Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 20
Found at i:2151162 original size:17 final size:18
Alignment explanation
Indices: 2151142--2151184 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
2151132 CATTTATATA
2151142 ATTTAAATTTATTT-TTT
1 ATTTAAATTTATTTATTT
2151159 ATTTATAA-TTATTTATTT
1 ATTTA-AATTTATTTATTT
*
2151177 ATATAAAT
1 ATTTAAAT
2151185 AATTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTAAATTTATTTATTT
Found at i:2153162 original size:16 final size:17
Alignment explanation
Indices: 2153130--2153168 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2153120 TCATCAAAAA
2153130 ATAAAATAAAAATAATT
1 ATAAAATAAAAATAATT
2153147 ATAAAATAAAAA-AATT
1 ATAAAATAAAAATAATT
*
2153163 TTAAAA
1 ATAAAA
2153169 CTTTTTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAATAAAAATAATT
Found at i:2154824 original size:30 final size:31
Alignment explanation
Indices: 2154788--2154848 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
2154778 ATATATCTTG
2154788 AGACTTATATTGAATATTT-TCCAAGACTAA
1 AGACTTATATTGAATATTTGTCCAAGACTAA
*
2154818 AGACTTATATTGAATATTTGTCCGAGACTAA
1 AGACTTATATTGAATATTTGTCCAAGACTAA
2154849 CTTGAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (31 bp):
AGACTTATATTGAATATTTGTCCAAGACTAA
Found at i:2155853 original size:8 final size:8
Alignment explanation
Indices: 2155840--2155866 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2155830 AAAAGTTTCA
2155840 ATAATGTC
1 ATAATGTC
2155848 ATAATGTC
1 ATAATGTC
2155856 ATAATGTC
1 ATAATGTC
2155864 ATA
1 ATA
2155867 TTTAACTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (8 bp):
ATAATGTC
Found at i:2157059 original size:18 final size:16
Alignment explanation
Indices: 2157019--2157065 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
2157009 ATTGGGGTTG
2157019 AAAATCTATGATTATA
1 AAAATCTATGATTATA
*
2157035 GAAATCTATGATTATTTA
1 AAAATCTATGATTA--TA
*
2157053 AAAATCTGTGATT
1 AAAATCTATGATT
2157066 CTCAGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
18 13 0.50
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (16 bp):
AAAATCTATGATTATA
Found at i:2158345 original size:18 final size:18
Alignment explanation
Indices: 2158322--2158356 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2158312 AAGCGTGACT
*
2158322 TCATCAAATACTGGCTCC
1 TCATCAAATACGGGCTCC
2158340 TCATCAAATACGGGCTC
1 TCATCAAATACGGGCTC
2158357 TTTGTCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (18 bp):
TCATCAAATACGGGCTCC
Found at i:2160454 original size:166 final size:165
Alignment explanation
Indices: 2160220--2160896 Score: 582
Period size: 166 Copynumber: 4.2 Consensus size: 165
2160210 CAAATTACTA
* * * * ** *
2160220 AGTTTTCTTCTTCGTAAATTTGTTTTGAGAGGA-TTTTCATGGGTTTTTAATTTTTAATATTCAT
1 AGTTTTCTACTCCGTAAATTT-TTTCGAGGGGATTTTTC-TTAGTTTTTAATTTTTAAAATTCAT
*
2160284 CAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTT
64 CAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTT
*
2160349 CATTTTTTCCTTGAAACTCTTCTATTTTCGAAATACGG
129 CATTTTTTCCTTGAAACTCTCCTATTTTCGAAATAC-G
* * * * *
2160387 AGTTTTCTACTCCTTAAATTTTTTGGAGGGGATTTTTCATACTTTTTAATTTTTAAAATTTATCA
1 AGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCA
** ** *
2160452 AATATTATTATTTAATTTGTA-TAATTAT-TTTTTTC-AAAATTCATTCATTTTCATGAGTTTTT
66 AATATTATTATTTAATTCATATTAA--ATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTT
* *
2160514 CATTTTTTCCTTGAAACAC-CCATATTTCCG--A-A--
129 CATTTTTTCCTTGAAACTCTCC-TATTTTCGAAATACG
* * *
2160546 A------TACTCCGTAAAATTTTTTCTAGGAGATTTTTCTTAGCTTTTAATTTTTAAAATTCAT-
1 AGTTTTCTACTCCGT-AAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATC
* * *
2160604 -AA-A--A--A-TT-ATT-AT-TTAAATCTGTTTTTAAAAATTCATTCATTTTCATGAGTTTTTC
65 AAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTC
* * **
2160659 ATTTTTTCCTTGAAAC-CT-CTGTTTCCGAAATGTGG
130 ATTTTTTCCTTGAAACTCTCCTATTTTCGAAAT-ACG
* * * *
2160694 ATTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAAGTTTTGAAATTCATCA
1 AGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCA
* * * ** * *
2160759 AATATTATTATTTAATTCA-AGTCAAATTATTTTTTGAAAATTCATTCATTTTTATG-AGTTTTC
66 AATATTATTATTTAATTCATA-TTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTC
*
2160822 -TTGTTTCCTTGAAA-TC-CTCT-TGTTTCGAAATACAG
130 ATTTTTTCCTTGAAACTCTC-CTAT-TTTCGAAATAC-G
2160857 AGTTCTT-TACTCCGTAAATTTTTTC-AGAGGGATTTTTCTT
1 AGTT-TTCTACTCCGTAAATTTTTTCGAG-GGGATTTTTCTT
2160897 GGTGATGAAT
Statistics
Matches: 420, Mismatches: 50, Indels: 84
0.76 0.09 0.15
Matches are distributed among these distances:
142 9 0.02
143 7 0.02
144 49 0.12
145 3 0.01
146 2 0.00
147 1 0.00
148 1 0.00
149 1 0.00
151 1 0.00
152 2 0.00
153 49 0.12
154 49 0.12
155 2 0.00
156 1 0.00
158 1 0.00
159 1 0.00
160 1 0.00
161 2 0.00
162 21 0.05
163 51 0.12
164 32 0.08
165 54 0.13
166 55 0.13
167 25 0.06
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (165 bp):
AGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCA
AATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTCA
TTTTTTCCTTGAAACTCTCCTATTTTCGAAATACG
Found at i:2161258 original size:466 final size:454
Alignment explanation
Indices: 2160452--2161362 Score: 1323
Period size: 466 Copynumber: 2.0 Consensus size: 454
2160442 AAATTTATCA
**
2160452 AATATTATTATTTAATTTGTATAATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTCAT
1 AATATTATTATTTAATTCATATAATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTCAT
* * *
2160517 TTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCTAGGAGATTTTTCTTA
66 TTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCAAGGAGATTCTTCTCA
*
2160582 GCTTTTAATTTTTAAAATTCATAAAAATTATTATTTAAATCTGTTTTTAAAAATTCATTCATTTT
131 GCTTTTAATTTTTAAAATTCATAAAAATTATTATTTAAATCTGTTTTCAAAAATTCATTCATTTT
* *
2160647 CATGAGTTTTTCATTTTTTCCTTGAAACCTCTGTTTCCGAAATGTGGATTTTTCTACTCCGTAAA
196 CATGAGTTTTTCATTTTTTCCTTGAAACCTCTGTTTCCGAAATGTAGATGTTTCTACTCCGTAAA
* * * *
2160712 TTTTTTCGAGGGGATTTTTCTTGGTTTTTAAGTTTTGAAATTCATCAAATATTATTATTTAATTC
261 TTTTTTCGAGGAGATTTTTCTTAGTTTTTAAGTTTTAAAACTCATCAAATATTATTATTTAATTC
* * *
2160777 AAGTCAAATTATTTTTTGAAAATTCATTCATTTTTAT-GAGTTTTC-TTGTTTCCTTGAAATCCT
326 AAGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCA-TTTTCTTTGTTTCCTTGAAATCCT
*
2160840 CTTG-TTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGGGATTTTTCTTGGTGATG
390 CCTGTTTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGGGATTTTTCTTGGTGATG
2160904 AATATTATTATTTAATTCATATTAAATTA-TTTTTTCAAAATTCATTCATTTTCATGAGTTTTTC
1 AATATTATTATTTAATTCATA-T-AATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTC
* * * * *
2160968 ATTTTTTTCCTTGAAACTCCCCTATTTTCGAAATACTCTGTAAATTTTTTTCAAGGAGATTCTTC
64 A-TTTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCAAGGAGATTCTTC
2161033 TCAG-TTTATAATTTTTAAAATTCATAAAAAATTATTATTTAAATCATTTTAAATCTGTTTTCAA
128 TCAGCTTT-TAATTTTTAAAATTCAT--AAAA--ATTA--T---T-A-TTTAAATCTGTTTTCAA
* * *
2161097 AATTTCATTCATTTTTATGAGTTTTTCATTTTTTTTCTTGAAACCTCCTGTTTCCGAAATGTAGA
181 AAATTCATTCATTTTCATGAGTTTTTCA-TTTTTTCCTTGAAACCT-CTGTTTCCGAAATGTAGA
* *
2161162 -GTTTCTA-TACCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAACTCATCC
244 TGTTTCTACT-CCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAAGTTTTAAAACTCATCA
*
2161225 AATATTATTATTTAATTCACGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCATTTTCTT
308 AATATTATTATTTAATTCAAGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCATTTTCTT
* * * *
2161290 TTTTTCCTTGAAATCCTCCTGTTTTTGAAATACAGAGTTCTTTACTCTGTAAATTTTTTCGGAGG
373 TGTTTCCTTGAAATCCTCCTGTTTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGG
2161355 GATTTTTC
438 GATTTTTC
2161363 CTAGTTTTTA
Statistics
Matches: 407, Mismatches: 31, Indels: 26
0.88 0.07 0.06
Matches are distributed among these distances:
452 19 0.05
453 40 0.10
454 81 0.20
456 4 0.01
458 4 0.01
460 1 0.00
463 1 0.00
464 1 0.00
465 43 0.11
466 127 0.31
467 38 0.09
468 48 0.12
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (454 bp):
AATATTATTATTTAATTCATATAATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTCAT
TTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCAAGGAGATTCTTCTCA
GCTTTTAATTTTTAAAATTCATAAAAATTATTATTTAAATCTGTTTTCAAAAATTCATTCATTTT
CATGAGTTTTTCATTTTTTCCTTGAAACCTCTGTTTCCGAAATGTAGATGTTTCTACTCCGTAAA
TTTTTTCGAGGAGATTTTTCTTAGTTTTTAAGTTTTAAAACTCATCAAATATTATTATTTAATTC
AAGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCATTTTCTTTGTTTCCTTGAAATCCTC
CTGTTTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGGGATTTTTCTTGGTGATG
Found at i:2161547 original size:166 final size:165
Alignment explanation
Indices: 2161001--2161599 Score: 552
Period size: 165 Copynumber: 3.6 Consensus size: 165
2160991 ATTTTCGAAA
* * * * * * *
2161001 TACTCTGTAAATTTTTTTCAAGGAGATTCTTCTCAGTTTATAATTTTTAAAATTCATAAAAAATT
1 TACTCCGTAAA-TTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCAT-CAATATT
* * ** * * * *
2161066 ATTATTTAAATCATTTTAAATCTGTTTTCAAAATTTCATTCATTTTTA-TGAGTTTTTCATTTTT
64 ATTATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTCATTCA-TTTTTTA-TTTT
** * *
2161130 TTTCTTGAAA-CCTCCTGTTTCCGAAATGTAGAG-TTTC
127 TTTCTTGAAATCCTCCTGTTTTTGAAATATCGAGTTTTC
* * *
2161167 TA-TACCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAACTCATCCAATATT
1 TACT-CCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCAT-CAATATT
** * * ** * *
2161231 ATTATTTAATTCACGTCAAAAT-ATTTTTTGAAAATTCATTCATTTTCATCCATTTTCT-TTTTT
64 ATTATTTAATTCATAT-TAAATCAATTTTCAAAAATTCATTCATTTTCATTCATTTTTTATTTTT
*
2161294 TCCTTGAAATCCTCCTGTTTTTGAAATA-CAGAGTTCTT-
128 TTCTTGAAATCCTCCTGTTTTTGAAATATC-GAGTT-TTC
* * *
2161332 TACTCTGTAAATTTTTTCG-GAGGGATTTTTCCTAGTTTTTAATTTTTAAAATTCATCAGATATT
1 TACTCCGTAAATTTTTTCGAG-GGGATTTTTCTTAGTTTATAATTTTTAAAATTCATCA-ATATT
* *
2161396 ATTATTTAATTTATATTAAATCAATTTTCAAAAAATCATTCATTTTCATTCATTTTTTATTTTTT
64 ATTATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTCATTCATTTTTTATTTTTT
** * * *
2161461 TCTTGAAATTTTCTTATTTTTGAAAAATCGAGTTTTC
129 TCTTGAAATCCTCCTGTTTTTGAAATATCGAGTTTTC
* * * * *
2161498 TACTCCATAAATATTTTCGAGGGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCTAATATTG
1 TACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCATC-AATATTA
* * * * *
2161563 TCATTAAATTCACAATAAAT-AAGTTTTGAAAAATTCA
65 TTATTTAATTCATATTAAATCAA-TTTTCAAAAATTCA
2161600 AATTAGTGCA
Statistics
Matches: 353, Mismatches: 63, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
163 13 0.04
164 25 0.07
165 184 0.52
166 128 0.36
167 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.49
Consensus pattern (165 bp):
TACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCATCAATATTAT
TATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTCATTCATTTTTTATTTTTTTC
TTGAAATCCTCCTGTTTTTGAAATATCGAGTTTTC
Found at i:2162122 original size:10 final size:11
Alignment explanation
Indices: 2162085--2162129 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
2162075 ATCAACTAAA
2162085 AAAAAGAGAGAG
1 AAAAAGAGA-AG
2162097 AAAAAGAGAAG
1 AAAAAGAGAAG
2162108 AAAAAGA-AAG
1 AAAAAGAGAAG
2162118 AAAAAAGAGAAG
1 -AAAAAGAGAAG
2162130 GAAATAGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 3 0.10
11 16 0.52
12 12 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAAAAGAGAAG
Found at i:2162123 original size:23 final size:23
Alignment explanation
Indices: 2162085--2162138 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
2162075 ATCAACTAAA
*
2162085 AAAAAGAGAGAGAAAAAGAGAA-G
1 AAAAAGAAAGA-AAAAAGAGAAGG
2162108 AAAAAGAAAGAAAAAAGAGAAGG
1 AAAAAGAAAGAAAAAAGAGAAGG
*
2162131 AAATAGAA
1 AAAAAGAA
2162139 CACATTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (23 bp):
AAAAAGAAAGAAAAAAGAGAAGG
Found at i:2163418 original size:3 final size:3
Alignment explanation
Indices: 2163410--2163465 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
