT
Found at i:29398650 original size:39 final size:41
Alignment explanation
Indices: 29398607--29398684 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 41
29398597 CTAAAATATG
29398607 TTACATTACTTAAATATATTAC-TTAC-TAAAATTTATAAT
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
29398646 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
29398685 TATATATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 22 0.59
40 4 0.11
41 11 0.30
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (41 bp):
TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
Done.