2163400 GTATTTTAAA
* *
2163410 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT GAT AA- AAT AAA AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2163455 AAT AAT AAT AA
1 AAT AAT AAT AA
2163466 AATGAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 6 0.13
3 40 0.87
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2163459 original size:30 final size:31
Alignment explanation
Indices: 2163413--2163470 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
2163403 TTTTAAAAAT
*
2163413 AATAATAATAATAATAATAATAAAATGATAA
1 AATAAAAATAATAATAATAATAAAATGATAA
2163444 AATAAAAAT-ATAATAATAATAAAATGA
1 AATAAAAATAATAATAATAATAAAATGA
2163471 AATAAAACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (31 bp):
AATAAAAATAATAATAATAATAAAATGATAA
Found at i:2166401 original size:23 final size:22
Alignment explanation
Indices: 2166365--2166411 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
2166355 TAAAACAAAG
**
2166365 AAAATAACAAACAAATTTACAT
1 AAAATAACAAACAAAAATACAT
*
2166387 AAAATAAACACACAAAAATACAT
1 AAAAT-AACAAACAAAAATACAT
2166410 AA
1 AA
2166412 GAAGAAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAATAACAAACAAAAATACAT
Found at i:2166763 original size:49 final size:49
Alignment explanation
Indices: 2166680--2166793 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 49
2166670 AAAAAAAATA
* * *
2166680 GGGTTGGAGCATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA-CTG
1 GGGTTGGAGTAT--CCGATTATGAAAAATCGGTGTTTTGGAAATAAAATC-G
* *
2166731 GGGTTGGAGTATCCGATTATGAATAATCGGTGTTTTTGAAATAAAATCG
1 GGGTTGGAGTATCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCG
*
2166780 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
2166794 CCTCGAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 44 0.79
50 1 0.02
51 11 0.20
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (49 bp):
GGGTTGGAGTATCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCG
Found at i:2166927 original size:127 final size:126
Alignment explanation
Indices: 2166634--2166999 Score: 380
Period size: 127 Copynumber: 2.9 Consensus size: 126
2166624 AAGTTTAATA
* * * *
2166634 TTTTGGAGATAAAACTCGGGGTTGGAGTATCCTTTCAAAAAAAATAGGGTTGGAGCATCCCCGAT
1 TTTTGGAAATAAAA-TC-GGGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGAT
** ** * *
2166699 TGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCGATTATGAATAATCGGTG
64 TGTGAAAAATCAGTGTTTCAGAAAT-AAACTGGGGTTGGAGTATCCAATTATGAATAATCAGTG
* ** ** * * *
2166763 TTTTTGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCTCAATT
1 TTTTGGAAATAAAATCG-GGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATT
*
2166828 GTGAAAAATCAGTGTTCTCAGAAAT-AAC-GGGGTTGGAGTATCTCCAATTGTGAA-AA-CTAGT
65 GTGAAAAATCAGTGTT-TCAGAAATAAACTGGGGTTGGAGTA--TCCAATTATGAATAATC-AGT
2166889 G
126 G
*
2166890 TTTTGGAAATAAAATCAGGGTTAGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATT
* * * * * *
2166955 GTGAAAAATCAATATTTTAGAAATAAAGTTGAGGTTAGAGTATCC
65 GTGAAAAATCAGTGTTTCAGAAATAAA-CTGGGGTTGGAGTATCC
2167000 CCTCGAAAAT
Statistics
Matches: 194, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
126 20 0.10
127 82 0.42
128 64 0.33
129 28 0.14
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (126 bp):
TTTTGGAAATAAAATCGGGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATTG
TGAAAAATCAGTGTTTCAGAAATAAACTGGGGTTGGAGTATCCAATTATGAATAATCAGTG
Found at i:2167009 original size:79 final size:79
Alignment explanation
Indices: 2166849--2167139 Score: 316
Period size: 79 Copynumber: 3.7 Consensus size: 79
2166839 GTGTTCTCAG
* * * * * *
2166849 AAATAACGGGGTTGGAGTATCTCCAATTGTGAAAACT-AGTGTTTTGGAAATAAAATCAGGGTTA
1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAGGGTTA
**
2166913 GAGTATCCTTTCGA
66 GAGTATCCCCTCGA
* * * *
2166927 AAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGT-TGAGGTT
1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAG-GGTT
2166991 AGAGTATCCCCTCGA
65 AGAGTATCCCCTCGA
* * * * ** * * * *
2167006 AAATATTGGGGTTGGAGTGTCCCCGATGGTGGAAAATGGGTGTTTTGGAAATAAAACCAGGGTTG
1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAGGGTTA
* *
2167071 GAGCATCCCCTTGA
66 GAGTATCCCCTCGA
* * *
2167085 AAATAATGGGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTAGAAATAAA
1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAA
2167140 GACATCAATG
Statistics
Matches: 175, Mismatches: 35, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
78 33 0.19
79 141 0.81
80 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAGGGTTA
GAGTATCCCCTCGA
Found at i:2170197 original size:34 final size:33
Alignment explanation
Indices: 2170152--2170216 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
2170142 AAGGAAGGGG
* *
2170152 CGTCCTGCTCTTTAAGGATAAAGGAAAAGGAGTA
1 CGTCCTGCTCTTCAAGGACAAAGG-AAAGGAGTA
*
2170186 CGTCTTGCTCTTCAAGGACAAAGGAAAGGAG
1 CGTCCTGCTCTTCAAGGACAAAGGAAAGGAG
2170217 AATGAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (33 bp):
CGTCCTGCTCTTCAAGGACAAAGGAAAGGAGTA
Found at i:2170281 original size:39 final size:39
Alignment explanation
Indices: 2170191--2170294 Score: 102
Period size: 39 Copynumber: 2.6 Consensus size: 39
2170181 GAGTACGTCT
** * *
2170191 TGCTCTTCAAGGACAAAGGAAAGGAGAATGAAATAGGTCC
1 TGCTCTTTGAGGACAAAGGAAA-AAAAATGAAATAGGTCC
* * *
2170231 TACTCCTTGAGGACAAAGGAAAAAAAATTAAAT-GTGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAAAATGAAATAG-GTCC
* *
2170270 TGCTCTTTGAGGACACAGGAGAAAA
1 TGCTCTTTGAGGACAAAGGAAAAAA
2170295 GGAAAAAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
38 1 0.02
39 33 0.63
40 18 0.35
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (39 bp):
TGCTCTTTGAGGACAAAGGAAAAAAAATGAAATAGGTCC
Found at i:2170356 original size:40 final size:41
Alignment explanation
Indices: 2170260--2170362 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
2170250 AAAAAAAATT
* **
2170260 AAATGTGTCCTGCTCTTTGAGGACACAGGAGAAAAGGAAAAA
1 AAATGCGTCCTGCTCTTTG-GGACACAAAAGAAAAGGAAAAA
* * *
2170302 AAATGCATCTTGCTCTTTGGGACA-AAAAGAAAAGGAAATA
1 AAATGCGTCCTGCTCTTTGGGACACAAAAGAAAAGGAAAAA
* *
2170342 AAGTGCGTCCTGCTCCTTGGG
1 AAATGCGTCCTGCTCTTTGGG
2170363 GACTAGAAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 30 0.59
41 5 0.10
42 16 0.31
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (41 bp):
AAATGCGTCCTGCTCTTTGGGACACAAAAGAAAAGGAAAAA
Found at i:2170365 original size:41 final size:40
Alignment explanation
Indices: 2170205--2170365 Score: 114
Period size: 39 Copynumber: 4.0 Consensus size: 40
2170195 CTTCAAGGAC
* *
2170205 AAAGGAAAGGAGAATGAAATAG-GTCCTACTCCTTGAGGAC-A
1 AAAGAAAAGGA-AAT-AAAT-GCGTCCTGCTCCTTGAGGACAA
* * * *
2170246 AAGGAAAA-AAAATTAAATGTGTCCTGCTCTTTGAGGACACA
1 AAAGAAAAGGAAA-TAAATGCGTCCTGCTCCTTGAGGACA-A
** * * * *
2170287 GGAGAAAAGGAAAAAAAATGCATCTTGCTCTTTG-GGACAA
1 AAAGAAAAGG-AAATAAATGCGTCCTGCTCCTTGAGGACAA
*
2170327 AAAGAAAAGGAAATAAAGTGCGTCCTGCTCCTTGGGGAC
1 AAAGAAAAGGAAATAAA-TGCGTCCTGCTCCTTGAGGAC
2170366 TAGAAGGTGC
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
38 1 0.01
39 28 0.30
40 24 0.26
41 21 0.23
42 16 0.17
43 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (40 bp):
AAAGAAAAGGAAATAAATGCGTCCTGCTCCTTGAGGACAA
Found at i:2170477 original size:61 final size:61
Alignment explanation
Indices: 2170348--2170860 Score: 619
Period size: 61 Copynumber: 8.4 Consensus size: 61
2170338 AATAAAGTGC
* * * * *
2170348 GTCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTATG--GGCTTTGAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT
* * * *
2170407 GTCCCGCTCTTTGAGGAC-AAAAGGTGCCACCCACTTGTATAGGCTTTAACA-GAAAAGAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG--GT
*
2170468 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTTAAAA-GAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTAAAAGGAAAAGGT
* * * *
2170529 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGTTTTAAAA-GAAAAGAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG--GT
* * * * *
2170591 GTCTTACTCTTCGAGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT
* * * * **
2170652 GTCCTACTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAACAT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG-GAAAAGGT
* *
2170714 GTCCTGCT-TTTCGAGGACTAAAAGGTGCCACAAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTT-GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT
* *
2170775 GTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTATAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT
* *
2170836 GTCCTGCTCTTTAAGGACTGAAAGG
1 GTCCTGCTCTTTGAGGACTAAAAGG
2170861 ATAAAAGGTT
Statistics
Matches: 397, Mismatches: 43, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
58 17 0.04
59 21 0.05
60 24 0.06
61 188 0.47
62 129 0.32
63 18 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT
Found at i:2170590 original size:123 final size:123
Alignment explanation
Indices: 2170348--2170860 Score: 666
Period size: 123 Copynumber: 4.2 Consensus size: 123
2170338 AATAAAGTGC
* * * *
2170348 GTCCTGCTCCTT-GGGGACTAGAAGGTGCCACCAACTTATG--GGCTTTGAAAGGAAAAGGTGTC
1 GTCCTGCT-CTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTC
* * * *
2170410 CCGCTCTTTGAGGAC-AAAAGGTGCCACCCACTTGTATAGGCTTTAACAGAAAAGAAGT
65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAAGT
2170468 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTTAAAA-GAAAAGGTGTC
1 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTAAAAGGAAAAGGTGTC
* *
2170532 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAGAAGT
65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAAGT
* * * *
2170591 GTCTTACTCTTCGAGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGGTGTCC
1 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCC
* * * *
2170656 TACTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-AACAT
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAA-GT
* * *
2170714 GTCCTGCTTTTCGAGGACTAAAAGGTGCCACAAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC
1 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCC
* * * *
2170779 TGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTATAAAAGGAAAAG--GC
66 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTATGGGCTTTAAAA-GAAAAGAAGT
** *
2170836 GTCCTGCTCTTTAAGGACTGAAAGG
1 GTCCTGCTCTTCGAGGACTAAAAGG
2170861 ATAAAAGGTT
Statistics
Matches: 346, Mismatches: 37, Indels: 18
0.86 0.09 0.04
Matches are distributed among these distances:
119 3 0.01
120 33 0.10
122 58 0.17
123 243 0.70
124 9 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (123 bp):
GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCC
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAAGT
Found at i:2170675 original size:184 final size:181
Alignment explanation
Indices: 2170348--2170860 Score: 617
Period size: 184 Copynumber: 2.8 Consensus size: 181
2170338 AATAAAGTGC
* * * *
2170348 GTCCTGCTCCTTGGGGACTAGAAGGTGCCACCAAC-T-TATGGGCTTTGAAAGGAAAAGGTGTCC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTATGGG-TTTTAAAAGAAAAGGTGTCC
* * * *
2170411 CGCTCTTTGAGGAC-AAAAGGTGCCACCCACTTGTATAGGCTTTAACA-GAAAAGAAGTGTCCTG
64 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG--GTGTCCTG
**
2170474 CTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTTAAAAG-AAAAGGT
127 CTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTAAAAGAAAAACAT
2170529 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAGAAGTGTC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAG--GTGTC
* * * * * *
2170594 TTACTCTTCGAGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTAC
63 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTGC
*
2170659 TCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAACAT
128 TCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG-AAAAACAT
* * * * *
2170714 GTCCTGCT-TTTCGAGGACTAAAAGGTGCCACAAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTT-GAGGACT-AAAGGTGCCACCAACTTGTATGGGTTTTAAAA-GAAAAGGTGTC
* *
2170778 CTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTATAAAAGGAAAAGGCGTCCTG
63 CTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTG
** *
2170842 CTCTTTAAGGACTGAAAGG
127 CTCTTCGAGGACTAAAAGG
2170861 ATAAAAGGTT
Statistics
Matches: 286, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
181 31 0.11
182 14 0.05
183 14 0.05
184 135 0.47
185 80 0.28
186 12 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (181 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAGGTGTCCTG
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTGCTCT
TCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAACAT
Found at i:2171854 original size:15 final size:14
Alignment explanation
Indices: 2171834--2171898 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 14
2171824 AAGCAGGTTC
2171834 TTTTCTTTTCTTTTT
1 TTTTCTTTT-TTTTT
2171849 TTTTCTTTTTTATTT
1 TTTTCTTTTTT-TTT
*
2171864 ATTTTGTTTTGTTTTGT
1 -TTTTCTTTT-TTTT-T
2171881 TTTT-TTGTTTTTTAT
1 TTTTCTT-TTTTTT-T
2171896 TTT
1 TTT
2171899 AAAAGGGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
14 2 0.05
15 22 0.51
16 16 0.37
17 3 0.07
ACGTcount: A:0.05, C:0.05, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:2171858 original size:10 final size:10
Alignment explanation
Indices: 2171831--2171898 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
2171821 CTTAAGCAGG
*
2171831 TTCTTTTCTT
1 TTCTTTTTTT
2171841 TTCTTTTTTT
1 TTCTTTTTTT
2171851 TTCTTTTTTAT
1 TTCTTTTTT-T
* *
2171862 TTATTTTGTT
1 TTCTTTTTTT
*
2171872 TTGTTTTGTTT
1 TTCTTTT-TTT
*
2171883 TT-TTGTTTT
1 TTCTTTTTTT
*
2171892 TTATTTT
1 TTCTTTT
2171899 AAAAGGGAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 5 0.10
10 31 0.65
11 12 0.25
ACGTcount: A:0.04, C:0.06, G:0.06, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:2177965 original size:14 final size:14
Alignment explanation
Indices: 2177929--2177966 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
2177919 AGATTTATTT
*
2177929 GAAAAAATACAAAAA
1 GAAAAAA-AGAAAAA
2177944 -AAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
2177957 GAAAAAAAGA
1 GAAAAAAAGA
2177967 GGTGCAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:2178317 original size:20 final size:20
Alignment explanation
Indices: 2178292--2178358 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
2178282 TTTTACCCAG
2178292 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2178312 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2178332 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2178352 ATGTATC
1 ATGTATC
2178359 TATCGCAACG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2179716 original size:19 final size:19
Alignment explanation
Indices: 2179692--2179747 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
2179682 GTATCGATAC
* **
2179692 ATTGTATGGATACATGTTA
1 ATTGTATCGATACATGACA
*
2179711 ATTGTATCAATACATGGACA
1 ATTGTATCGATACAT-GACA
2179731 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
2179748 GATTGGTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:2183878 original size:15 final size:17
Alignment explanation
Indices: 2183847--2183878 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2183837 AGCAAGATGA
2183847 AAGCGTCCAAAATGAAG
1 AAGCGTCCAAAATGAAG
2183864 AAGC-TCCAAAA-GAAG
1 AAGCGTCCAAAATGAAG
2183879 CTGATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.50, C:0.19, G:0.22, T:0.09
Consensus pattern (17 bp):
AAGCGTCCAAAATGAAG
Found at i:2186155 original size:20 final size:22
Alignment explanation
Indices: 2186111--2186157 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2186101 AATTTTCCAC
2186111 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
2186133 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
2186153 AAATC
1 AAATC
2186158 ATCAACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:2187916 original size:20 final size:20
Alignment explanation
Indices: 2187888--2187927 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2187878 ACAATGTATC
* *
2187888 GATGCATTGTATTGATACAT
1 GATGAATTGTATCGATACAT
2187908 GATGAATTGTATCGATACAT
1 GATGAATTGTATCGATACAT
2187928 AGTTTGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (20 bp):
GATGAATTGTATCGATACAT
Found at i:2187981 original size:95 final size:95
Alignment explanation
Indices: 2187766--2187989 Score: 222
Period size: 95 Copynumber: 2.4 Consensus size: 95
2187756 ACACACCTAG
** *
2187766 ATGTATCGATACATTATGCTTTGTATCGATACATTATATTGATACATGTTAATTGTATCGATACA
1 ATGTATCGATACATTATGAATTGTATCGATACATTATATTGATACATGTGAATTGTATCGATACA
** ** * * **
2187831 TGAGATTGGCAGTAGCTACCCTTCCACTGT
66 TGAGATTGGCAACAGCTAAACTTCAAATCA
* * * *
2187861 TTGTATCGATACATGGTA-CAA-TGTATCGATGCATTGTATTGATACATGATGAATTGTATCGAT
1 ATGTATCGATACAT--TATGAATTGTATCGATACATTATATTGATACATG-TGAATTGTATCGAT
* * *
2187924 ACAT-AG-TTTGTAACAGCTATAATTTCAAATCA
63 ACATGAGATTGGCAACAGCTA-AACTTCAAATCA
2187956 ATGTATCGATACATTATGAATTGTATCGATACAT
1 ATGTATCGATACATTATGAATTGTATCGATACAT
2187990 GGCTACGAGA
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
93 2 0.02
94 11 0.11
95 70 0.69
96 17 0.17
97 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (95 bp):
ATGTATCGATACATTATGAATTGTATCGATACATTATATTGATACATGTGAATTGTATCGATACA
TGAGATTGGCAACAGCTAAACTTCAAATCA
Found at i:2190202 original size:13 final size:13
Alignment explanation
Indices: 2190184--2190211 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2190174 ATACAAAGAT
2190184 CAATGTATCGATA
1 CAATGTATCGATA
2190197 CAATGTATCGATA
1 CAATGTATCGATA
2190210 CA
1 CA
2190212 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2190207 original size:33 final size:33
Alignment explanation
Indices: 2190165--2190231 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
2190155 AAAATTCCCA
2190165 AATGTATCGATACAAAG-ATCAATGTATCGATAC
1 AATGTATCGATACAAAGAAT-AATGTATCGATAC
**
2190198 AATGTATCGATACATTGAATAATGTATCGATAC
1 AATGTATCGATACAAAGAATAATGTATCGATAC
2190231 A
1 A
2190232 TTTCCTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAAAGAATAATGTATCGATAC
Found at i:2194342 original size:50 final size:50
Alignment explanation
Indices: 2194267--2194411 Score: 281
Period size: 50 Copynumber: 2.9 Consensus size: 50
2194257 ATTTATCTGC
2194267 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA
1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA
2194317 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA
1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA
*
2194367 ATGTATCGATACATCTGGGCAAATTTGCCTGCAAGTATCGATACA
1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA
2194412 AAGATCAGTG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (50 bp):
ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA
Found at i:2194438 original size:13 final size:13
Alignment explanation
Indices: 2194420--2194444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2194410 CAAAGATCAG
2194420 TGTATCGATACAA
1 TGTATCGATACAA
2194433 TGTATCGATACA
1 TGTATCGATACA
2194445 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2194505 original size:13 final size:13
Alignment explanation
Indices: 2194487--2194511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2194477 AAAAAAAATA
2194487 TGTATCGATACAT
1 TGTATCGATACAT
2194500 TGTATCGATACA
1 TGTATCGATACA
2194512 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2195528 original size:22 final size:22
Alignment explanation
Indices: 2195503--2195571 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
2195493 ATGCTGATTC
2195503 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
2195525 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
2195546 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
2195568 AAGG
1 AAGG
2195572 TGAAGGTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:2195597 original size:49 final size:49
Alignment explanation
Indices: 2195437--2196008 Score: 773
Period size: 49 Copynumber: 11.7 Consensus size: 49
2195427 AACAGGATGT
*
2195437 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGC
* *
2195489 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
2195532 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
2195581 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * * *
2195630 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTTAATGGT-GAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGATAAAGGTGC
* * *
2195679 CAATGTGCTGATTCAAGGCTAGCTACCTTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
2195728 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGTTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
2195777 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * * *
2195826 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTTAATGGT-GAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGATAAAGGTGC
* *
2195875 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
2195924 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
2195973 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2196009 GAAGGGTTGC
Statistics
Matches: 462, Mismatches: 48, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
43 40 0.09
44 1 0.00
46 1 0.00
48 12 0.03
49 365 0.79
50 12 0.03
51 1 0.00
52 30 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
Found at i:2196125 original size:32 final size:33
Alignment explanation
Indices: 2196001--2196142 Score: 170
Period size: 33 Copynumber: 4.4 Consensus size: 33
2195991 CCAGCTATAT
*
2196001 TGGGC-TTA-GAAG-GGTTGCTACCGACTTGTG
1 TGGGCTTTAGGAAGAGGTTGCCACCGACTTGTG
* *
2196031 TGGGCTTTA-GAGAGAGGTTGCCACCGATTTATG
1 TGGGCTTTAGGA-AGAGGTTGCCACCGACTTGTG
*
2196064 TGGGCTTT-GGAAGAAGGTTGCCACCGACTTGTC
1 TGGGCTTTAGGAAG-AGGTTGCCACCGACTTGTG
*
2196097 TGGGCTTTAGGAAGA-GTTGCCACTGACTTGTG
1 TGGGCTTTAGGAAGAGGTTGCCACCGACTTGTG
*
2196129 TGGGCTTTGGGAAG
1 TGGGCTTTAGGAAG
2196143 GGAGAAAGAT
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
30 5 0.05
31 5 0.05
32 32 0.33
33 50 0.52
34 5 0.05
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (33 bp):
TGGGCTTTAGGAAGAGGTTGCCACCGACTTGTG
Found at i:2196142 original size:66 final size:67
Alignment explanation
Indices: 2196008--2196138 Score: 187
Period size: 65 Copynumber: 2.0 Consensus size: 67
2195998 TATTGGGCTT
* * *
2196008 AGAAGGGTTGCTACCGACTTGTGTGGGCTTTAGAGAGAGGTTGCCACCGATTTATGTGGGCTTTG
1 AGAAGGGTTGCCACCGACTTGTCTGGGCTTTAGAGAGAGGTTGCCACCGACTTATGTGGGCTTTG
2196073 GA
66 GA
* *
2196075 AGAA-GGTTGCCACCGACTTGTCTGGGCTTTAG-GA-AGAGTTGCCACTGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTCTGGGCTTTAGAGAGAG-GTTGCCACCGACTTATGTGGGCTTT
2196137 GG
65 GG
2196139 GAAGGGAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
64 2 0.03
65 26 0.45
66 26 0.45
67 4 0.07
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTCTGGGCTTTAGAGAGAGGTTGCCACCGACTTATGTGGGCTTTG
GA
Found at i:2196197 original size:35 final size:34
Alignment explanation
Indices: 2196140--2196342 Score: 235
Period size: 35 Copynumber: 6.1 Consensus size: 34
2196130 GGGCTTTGGG
* * *
2196140 AAGGGAGAAAGATGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA
2196174 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAA
* * *
2196210 AA-AGAAAAAGGTGCCACAGAGTTGTGGGCTTAG
1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA
*
2196243 AA-GGAGAAAGGTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA
*
2196276 AA--G-----GGTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA
*
2196303 AAGGGAAAAAGAGTGCCACGGAATTGTGGGCTTAA
1 AAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTTAA
2196338 AAGGG
1 AAGGG
2196343 TGCCACGGAG
Statistics
Matches: 146, Mismatches: 13, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
27 25 0.17
29 1 0.01
32 1 0.01
33 34 0.23
34 29 0.20
35 50 0.34
36 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.36, T:0.18
Consensus pattern (34 bp):
AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA
Found at i:2196286 original size:27 final size:27
Alignment explanation
Indices: 2196214--2196365 Score: 133
Period size: 27 Copynumber: 5.1 Consensus size: 27
2196204 CTTTAAAAAG
* *
2196214 AAAAAGGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
2196241 AGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT
*
2196274 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
2196301 AAAAGGGAAAAAGAGTGCCACGGAATTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
2196336 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
2196363 AAA
1 AAA
2196366 GATGAAAATG
Statistics
Matches: 104, Mismatches: 7, Indels: 28
0.75 0.05 0.20
Matches are distributed among these distances:
27 48 0.46
28 3 0.03
29 1 0.01
30 3 0.03
32 2 0.02
33 23 0.22
34 1 0.01
35 23 0.22
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:2196336 original size:62 final size:60
Alignment explanation
Indices: 2196214--2196365 Score: 232
Period size: 62 Copynumber: 2.5 Consensus size: 60
2196204 CTTTAAAAAG
* * * * * *
2196214 AAAAAGGTGCCACAGAGTTGTGGGCTTAGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAATTGTGGGCTT
2196274 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAATTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG-GTGCCACGGAATTGTGGGCTT
2196336 AAAAGGGTGCCACGGAGTTGTGGACTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA
2196366 GATGAAAATG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 27 0.32
61 7 0.08
62 50 0.60
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAATTGTGGGCTT
Found at i:2196517 original size:52 final size:55
Alignment explanation
Indices: 2196431--2196540 Score: 163
Period size: 52 Copynumber: 2.1 Consensus size: 55
2196421 ATTCGGATTG
* *
2196431 AAGATGAGAAACAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
1 AAGATGAGAAACAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTA
* *
2196486 AAGATG-GAAA-AGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1 AAGATGAGAAACAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTA
2196538 AAG
1 AAG
2196541 GTGCCTGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
52 38 0.75
53 3 0.06
54 4 0.08
55 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (55 bp):
AAGATGAGAAACAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTA
Found at i:2196780 original size:21 final size:21
Alignment explanation
Indices: 2196747--2196787 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2196737 CTAAGTAAAA
2196747 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
2196768 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
2196788 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:2196852 original size:20 final size:19
Alignment explanation
Indices: 2196827--2196897 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
2196817 ACCCTGAAAA
2196827 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
2196847 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
2196866 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
2196887 GTATCGATACA
1 GTATCGATACA
2196898 GGACATTGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:2196950 original size:53 final size:53
Alignment explanation
Indices: 2196867--2197003 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
2196857 AAATTGCATA
2196867 GTATCGATACACACAAATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT
* *
2196921 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT
* *
2196974 GTATCGATACACAAAATATGTATCAATACA
1 GTATCGATACACACAATATGTATCGATACA
2197004 TTGGAAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT
Found at i:2197070 original size:21 final size:22
Alignment explanation
Indices: 2197036--2197091 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
2197026 TTTCACTGTT
*
2197036 CATCACTGTTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
2197058 CATCACT-TTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
2197079 CATCACTATTCAT
1 CATCACTATTCAT
2197092 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:2197735 original size:34 final size:35
Alignment explanation
Indices: 2197672--2197738 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2197662 CTAAGTGATT
2197672 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
2197708 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
2197739 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:2198064 original size:48 final size:49
Alignment explanation
Indices: 2197989--2198130 Score: 214
Period size: 48 Copynumber: 2.9 Consensus size: 49
2197979 TGAGCTCACA
2197989 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG
* * *
2198037 GTGCCAATGTGCTGATTCAAGGGCAGCTGCATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG
* * *
2198086 GTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGG
2198131 GTTGCCACTG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 43 0.52
49 37 0.45
50 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG
Found at i:2198169 original size:33 final size:32
Alignment explanation
Indices: 2198118--2198324 Score: 276
Period size: 33 Copynumber: 6.4 Consensus size: 32
2198108 CCAGCTATAT
*
2198118 TGGGC-TTAGA-AGGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
2198148 TGGGCTTTAGAGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAG-GGTTGCCACCGACTTGTG
* * * *
2198181 TGGGCTTTGGAAAAATGGTTGCCACCAACTTGTG
1 TGGGCTTT--AGAGAGGGTTGCCACCGACTTGTG
2198215 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
* *
2198248 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
*
2198281 TGGGCTTTAGAGAGGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
2198313 TGGGCTTT-GAGA
1 TGGGCTTTAGAGA
2198325 AGAACAAGAG
Statistics
Matches: 157, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
30 5 0.03
31 9 0.06
32 29 0.18
33 86 0.55
34 25 0.16
35 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:2198238 original size:67 final size:65
Alignment explanation
Indices: 2198130--2198321 Score: 312
Period size: 67 Copynumber: 2.9 Consensus size: 65
2198120 GGCTTAGAAG
**
2198130 GGTTGCCACTGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCGACTTGTGTGGGCTTTGGAAAA
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAG-GGTTGCCACCGACTTGTGTGGGCTTTGG-AAA
2198195 AT
64 AT
* *
2198197 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAA
2198262 T
65 T
*
2198263 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACTGACTTGTGTGGGCTTTG
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTG
2198322 AGAAGAACAA
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
65 27 0.23
66 34 0.29
67 55 0.47
68 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31
Consensus pattern (65 bp):
GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAT
Found at i:2198374 original size:34 final size:34
Alignment explanation
Indices: 2198330--2198394 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
2198320 TGAGAAGAAC
*
2198330 AAGAGTGCCACGGAGTCGTGGACTTAAAAGGAAA
1 AAGAATGCCACGGAGTCGTGGACTTAAAAGGAAA
* *
2198364 AAGAATGCCACGGAGTTGTGGGCTTAAAAGG
1 AAGAATGCCACGGAGTCGTGGACTTAAAAGG
2198395 GCTTAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.34, T:0.17
Consensus pattern (34 bp):
AAGAATGCCACGGAGTCGTGGACTTAAAAGGAAA
Found at i:2198492 original size:33 final size:32
Alignment explanation
Indices: 2198405--2198698 Score: 219
Period size: 33 Copynumber: 9.2 Consensus size: 32
2198395 GCTTAAAAGG
*
2198405 GGACTAAAAAGGAAAAAGAGTGCCACGGAGTTGT
1 GGACTTAAAAGG-AAAAG-GTGCCACGGAGTTGT
* *
2198439 GGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
1 GGAC-TT-AAAAGGAAAAGGTGCCACGGAGTTGT
*
2198473 GGACTTAAAAGGAACAAGGTGCCATGGAGTTGT
1 GGACTTAAAAGGAA-AAGGTGCCACGGAGTTGT
* *
2198506 GGACTTAAAA-G----GGTGCCACAGAGTTAT
1 GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT
*
2198533 GGACTTAAAAGGAGAAAGGTGCCATGGAGTTGT
1 GGACTTAAAAGGA-AAAGGTGCCACGGAGTTGT
* * * * *
2198566 GGACTTTGAGAGGAAAAGATGCTACTGAGTTGT
1 GGAC-TTAAAAGGAAAAGGTGCCACGGAGTTGT
** * *
2198599 GGACTT-GGAGGAAAAGGATGCCACTGAGTCGT
1 GGACTTAAAAGGAAAAGG-TGCCACGGAGTTGT
* * * **
2198631 GGACTTAGAA--AAGAGATGCCACTAAGTTGT
1 GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT
** * * *
2198661 GGACTTTGAA-GAAAAGATGCCACTGAGTCGT
1 GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT
2198692 GGACTTA
1 GGACTTA
2198699 GAAAAGAGAT
Statistics
Matches: 215, Mismatches: 32, Indels: 29
0.78 0.12 0.11
Matches are distributed among these distances:
27 23 0.11
28 1 0.00
30 21 0.10
31 36 0.17
32 28 0.13
33 67 0.31
34 28 0.13
35 6 0.03
36 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (32 bp):
GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT
Found at i:2198517 original size:26 final size:26
Alignment explanation
Indices: 2198488--2198544 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
2198478 TAAAAGGAAC
** *
2198488 AAGGTGCCATGGAGTTGTGGACTTAA
1 AAGGTGCCACAGAGTTATGGACTTAA
2198514 AAGGGTGCCACAGAGTTATGGACTTAA
1 AA-GGTGCCACAGAGTTATGGACTTAA
2198541 AAGG
1 AAGG
2198545 AGAAAGGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (26 bp):
AAGGTGCCACAGAGTTATGGACTTAA
Found at i:2198524 original size:60 final size:60
Alignment explanation
Indices: 2198452--2198571 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
2198442 CTTTAAAAAG
* *
2198452 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA-ACAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAGA-AAGGTGCCATGGAGTTGTGGACTT
*
2198512 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTT
2198572 TGAGAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 55 0.98
61 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (60 bp):
AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTT
Found at i:2198596 original size:93 final size:91
Alignment explanation
Indices: 2198418--2198698 Score: 259
Period size: 93 Copynumber: 3.0 Consensus size: 91
2198408 CTAAAAAGGA
* * * * * **
2198418 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGAGAAAGGTGCCATGGAGTTGTGGACTTTGAA
*
2198483 GGAACAAGGTGCCA-TGGAGTTGTGGACTT
64 GGAA-AAGATGCCACT-GAGTTGTGGACTT
*
2198512 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTTTGAGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAA-GAGAAAGGTGCCATGGAGTTGTGGACTTTGA-A
*
2198577 GGAAAAGATGCTACTGAGTTGTGGACTT
64 GGAAAAGATGCCACTGAGTTGTGGACTT
* * * * *
2198605 GGAGGAAAAGGATGCCACTGAGTCGTGGACTTAGAAA-AG--AGATGCCACT-AAGTTGTGGACT
1 -----AAAAGGGTGCCACAGAGTTGTGGACTTA-AAAGAGAAAGGTGCCA-TGGAGTTGTGGACT
*
2198666 TTGAA-GAAAAGATGCCACTGAGTCGTGGACTT
59 TTGAAGGAAAAGATGCCACTGAGTTGTGGACTT
2198698 A
1 A
2198699 GAAAAGAGAT
Statistics
Matches: 159, Mismatches: 18, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
88 1 0.01
92 4 0.03
93 74 0.47
94 28 0.18
95 22 0.14
96 1 0.01
97 2 0.01
98 24 0.15
99 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (91 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAGGTGCCATGGAGTTGTGGACTTTGAAGG
AAAAGATGCCACTGAGTTGTGGACTT
Found at i:2198651 original size:30 final size:30
Alignment explanation
Indices: 2198582--2198798 Score: 222
Period size: 30 Copynumber: 7.1 Consensus size: 30
2198572 TGAGAGGAAA
* *
2198582 AGATGCTACTGAGTTGTGGACTTGGAGGAAAAG
1 AGATGCCACTGAGTCGTGGACTT--A-GAAAAG
2198615 -GATGCCACTGAGTCGTGGACTTAGAAAAG
1 AGATGCCACTGAGTCGTGGACTTAGAAAAG
* * * *
2198644 AGATGCCACTAAGTTGTGGACTTTGAAGAAA
1 AGATGCCACTGAGTCGTGGACTTAGAA-AAG
2198675 AGATGCCACTGAGTCGTGGACTTAGAAAAG
1 AGATGCCACTGAGTCGTGGACTTAGAAAAG
* **
2198705 AGATGCCACTGAGTCATTAACTTTGAGAAAAG
1 AGATGCCACTGAGTCGTGGAC-TT-AGAAAAG
* * * *
2198737 AGATG-CAATGAGTTGTGGACTTTGAGAAG
1 AGATGCCACTGAGTCGTGGACTTAGAAAAG
* * *
2198766 AGATGCCACAGAGTCGTGGACTTTGAGAAG
1 AGATGCCACTGAGTCGTGGACTTAGAAAAG
2198796 AGA
1 AGA
2198799 GATTTGAAGA
Statistics
Matches: 156, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
29 16 0.10
30 70 0.45
31 38 0.24
32 32 0.21
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (30 bp):
AGATGCCACTGAGTCGTGGACTTAGAAAAG
Found at i:2198780 original size:91 final size:90
Alignment explanation
Indices: 2198559--2198798 Score: 286
Period size: 91 Copynumber: 2.6 Consensus size: 90
2198549 AGGTGCCATG
* *
2198559 GAGTTGTGGACTTTGAGAGGAAAAGATGCTACTGAGTTGTGGACTTGGAGGAAAAG-GATGCCAC
1 GAGTTGTGGACTTT--GA-GAAAAGATGCCACTGAGTCGTGGACTT--A-GAAAAGAGATGCCAC
* * *
2198623 TGAGTCGTGGACTTAGAAAAGAGATGCCACT
60 TGAGTCATGAACTTAGAAAAGAGATGCCAAT
*
2198654 AAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGT
1 GAGTTGTGGACTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGT
*
2198719 CATTAACTTTGAGAAAAGAGATG-CAAT
65 CATGAAC-TT-AGAAAAGAGATGCCAAT
* * * *
2198746 GAGTTGTGGACTTTGAGAAGAGATGCCACAGAGTCGTGGACTTTGAGAAGAGA
1 GAGTTGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA
2198799 GATTTGAAGA
Statistics
Matches: 129, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
90 6 0.05
91 52 0.40
92 19 0.15
93 38 0.29
94 1 0.01
95 13 0.10
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.23
Consensus pattern (90 bp):
GAGTTGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTC
ATGAACTTAGAAAAGAGATGCCAAT
Found at i:2198792 original size:61 final size:62
Alignment explanation
Indices: 2198582--2198801 Score: 252
Period size: 61 Copynumber: 3.6 Consensus size: 62
2198572 TGAGAGGAAA
* * * *
2198582 AGATGCTACTGAGTTGTGGACTTGGAGGAAAAG-GATGCCACTGAGTCGTGGACTTAGAAAAG
1 AGATGCCACAGAGTCGTGGACTTTGA-GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG
*
2198644 AGATGCCACTA-AGTTGTGGACTTTGA-AGAAA-AGATGCCACTGAGTCGTGGACTTAGAAAAG
1 AGATGCCAC-AGAGTCGTGGACTTTGAGA-AAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG
* * ** * * * *
2198705 AGATGCCACTGAGTCATTAACTTTGAGAAAAGAGATG-CAATGAGTTGTGGACTTTGAGAAG
1 AGATGCCACAGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG
*
2198766 AGATGCCACAGAGTCGTGGACTTTGAGAAGAGAGAT
1 AGATGCCACAGAGTCGTGGACTTTGAGAAAAGAGAT
2198802 TTGAAGAATT
Statistics
Matches: 135, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
60 1 0.01
61 106 0.79
62 28 0.21
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (62 bp):
AGATGCCACAGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG
Found at i:2206998 original size:52 final size:52
Alignment explanation
Indices: 2206928--2207048 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
2206918 GAAAATTTAT
* *
2206928 CTGCGTGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2206980 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2207032 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2207049 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2207061 original size:52 final size:52
Alignment explanation
Indices: 2206928--2207068 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
2206918 GAAAATTTAT
* *
2206928 CTGCGTGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
2206980 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
2207032 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
2207069 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2207075 original size:13 final size:13
Alignment explanation
Indices: 2207057--2207081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2207047 CAAAGATCAG
2207057 TGTATCGATACAA
1 TGTATCGATACAA
2207070 TGTATCGATACA
1 TGTATCGATACA
2207082 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2207164 original size:13 final size:13
Alignment explanation
Indices: 2207146--2207170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2207136 AAAAAAAATA
2207146 TGTATCGATACAT
1 TGTATCGATACAT
2207159 TGTATCGATACA
1 TGTATCGATACA
2207171 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2207547 original size:49 final size:49
Alignment explanation
Indices: 2207482--2207999 Score: 456
Period size: 49 Copynumber: 11.1 Consensus size: 49
2207472 CAATATCGGA
*
2207482 CTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * ** *
2207531 CCTAAAGAT-AATGGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGA
1 CTTAAAGATGAA-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * *** *
2207580 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTTGGCGACATTGGA
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * *
2207629 CTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGT
1 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
*
2207681 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGT
* * *
2207730 C-T-----T----GTGCCAATATGCTGATTCAGGGCTAGTGACATTGGT
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * *
2207769 CTTAAAGATGAAGGTGCCAATATGCTGATTCATGGCCAGCGATATTGGG
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * * *
2207818 C-T-----T----GTGCCAATGTGCTGAGTCAAGGCCAACGACATTAGT
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * *
2207857 CTTAAAGATGAAGGTGCCAATATGTTGATTCATGGCCAGCGATATTAGG-
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGT
2207906 C-T-----T----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
* * *
2207945 CTTAAAGATGAA-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
2207993 CTTAAAG
1 CTTAAAG
2208000 GTGCCACGGA
Statistics
Matches: 376, Mismatches: 55, Indels: 77
0.74 0.11 0.15
Matches are distributed among these distances:
38 4 0.01
39 91 0.24
40 3 0.01
43 3 0.01
45 3 0.01
48 45 0.12
49 179 0.48
50 6 0.02
51 1 0.00
52 41 0.11
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT
Found at i:2207693 original size:101 final size:98
Alignment explanation
Indices: 2207476--2207999 Score: 405
Period size: 88 Copynumber: 5.6 Consensus size: 98
2207466 TGTCGACAAT
*
2207476 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCCTAAAGATA
1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGATA
* *
2207541 ATGGTGCCAATATGCTGATTCAAGGCCAGCGAT
66 ATGGTGCCAATATGCTGATTCAAGGCCAACGAC
* * *** *
2207574 ACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTTGGCGACATTGGACTTAAAGATG
1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGA--
*
2207639 GTTAA-GGTGCCAATGTGCTGATTCAAGGCCAACGAC
64 --TAATGGTGCCAATATGCTGATTCAAGGCCAACGAC
* * *
2207675 ATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG--C------T
1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACCTAAAGAT
* * **
2207732 --T-GTGCCAATATGCTGATTCAGGGCTAGTGAC
65 AATGGTGCCAATATGCTGATTCAAGGCCAACGAC
* * * * * *
2207763 ATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCATGGCCAGCGATATTGG-------GCT-
1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGATA
* *
2207820 -T-GTGCCAATGTGCTGAGTCAAGGCCAACGAC
66 ATGGTGCCAATATGCTGATTCAAGGCCAACGAC
** * * * * *
2207851 ATTAGTCTTAAAGATGAAGGTGCCAATATGTTGATTCATGGCCAGCGATATTAGG--C------T
1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACCTAAAGAT
*
2207908 --T-GTGCCAATATGCTGATTCAAGGCCAGCGAC
65 AATGGTGCCAATATGCTGATTCAAGGCCAACGAC
* * * * * *
2207939 ATTGGTCTTAAAGATGAA-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAG
2208000 GTGCCACGGA
Statistics
Matches: 367, Mismatches: 42, Indels: 39
0.82 0.09 0.09
Matches are distributed among these distances:
86 2 0.01
87 32 0.09
88 197 0.54
89 2 0.01
90 1 0.00
98 56 0.15
101 72 0.20
102 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (98 bp):
ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGATA
ATGGTGCCAATATGCTGATTCAAGGCCAACGAC
Found at i:2207748 original size:39 final size:39
Alignment explanation
Indices: 2207694--2207937 Score: 175
Period size: 39 Copynumber: 5.7 Consensus size: 39
2207684 AAAGATGAAG
2207694 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
* * * *
2207733 GTGCCAATATGCTGATTCAGGGCTAGTGACATT-GGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-C-T-----T
* *
2207778 GAAGGTGCCAATATGCTGATTCATGGCCAGCGATATTGGGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
* * * * *
2207821 GTGCCAATGTGCTGAGTCAAGGCCAACGACATTAGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGC-T-----T
* *
2207866 GAAGGTGCCAATATGTTGATTCATGGCCAGCGATATTAGGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
2207909 GTGCCAATATGCTGATTCAAGGCCAGCGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGA
2207938 CATTGGTCTT
Statistics
Matches: 159, Mismatches: 24, Indels: 44
0.70 0.11 0.19
Matches are distributed among these distances:
38 2 0.01
39 87 0.55
40 2 0.01
43 2 0.01
45 2 0.01
48 2 0.01
49 60 0.38
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
Found at i:2207794 original size:88 final size:88
Alignment explanation
Indices: 2207645--2207989 Score: 548
Period size: 88 Copynumber: 3.9 Consensus size: 88
2207635 GATGGTTAAG
* *
2207645 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
2207710 TCAAGGCCAGCGATATTAGGCTT
66 TCAAGGCCAGCGATATTAGGCTT
* * **
2207733 GTGCCAATATGCTGATTCAGGGCTAGTGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
* *
2207798 TCATGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTAGGCTT
* * * *
2207821 GTGCCAATGTGCTGAGTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
2207886 TCATGGCCAGCGATATTAGGCTT
66 TCAAGGCCAGCGATATTAGGCTT
* *
2207909 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAA-ATGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
2207973 TCAAGGCCAGCGATATT
66 TCAAGGCCAGCGATATT
2207990 GGACTTAAAG
Statistics
Matches: 233, Mismatches: 24, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
87 30 0.13
88 203 0.87
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (88 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTAGGCTT
Found at i:2208053 original size:33 final size:33
Alignment explanation
Indices: 2208001--2208277 Score: 252
Period size: 33 Copynumber: 8.5 Consensus size: 33
2207991 GACTTAAAGG
* *
2208001 TGCCACGGAGTTGTAGACTTCAAAGGAA-AATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-GA
* *
2208034 TGCCACGTAATTGTGGACTTAAAAGGAACAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA
2208067 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA
2208100 TGCCACGGAGTTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA
* * * *
2208127 TGCCACAGAATTATGGACTTAAAAGGAAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-GA
* ** * * *
2208161 TACCACAAAGTTGTGGGCTTTAAAAAGAA-AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGA
* *
2208194 TGCCACGGAGTTGTGGACTTAAAACGAA-AAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA
*
2208226 TGCCACGGAGTTGTCGG-CTTAAAAGGGAA-AAGGG
1 TGCCACGGAGTTGT-GGACTTAAAA-GGAACAA-GA
* *
2208260 TGCCACGAAGTCGTGGAC
1 TGCCACGGAGTTGTGGAC
2208278 GTTGAGAAGA
Statistics
Matches: 207, Mismatches: 24, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
27 23 0.11
28 1 0.00
32 34 0.16
33 108 0.52
34 32 0.15
35 9 0.04
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA
Found at i:2208114 original size:66 final size:65
Alignment explanation
Indices: 2207996--2208277 Score: 292
Period size: 66 Copynumber: 4.4 Consensus size: 65
2207986 TATTGGACTT
* * * * *
2207996 AAAGGTGCCACGGAGTTGTAGACTTCAAAGGAAAATGATGCCACGTAATTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
*
2208061 ACAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAA-GATGCCACGGAGTTGTGGACTTAAAA-
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAGGATGCCACGGAGTTGTGGACTTAAAAG
2208124 G-
64 GA
* * * * ** * *
2208125 ---GGTGCCACAGAATTATGGACTTAAAAGGAAAAAGGATACCACAAAGTTGTGGGCTTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAG
2208187 GA
64 GA
*
2208189 AAAGGTGCCACGGAGTTGTGGACTTAAAACGAAAAGG-TGCCACGGAGTTGTCGG-CTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACGGAGTTGT-GGACTTAAAA-G
2208252 GA
64 GA
* *
2208254 AAAGGGTGCCACGAAGTCGTGGAC
1 AAA-GGTGCCACGGAGTTGTGGAC
2208278 GTTGAGAAGA
Statistics
Matches: 181, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
60 26 0.14
61 18 0.10
62 6 0.03
63 1 0.01
64 6 0.03
65 19 0.10
66 79 0.44
67 26 0.14
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (65 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:2208167 original size:34 final size:33
Alignment explanation
Indices: 2208120--2208265 Score: 111
Period size: 32 Copynumber: 4.4 Consensus size: 33
2208110 TTGTGGACTT
* * *
2208120 AAAAGGGTGCCACAGAATTATGGACTTAAAAGG
1 AAAAAGGTGCCACAGAATTGTGGACTTAAAAAG
* *
2208153 AAAAAGGATACCACA-AAGTTGTGGGCTTTAAAAAG
1 AAAAAGG-TGCCACAGAA-TTGTGGAC-TTAAAAAG
* * *
2208188 -AAAAGGTGCCACGGAGTTGTGGACTTAAAACG
1 AAAAAGGTGCCACAGAATTGTGGACTTAAAAAG
* * *
2208220 -AAAAGGTGCCACGGAGTTGTCGG-CTTAAAAGGG
1 AAAAAGGTGCCACAGAATTGT-GGACTTAAAA-AG
*
2208253 AAAAGGGTGCCAC
1 AAAAAGGTGCCAC
2208266 GAAGTCGTGG
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
32 34 0.36
33 23 0.24
34 30 0.32
35 7 0.07
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.18
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAATTGTGGACTTAAAAAG
Found at i:2208209 original size:94 final size:94
Alignment explanation
Indices: 2207996--2208217 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 94
2207986 TATTGGACTT
* * *
2207996 AAAGGTGCCACGGAGTTGTAGACTTCAAAGGAAAATGATGCCACGTAATTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG---A-GATGCCACGTAATTATGGACTTAAAAGGA
* * ** *
2208061 ACAAGATGCCACGGAGTTGTGGACTTAAAAGGA
62 AAAAGATACCACAAAGTTGTGGACTTAAAAAGA
*
2208094 ACAAGATGCCACGGAGTTGTGGACTTAAAAGG-G-TGCCACAG-AATTATGGACTTAAAAGGAAA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCAC-GTAATTATGGACTTAAAAGGAAA
*
2208156 AAGGATACCACAAAGTTGTGGGCTTTAAAAAGA
64 AA-GATACCACAAAGTTGTGGAC-TTAAAAAGA
2208189 AAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA
2208218 CGAAAAGGTG
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
93 27 0.25
94 45 0.41
95 9 0.08
98 1 0.01
99 27 0.25
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (94 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCACGTAATTATGGACTTAAAAGGAAAAA
GATACCACAAAGTTGTGGACTTAAAAAGA
Found at i:2208233 original size:126 final size:126
Alignment explanation
Indices: 2207989--2208252 Score: 333
Period size: 126 Copynumber: 2.1 Consensus size: 126
2207979 CCAGCGATAT
* * * * * * *
2207989 TGGACTT-AAA-GGTGCCACGGAGTTGTAGACTTCAAAGGAAAATGATGCCACGTAATTGTGGAC
1 TGGACTTAAAAGGGTGCCACAGAATTATAGACTTAAAAGGAAAAGGATACCACGAAATTGTGGAC
* *
2208052 TTAAAAGGAACAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGATGCCACGGAGTTG
66 TTAAAAAGAACAAGATGCCACGGAGTTGTGGACTTAAAACGAACAAGATGCCACGGAGTTG
*
2208113 TGGACTTAAAAGGGTGCCACAGAATTATGGACTTAAAAGGAAAAAGGATACCAC-AAAGTTGTGG
1 TGGACTTAAAAGGGTGCCACAGAATTATAGACTTAAAAGG-AAAAGGATACCACGAAA-TTGTGG
* * *
2208177 GCTTTAAAAAGAA-AAGGTGCCACGGAGTTGTGGACTTAAAACGAA-AAGGTGCCACGGAGTTG
64 AC-TTAAAAAGAACAAGATGCCACGGAGTTGTGGACTTAAAACGAACAAGATGCCACGGAGTTG
2208239 TCGG-CTTAAAAGGG
1 T-GGACTTAAAAGGG
2208253 AAAAGGGTGC
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
124 7 0.06
125 3 0.02
126 52 0.43
127 50 0.41
128 9 0.07
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.20
Consensus pattern (126 bp):
TGGACTTAAAAGGGTGCCACAGAATTATAGACTTAAAAGGAAAAGGATACCACGAAATTGTGGAC
TTAAAAAGAACAAGATGCCACGGAGTTGTGGACTTAAAACGAACAAGATGCCACGGAGTTG
Found at i:2208306 original size:31 final size:31
Alignment explanation
Indices: 2208260--2208405 Score: 172
Period size: 31 Copynumber: 4.7 Consensus size: 31
2208250 GGGAAAAGGG
* *
2208260 TGCCAC-GAAGTCGTGGACGTTG-AGAAGAGA
1 TGCCACTG-AGTCGTGGACTTTGAAGAAAAGA
*
2208290 TTGCCACTGAGCCGTGGACTTTGAAGAAAAGGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAA-GA
* * *
2208323 TGCCATTGAGTCGTGGACTTAGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
2208353 TGCCACTGGGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
2208384 TGCCACTGAGTCGTGGACTTTG
1 TGCCACTGAGTCGTGGACTTTG
2208406 GGAAAAAAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
30 22 0.23
31 46 0.47
32 27 0.28
33 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:2209383 original size:20 final size:20
Alignment explanation
Indices: 2209358--2209432 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
2209348 TTTTACCCAG
2209358 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2209378 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2209398 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2209418 ATGTATCCATACATT
1 ATGTATCGATACATT
2209433 CTGTCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2224470 original size:28 final size:28
Alignment explanation
Indices: 2224410--2224620 Score: 226
Period size: 28 Copynumber: 7.4 Consensus size: 28
2224400 TCATCTCTTT
*
2224410 AAAGCGCACAAGTCAGTGGCATCCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* * *
2224439 ATAGCCCATAAGTCGGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
2224467 ATAGCCCACAAGTCAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * *
2224495 AAAGCCCATAAGTCAGTGGCAACTCTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * * *
2224523 AAAGCCTACAAGTTAGAGGCACCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
2224551 AAAACCCACAAGTCAGTGGCATCCTTTT-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* *
2224579 AAAGCCCACACAAGTCGGTGGCAACTTTCTC
1 AAAG-CC-CACAAGTCAGTGGCACCTTT-TC
2224610 TAAAGCCCACA
1 -AAAGCCCACA
2224621 CAAATTGGTG
Statistics
Matches: 151, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
28 98 0.65
29 28 0.19
30 19 0.13
31 2 0.01
32 4 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTC
Found at i:2224619 original size:32 final size:31
Alignment explanation
Indices: 2224557--2224641 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 31
2224547 TCTCAAAACC
* * *
2224557 CACAAGTCAGTGGCATCCTT-TTAAAGCCCA
1 CACAAGTCGGTGGCAACTTTCTTAAAGCCCA
2224587 CACAAGTCGGTGGCAACTTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACTTTCT-TAAAGCCCA
* *
2224619 CACAAATTGGTGGCAACCTTTCT
1 CACAAGTCGGTGGCAA-CTTTCT
2224642 AAACCTAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
30 17 0.36
31 1 0.02
32 23 0.49
33 6 0.13
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACTTTCTTAAAGCCCA
Found at i:2225341 original size:20 final size:20
Alignment explanation
Indices: 2225316--2225392 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
2225306 TTTCACCCAA
2225316 ATGTATCGATACATTTTTCG
1 ATGTATCGATACATTTTTCG
** *
2225336 ATGTATCGATACAGGTAT-G
1 ATGTATCGATACATTTTTCG
* * *
2225355 AATGTATTGATACATTCTTCA
1 -ATGTATCGATACATTTTTCG
2225376 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
2225393 GTCTTTTTAC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.98
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCG
Found at i:2225418 original size:51 final size:51
Alignment explanation
Indices: 2225356--2225490 Score: 202
Period size: 51 Copynumber: 2.7 Consensus size: 51
2225346 ACAGGTATGA
* * *
2225356 ATGTATTGATACATTCTTCAATGTATCGATACATTTTGTCTTTTTACCC-T
1 ATGTATCGATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAT
*
2225406 GATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCAT
1 -ATGTATCGATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAT
*
2225458 ATGTATCGATACTTTATTCAATGTATC-ATACAT
1 ATGTATCGATACATTATTCAATGTATCGATACAT
2225491 CTAGTTAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
50 6 0.08
51 71 0.91
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (51 bp):
ATGTATCGATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAT
Found at i:2231650 original size:4 final size:4
Alignment explanation
Indices: 2231641--2231671 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
2231631 AAACAAAACA
*
2231641 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2231672 CACCTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2233825 original size:79 final size:79
Alignment explanation
Indices: 2233724--2233955 Score: 272
Period size: 79 Copynumber: 2.9 Consensus size: 79
2233714 TATTTTGGAG
* * *
2233724 ATAAAACTCG-GGATTGGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAA
1 ATAAAAC-CGAGG-TTGGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAA
* *
2233788 AATTGGTGTTTTGGAA
64 AATTAGTGTTTTGAAA
* * * * * *
2233804 ATAAAACC-AGAGTTGGAGTATCCTTTTGAAAATAATGGGGTTGGAGTATCCCCAATTATGGAAT
1 ATAAAACCGAG-GTTGGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAA
* *
2233868 ATCAATGTTTTGAAA
65 ATTAGTGTTTTGAAA
* *
2233883 ATAAAACCGAGGTTGGAGTGTCCTCTCGAAAATAAC-AGGGTTGGAGTATCCCCAATTATGAAAA
1 ATAAAACCGAGGTTGGAGTATCCTCTAGAAAATAACGA-GGTTGGAGTATCCCCAATTATGAAAA
2233947 ATTAGTGTT
65 ATTAGTGTT
2233956 CTCCTCGAAA
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 116 0.92
80 10 0.08
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
ATAAAACCGAGGTTGGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAA
TTAGTGTTTTGAAA
Found at i:2233982 original size:52 final size:51
Alignment explanation
Indices: 2233899--2234000 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
2233889 CCGAGGTTGG
*
2233899 AGTGTCCTCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATT
1 AGTGTCCTCTCGAAAATAACAGGGTTAGAGTATCCCCAATTATGAAAAATT
* * *
2233950 AGTGTTCTCCTCGAAAATAAC-GAGGTTAGAGTATCTCCGATTATGAAAAAT
1 AGTGTCCT-CTCGAAAATAACAG-GGTTAGAGTATCCCCAATTATGAAAAAT
2234001 CGATATTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 8 0.18
52 37 0.82
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (51 bp):
AGTGTCCTCTCGAAAATAACAGGGTTAGAGTATCCCCAATTATGAAAAATT
Found at i:2234118 original size:209 final size:210
Alignment explanation
Indices: 2233752--2234143 Score: 461
Period size: 209 Copynumber: 1.9 Consensus size: 210
2233742 GTATCCCCTA
* * * * *
2233752 GAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCAGAGT
1 GAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGATTTGGAAATAAAACCAGAGT
* * * * * * * *
2233817 TGGAGTATCCTTTTGAAAATAATGGGGTTGGAGTATCCCCAATTATGGAATATCAATGTTTTGAA
66 TAGAGTATCCCTTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAA
* *
2233882 AATAAAACCGAGGTTGGAGTGTCCTCTC-GAAAATAACAGGGTTGGAGTATCCCCAATTATGAAA
131 AATAAAACCGAGGTTGAAGTATCCTCTCAG-AAATAACAGGGTTGGAGTATCCCCAATTATGAAA
2233946 AATTAGTGTTCTCCTC
195 AATTAGTGTTCTCCTC
* * *
2233962 GAAAATAACGAGGTTAGAGTATCTCCGATTATGAAAAATCGAT-ATTTGGAAATAAAA-TAGGGG
1 GAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGATTTGGAAATAAAACCA-GAG
* * ** *
2234025 TTAGAGTATCCCCTTAG-AAATAACGAGGTTGGAGTGTCTCTGATTGTGAAAAATCAATATTTT-
65 TTAGAGTAT-CCCTTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTG
* * ** *
2234088 AGAAATAAAGCCGGGGTTGAAGTATCCTCTCAGAAATAATGGGGTTGGAGTGTCCC
129 A-AAATAAAACCGAGGTTGAAGTATCCTCTCAGAAATAACAGGGTTGGAGTATCCC
2234144 TAATGGTGGA
Statistics
Matches: 150, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
208 2 0.01
209 104 0.69
210 44 0.29
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (210 bp):
GAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGATTTGGAAATAAAACCAGAGT
TAGAGTATCCCTTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAA
AATAAAACCGAGGTTGAAGTATCCTCTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAA
ATTAGTGTTCTCCTC
Found at i:2234125 original size:79 final size:79
Alignment explanation
Indices: 2233964--2234331 Score: 329
Period size: 79 Copynumber: 4.7 Consensus size: 79
2233954 TTCTCCTCGA
* * **
2233964 AAATAACGAGGTTAGAGTATCTCC-GATTATGAAAAATC-G-ATATTTGGAAATAAAATAGGGGT
1 AAATAACGAGGTTGGAGTATC-CCTGATTGTGAAAAATCAGTAT-TTTGGAAATAAAACCGGGGT
*
2234026 T-AGAGTATCCCCTTAG
64 TGA-AGTATCCCCTCAG
* * * * *
2234042 AAATAACGAGGTTGGAGTGTCTCTGATTGTGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTG
1 AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGGGTTG
*
2234107 AAGTATCCTCTCAG
66 AAGTATCCCCTCAG
* * * * * * * *
2234121 AAATAATGGGGTTGGAGTGTCCCTAATGGTGGAAAAT-AGGTGTTTTGGAAATAAAATCGGGGTT
1 AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCA-GTATTTTGGAAATAAAACCGGGGTT
*
2234185 GGAGTATCCCCTCAG
65 GAAGTATCCCCTCAG
* * * * *
2234200 AAATAAC-AGGGTTAGAGTATCCCTGATTATGGAAAATCAGTGTTTTGGAAATAAAACTGGGGTT
1 AAATAACGA-GGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGGGTT
* * * *
2234264 GGAGGATCACCTTA-
65 GAAGTATCCCCTCAG
* * * * *
2234278 AAATAACGAGGTTGGAGTATCCCCGGTTGTG-GAAATCGGTATTTTAGAAATAAA
1 AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAA
2234332 GACATCAATG
Statistics
Matches: 238, Mismatches: 44, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
77 20 0.08
78 58 0.24
79 156 0.66
80 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (79 bp):
AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGGGTTG
AAGTATCCCCTCAG
Found at i:2235641 original size:11 final size:11
Alignment explanation
Indices: 2235608--2235635 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2235598 ATGGTGATGG
2235608 CAAGATATCAT
1 CAAGATATCAT
2235619 CAAGATATCAT
1 CAAGATATCAT
2235630 CAAGAT
1 CAAGAT
2235636 GACATCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (11 bp):
CAAGATATCAT
Found at i:2238908 original size:13 final size:13
Alignment explanation
Indices: 2238890--2238915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2238880 CAATTTTTTG
2238890 TGTATCGATACAT
1 TGTATCGATACAT
2238903 TGTATCGATACAT
1 TGTATCGATACAT
2238916 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2239663 original size:21 final size:21
Alignment explanation
Indices: 2239622--2239665 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2239612 CTCCCCTTTA
* *
2239622 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2239643 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2239664 TC
1 TC
2239666 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2241489 original size:13 final size:13
Alignment explanation
Indices: 2241471--2241509 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2241461 ATAATCACCC
2241471 TGTATCGATACAA
1 TGTATCGATACAA
2241484 TGTATCGATACAA
1 TGTATCGATACAA
2241497 TGTATCGATACAA
1 TGTATCGATACAA
2241510 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2243600 original size:15 final size:15
Alignment explanation
Indices: 2243580--2243610 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2243570 ATTTCGTTTG
*
2243580 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2243595 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2243610 G
1 G
2243611 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2245442 original size:21 final size:21
Alignment explanation
Indices: 2245413--2245457 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2245403 AAGTTTTCAT
*
2245413 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2245433 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2245455 TTT
1 TTT
2245458 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2254538 original size:20 final size:20
Alignment explanation
Indices: 2254493--2254549 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
2254483 CATAAGTAAA
* **
2254493 TGTATCGATACATTTACTGTT
1 TGTATCGATACATTT-TTCAT
2254514 TGTATCGATACATTTTTCAT
1 TGTATCGATACATTTTTCAT
* *
2254534 TGTATCAATATATTTT
1 TGTATCGATACATTTT
2254550 GGGTTTTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:2257045 original size:51 final size:51
Alignment explanation
Indices: 2256969--2257083 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
2256959 TTTCTGAGGG
* *
2256969 GATACTCCAATCCTAGTTTTATTTCTAAAACACCGATTTTTCACCATCGGA
1 GATACTCCAACCCTAGTTTGATTTCTAAAACACCGATTTTTCACCATCGGA
* * * * *
2257020 GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTTCACCATTGGG
1 GATACTCCAACCCTAGTTTGATTTCTAAAACACCGATTTTTCACCATCGGA
2257071 GATACTCCAACCC
1 GATACTCCAACCC
2257084 CGTTATTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (51 bp):
GATACTCCAACCCTAGTTTGATTTCTAAAACACCGATTTTTCACCATCGGA
Found at i:2257156 original size:79 final size:79
Alignment explanation
Indices: 2257020--2257166 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
2257010 CACCATCGGA
* ***
2257020 GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTTCACCATTGGGGATACTCCAACCCC
1 GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTCCACCATTCAAGATACTCCAACCCC
2257085 GTTATTTTCGAAGG
66 GTTATTTTCGAAGG
* * *
2257099 GATACTCTAACTCTGGTTTTATTTCTAAAATA-TCGATTTTCCACCA-TCAAGACTACTCCAACC
1 GATACTCCAACCCTGGTTTGATTTCTAAAATACT-GATTTTCCACCATTCAAGA-TACTCCAACC
2257162 CCGTT
64 CCGTT
2257167 TTCACTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 4 0.07
79 55 0.93
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.35
Consensus pattern (79 bp):
GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTCCACCATTCAAGATACTCCAACCCC
GTTATTTTCGAAGG
Found at i:2260573 original size:3 final size:3
Alignment explanation
Indices: 2260565--2260598 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2260555 AGTAAAAATA
2260565 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2260599 TATGAATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2260959 original size:44 final size:44
Alignment explanation
Indices: 2260904--2261233 Score: 238
Period size: 44 Copynumber: 7.7 Consensus size: 44
2260894 TTTCATTCTA
* *
2260904 TTTGACGTATGGTTACCACCTTGGTCAAACTCTTCTCATTTCGG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG
* * * * * * *
2260948 TTTGACATATGGTTACCACCCTAGTCAGATTCTTTTTA-TTCTAA
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTC-AG
*
2260992 TTTGACGTATGGTTACCACCCTAGTCAAACAT-TTCTCATTTCAG
1 TTTGACGTATGGTTACCACCCTGGTCAAAC-TCTTCTCATTTCAG
* * * * * *
2261036 TCTAACGTATGGTTACCACCCTGGTCAGATTCTTTTCA-TTCAAA
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTC-AG
* *
2261080 TTTGACATATAGTTACCACCCTGGTCAAACTCTTCTCATTTC--
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG
* * * * * *
2261122 ---G--GTATGGTTATCACCCTGGTCAGATTTTTATCATTT-TG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG
* * *
2261160 ATTTGACATATGGTTACCACCCTAGTCAAA-T-TTGCCTCATTCCTA-
1 -TTTGACGTATGGTTACCACCCTGGTCAAACTCTT--CTCATTTC-AG
* *
2261205 TTTGACGTATGGCTACCACCCTGGCCAAA
1 TTTGACGTATGGTTACCACCCTGGTCAAA
2261234 TGATTTGCAT
Statistics
Matches: 221, Mismatches: 47, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
37 28 0.13
39 1 0.00
42 3 0.01
43 8 0.04
44 174 0.79
45 7 0.03
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG
Found at i:2261047 original size:88 final size:85
Alignment explanation
Indices: 2260890--2261189 Score: 362
Period size: 88 Copynumber: 3.5 Consensus size: 85
2260880 TTAACCAAGT
* * *
2260890 TTCTTTTCATTCT-ATTTGACGTATGGTTACCACCTTGGTCAAACTCTTCTCATTTCGGTTTGAC
1 TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTC-G-TT-AC
* *
2260954 ATATGGTTACCACCCTAGTCAGA
63 GTATGGTTACCACCCTGGTCAGA
* *
2260977 TTCTTTTTATTCTAATTTGACGTATGGTTACCACCCTAGTCAAACAT-TTCTCATTTCAGTCTAA
1 TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAAC-TCTTCTCATTTC-GT-T-A
2261041 CGTATGGTTACCACCCTGGTCAGA
62 CGTATGGTTACCACCCTGGTCAGA
* * *
2261065 TTCTTTTCATTCAAATTTGACATATAGTTACCACCCTGGTCAAACTCTTCTCATTTCG----GTA
1 TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGTTACGTA
*
2261126 TGGTTATCACCCTGGTCAGA
66 TGGTTACCACCCTGGTCAGA
* *
2261146 TT-TTTATCATTTTGATTTGACATATGGTTACCACCCTAGTCAAA
1 TTCTTT-TCATTCTAATTTGACATATGGTTACCACCCTAGTCAAA
2261190 TTTGCCTCAT
Statistics
Matches: 190, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.02
81 57 0.30
87 15 0.08
88 114 0.60
89 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (85 bp):
TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGTTACGTA
TGGTTACCACCCTGGTCAGA
Found at i:2261447 original size:85 final size:84
Alignment explanation
Indices: 2261304--2261561 Score: 365
Period size: 85 Copynumber: 3.0 Consensus size: 84
2261294 TTATCTGATG
* *
2261304 CCTTTTATTCCTCGTTTGCTTATCGACTCAGTCCTTGGTAAACT-CTTTAACCCTTTTGTTGACT
1 CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTT-A-CCTTTTGTTGACT
2261368 TATCGGTTCAACCCTGGTCAA
64 TATCGGTTCAACCCTGGTCAA
* *
2261389 CCTTTTATTCCTCGTTTGCCTGTCAATTCAGTCCTTGGTAAACTCCTTTACCTTTTTGTTGACTT
1 CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTTACC-TTTTGTTGACTT
* * * *
2261454 ATCGGTTTAGCCTTGGTTAA
65 ATCGGTTCAACCCTGGTCAA
* * * *
2261474 CCTTTTATTCTTCGTTTGCCTGTCGACTGAGTCCTTGGTAAACTCTTTTACCCTTTGTTGACTTA
1 CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTTACCTTTTGTTGACTTA
*
2261539 TTGGTTCAACCCTGGTCAA
66 TCGGTTCAACCCTGGTCAA
2261558 CCTT
1 CCTT
2261562 GTATCCCTTC
Statistics
Matches: 152, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 32 0.21
85 116 0.76
86 4 0.03
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43
Consensus pattern (84 bp):
CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTTACCTTTTGTTGACTTA
TCGGTTCAACCCTGGTCAA
Found at i:2262917 original size:165 final size:159
Alignment explanation
Indices: 2262746--2263296 Score: 570
Period size: 165 Copynumber: 3.4 Consensus size: 159
2262736 ATTTGTGTCA
*
2262746 AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAA
1 AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA
* * *
2262811 TCAATTTTCAAAAATTCATTCATTTTCATGAGTTTTAAAGTTTTCCTTAAAATTCTTATATTTTC
66 TCAGTTTTTAAAAATTCATTCATTTTCATGAGTTTT--A-TTTTCCTTGAAATTCTTAT-TTTTC
* *
2262876 AAAATACGGAGTTTTCTACTTCATAAATTTTTTCG
127 GAAATACGGAG-TTTCTACTTCGTAAATTTTTT-G
** ** * *
2262911 AGAGGATTTTTTTTTGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTAATTCATACTAAA
1 AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA
* * *
2262976 TCAGTTTTTATAAAA-TCATTCACTTTCATGAGTTTTTCATTTTTTCCTTGAAACTCTCT-TGTT
66 TCAGTTTTTA-AAAATTCATTCATTTTCATGAG-TTTT-A--TTTTCCTTGAAATTCT-TATTTT
* *
2263039 TCGAAATACAGAG--TCCA-TTCCGTAAATGTTTTTTGG
125 TCGAAATACGGAGTTTCTACTT-CGTAAA--TTTTTT-G
* * * * *
2263075 GGGGGATTTTTCTTA-GTTTTTAATTTTTAAAATTCATGAAATATTATTTTTTAATTCATATTAA
1 AGAGGA-TTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAA
*
2263139 ATTC-GTTTTTAAAAATTCATTCATTTTCATGAG-TTT-TTTTCCTTGAAATCTCCCTATTTTT-
65 A-TCAGTTTTTAAAAATTCATTCATTTTCATGAGTTTTATTTTCCTTGAAAT-T-CTTATTTTTC
* *
2263200 GAAATACGAAGCTTTCTAC-TCTGTAAATTTTTTT
127 GAAATACGGAG-TTTCTACTTC-GTAAATTTTTTG
*
2263234 AG-GGATTTTTA-ATGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAA
1 AGAGGATTTTCATA-GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAA
2263297 TAAAAAATTC
Statistics
Matches: 325, Mismatches: 41, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
156 1 0.00
157 4 0.01
158 62 0.19
159 12 0.04
160 11 0.03
161 3 0.01
162 20 0.06
163 4 0.01
164 80 0.25
165 104 0.32
166 23 0.07
167 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (159 bp):
AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA
TCAGTTTTTAAAAATTCATTCATTTTCATGAGTTTTATTTTCCTTGAAATTCTTATTTTTCGAAA
TACGGAGTTTCTACTTCGTAAATTTTTTG
Found at i:2263487 original size:52 final size:49
Alignment explanation
Indices: 2263362--2263646 Score: 268
Period size: 49 Copynumber: 5.7 Consensus size: 49
2263352 CACATTGGCA
* * *
2263362 TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2263411 TAAGACCGATGTCGTTGACCTTGAATCAGCACATTGGAACCTTAACCATCTT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT---CATCTT
* * *
2263463 TAAGACCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCCT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * * *
2263512 TAAGTCCGATATCGTTGGCCTTGAATCATCATATTGGCATCTTCAACATT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT
* * ** *
2263562 CCTAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA--TTCTTCTT
1 --TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
2263611 CAAGTCTAATGTCGGTGGCCATGAATCAGCACATTG
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTG
2263647 TCATTCTTCG
Statistics
Matches: 191, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
47 29 0.15
49 82 0.43
50 5 0.03
52 75 0.39
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2263548 original size:101 final size:101
Alignment explanation
Indices: 2263362--2263602 Score: 306
Period size: 101 Copynumber: 2.4 Consensus size: 101
2263352 CACATTGGCA
* * * * *
2263362 TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGACCGATATCGTT
*
2263427 GACCTTGAATCAGCACATTGGAACCTT-AACCA-TCTT
66 GACCTTGAATCAGCACATTGGAACCTTCAA-CATTC-C
* * *
2263463 TAAGACCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGACCGATATCGTT
* * * * *
2263528 GGCCTTGAATCATCATATTGGCATCTTCAACATTCC
66 GACCTTGAATCAGCACATTGGAACCTTCAACATTCC
**
2263564 TAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2263603 TTCTTCTTCA
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
101 116 0.97
102 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (101 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGACCGATATCGTT
GACCTTGAATCAGCACATTGGAACCTTCAACATTCC
Found at i:2264494 original size:20 final size:20
Alignment explanation
Indices: 2264469--2264636 Score: 140
Period size: 20 Copynumber: 9.8 Consensus size: 20
2264459 TTGCCAAGGA
2264469 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2264489 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
2264504 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2264522 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
2264537 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2264555 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
2264570 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2264588 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
2264603 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2264621 AATGTATCGATACATT
1 AATGTATCGATACATT
2264637 GTATCGATAC
Statistics
Matches: 120, Mismatches: 0, Indels: 56
0.68 0.00 0.32
Matches are distributed among these distances:
13 44 0.37
16 8 0.07
17 8 0.07
20 60 0.50
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:2264509 original size:13 final size:13
Alignment explanation
Indices: 2264491--2264650 Score: 116
Period size: 13 Copynumber: 14.2 Consensus size: 13
2264481 CATTATTCAA
2264491 TGTATCGATACAT
1 TGTATCGATACAT
2264504 TGTATCGATACA-
1 TGTATCGATACAT
*
2264516 T-TAT---T-CAA
1 TGTATCGATACAT
2264524 TGTATCGATACAT
1 TGTATCGATACAT
2264537 TGTATCGATACA-
1 TGTATCGATACAT
*
2264549 T-TAT---T-CAA
1 TGTATCGATACAT
2264557 TGTATCGATACAT
1 TGTATCGATACAT
2264570 TGTATCGATACA-
1 TGTATCGATACAT
*
2264582 T-TAT---T-CAA
1 TGTATCGATACAT
2264590 TGTATCGATACAT
1 TGTATCGATACAT
2264603 TGTATCGATACA-
1 TGTATCGATACAT
*
2264615 T-TAT---T-CAA
1 TGTATCGATACAT
2264623 TGTATCGATACAT
1 TGTATCGATACAT
2264636 TGTATCGATACAT
1 TGTATCGATACAT
2264649 TG
1 TG
2264651 ATCATTGTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 48
0.70 0.02 0.28
Matches are distributed among these distances:
7 8 0.07
8 8 0.07
9 12 0.10
11 12 0.10
12 8 0.07
13 71 0.60
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2264513 original size:33 final size:33
Alignment explanation
Indices: 2264471--2264668 Score: 371
Period size: 33 Copynumber: 6.0 Consensus size: 33
2264461 GCCAAGGAAA
2264471 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
2264504 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
2264537 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
2264570 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
2264603 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
*
2264636 TGTATCGATACATTGA-TCATTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
2264669 CTGGGAATTT
Statistics
Matches: 163, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
33 162 0.99
34 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:2264658 original size:20 final size:20
Alignment explanation
Indices: 2264501--2264668 Score: 74
Period size: 20 Copynumber: 7.8 Consensus size: 20
2264491 TGTATCGATA
2264501 CATTGTATCGATACATT-ATT
1 CATTGTATCGATACATTGA-T
*
2264521 CAATGTATCGATACATTGTAT
1 CATTGTATCGATACATTG-AT
* ** *
2264542 CGATACAT-TATTCAATGTATCGAT
1 C-AT---TGTA-TCGATACATTGAT
2264566 ACATTGTATCGATACATT-ATT
1 -CATTGTATCGATACATTGA-T
*
2264587 CAATGTATCGATACATTGTAT
1 CATTGTATCGATACATTG-AT
* ** *
2264608 CGATACAT-TATTCAATGTATCGAT
1 C-AT---TGTA-TCGATACATTGAT
2264632 ACATTGTATCGATACATTGAT
1 -CATTGTATCGATACATTGAT
2264653 CATTGTATCGATACAT
1 CATTGTATCGATACAT
2264669 CTGGGAATTT
Statistics
Matches: 109, Mismatches: 20, Indels: 38
0.65 0.12 0.23
Matches are distributed among these distances:
20 49 0.45
21 22 0.20
22 8 0.07
24 12 0.11
25 18 0.17
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
CATTGTATCGATACATTGAT
Found at i:2268075 original size:166 final size:165
Alignment explanation
Indices: 2267782--2268252 Score: 548
Period size: 166 Copynumber: 2.8 Consensus size: 165
2267772 CGTTGCGATA
* * * *
2267782 ATTTTCGA-TCATTTTTCTGTTTTTTCCTTGAAATCTCCTTACTTTCGAAACATAAAGTTTTTTA
1 ATTTTC-ATTCATTTTTCT-TTTTTTCCTTGAAATCTCCCTA-TTTCGAAAAATAGAGTTTTCTA
* * ** * *
2267846 CTTCGTAAATTTTTTTAAGGGGATTTTTAATGGTTTTTAATTTTTAAAATTCATCAAATATTATT
63 CTTTGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATC
* * *
2267911 ATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTC
128 ATTTAATTCATACTAAATTAGTTTTAAAAAATTCAGTC
* * **
2267949 ATTTTCATTCATTTTTCTTTTTTTCCTTCAAATCCCCCTATTTTCGAAAAACGGAGTTTTCTACT
1 ATTTTCATTCATTTTTCTTTTTTTCCTTGAAATCTCCCTA-TTTCGAAAAATAGAGTTTTCTACT
* *
2268014 TTGTAAATTTTTTCAAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCAGAAAATATTATCAT
65 TTGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCAT
2268079 TTAATTCATACTAAATTAGTTTTAAAAAATTCAGTC
130 TTAATTCATACTAAATTAGTTTTAAAAAATTCAGTC
** * * * * * * * *
2268115 ATTTTCATGAATTCTTCATTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATTGAGTTTTCGACT
1 ATTTTCATTCATTTTTCTTTTTTTCCTTGAAATCTCCCTATTTC-GAAAAATAGAGTTTTCTACT
* * * * ** * *
2268180 CTATAAATATTTTCAGGGGGATTTTTCTTGGTTTGAAATTATTAAAATTCATATAATATTATCAT
65 TTGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCAT
*
2268245 TAAATTCA
130 TTAATTCA
2268253 CAACAAATCA
Statistics
Matches: 258, Mismatches: 44, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
165 4 0.02
166 238 0.92
167 16 0.06
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.49
Consensus pattern (165 bp):
ATTTTCATTCATTTTTCTTTTTTTCCTTGAAATCTCCCTATTTCGAAAAATAGAGTTTTCTACTT
TGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATT
TAATTCATACTAAATTAGTTTTAAAAAATTCAGTC
Found at i:2268304 original size:166 final size:165
Alignment explanation
Indices: 2268002--2268304 Score: 378
Period size: 166 Copynumber: 1.8 Consensus size: 165
2267992 TCGAAAAACG
* * * * ** *
2268002 GAGTTTTCTACTTTGTAAATTTTTTCAAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCAGA
1 GAGTTTTCGACTCTATAAATATTTTCAAGGGGATTTTTCTTAGTTTGAAATTATTAAAATTCAGA
* * * * * *
2268067 AAATATTATCATTTAATTCATACTAAATTAGTTTTAAAAAATTCAGTCATTTTCATGAATTCTTC
66 AAATATTATCATTAAATTCAAACTAAATCAATTTTAAAAAATTCAG-AATTTTCATGAATTCTTA
2268132 ATTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATT
130 ATTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATT
* * *
2268168 GAGTTTTCGACTCTATAAATATTTTCAGGGGGATTTTTCTTGGTTTGAAATTATTAAAATTCATA
1 GAGTTTTCGACTCTATAAATATTTTCAAGGGGATTTTTCTTAGTTTGAAATTATTAAAATTCAGA
* *
2268233 TAATATTATCATTAAATTCACAAC-AAATCAATTTTTAAAAATTCA-AATTATTGCATGAATT-T
66 AAATATTATCATTAAATTCA-AACTAAATCAATTTTAAAAAATTCAGAATT-TT-CATGAATTCT
2268295 TGAATTTTTT
128 T-AATTTTTT
2268305 GTTGCATATA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
164 3 0.03
165 4 0.03
166 106 0.92
167 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48
Consensus pattern (165 bp):
GAGTTTTCGACTCTATAAATATTTTCAAGGGGATTTTTCTTAGTTTGAAATTATTAAAATTCAGA
AAATATTATCATTAAATTCAAACTAAATCAATTTTAAAAAATTCAGAATTTTCATGAATTCTTAA
TTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATT
Found at i:2268814 original size:23 final size:23
Alignment explanation
Indices: 2268766--2268810 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2268756 GAACAGCTGA
2268766 AAAAAAAAAGAGAAAAAGAGAAG
1 AAAAAAAAAGAGAAAAAGAGAAG
* *
2268789 AAAAATAAAGA-AAAAATAGAAG
1 AAAAAAAAAGAGAAAAAGAGAAG
2268811 GAAAGTCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAGAGAAAAAGAGAAG
Found at i:2269040 original size:31 final size:31
Alignment explanation
Indices: 2269002--2269069 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
2268992 GTTGTCTGCA
2269002 TATTTTTCATGATTTCTCACCATGATTATTT
1 TATTTTTCATGATTTCTCACCATGATTATTT
2269033 TATTTTTCATGATTTCTCACCATGATTATTT
1 TATTTTTCATGATTTCTCACCATGATTATTT
2269064 TATTTT
1 TATTTT
2269070 CTTAAGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (31 bp):
TATTTTTCATGATTTCTCACCATGATTATTT
Found at i:2270052 original size:8 final size:8
Alignment explanation
Indices: 2270039--2270089 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
2270029 AAAAATAATG
2270039 ATAATAAA
1 ATAATAAA
2270047 ATAATAAA
1 ATAATAAA
2270055 ATAA-AAA
1 ATAATAAA
2270062 AT-ATAATA
1 ATAATAA-A
2270070 ATAATAAA
1 ATAATAAA
2270078 ATGAAATAAA
1 AT--AATAAA
2270088 AT
1 AT
2270090 GTGGCAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 7 0.18
8 18 0.47
9 4 0.11
10 8 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:2270052 original size:17 final size:17
Alignment explanation
Indices: 2270026--2270079 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 17
2270016 AATGGTATTT
* *
2270026 TAAAAAAATAATGATAA
1 TAAAATAATAATAATAA
2270043 TAAAATAATAA-AATAA
1 TAAAATAATAATAATAA
2270059 -AAAAT-ATAATAATAA
1 TAAAATAATAATAATAA
2270074 TAAAAT
1 TAAAAT
2270080 GAAATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 4 0.12
15 10 0.30
16 9 0.27
17 10 0.30
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
TAAAATAATAATAATAA
Found at i:2270055 original size:23 final size:22
Alignment explanation
Indices: 2270029--2270089 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
2270019 GGTATTTTAA
2270029 AAAAATAATGATAATAAAATAAT
1 AAAAATAATGA-AATAAAATAAT
* *
2270052 -AAAATAA-AAAATATAATAAT
1 AAAAATAATGAAATAAAATAAT
*
2270072 AATAA-AATGAAATAAAAT
1 AAAAATAATGAAATAAAAT
2270090 GTGGCAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.39
21 12 0.39
22 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATAATGAAATAAAATAAT
Found at i:2270068 original size:31 final size:31
Alignment explanation
Indices: 2270026--2270089 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 31
2270016 AATGGTATTT
*
2270026 TAAAAAAATAATGATAATAAAAT-AATAAAA
1 TAAAAAAATAATAATAATAAAATAAATAAAA
2270056 TAAAAAATATAATAATAATAAAATGAAATAAAA
1 TAAAAAA-ATAATAATAATAAAAT-AAATAAAA
2270089 T
1 T
2270090 GTGGCAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 15 0.50
33 8 0.27
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (31 bp):
TAAAAAAATAATAATAATAAAATAAATAAAA
Found at i:2270070 original size:28 final size:29
Alignment explanation
Indices: 2270028--2270088 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
2270018 TGGTATTTTA
*
2270028 AAAAAATAATGATAATAA-AATAATAAAAT
1 AAAAAATAATAATAATAATAA-AATAAAAT
*
2270057 AAAAAAT-ATAATAATAATAAAATGAAAT
1 AAAAAATAATAATAATAATAAAATAAAAT
2270085 AAAA
1 AAAA
2270089 TGTGGCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (29 bp):
AAAAAATAATAATAATAATAAAATAAAAT
Found at i:2272033 original size:13 final size:13
Alignment explanation
Indices: 2272015--2272039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2272005 CATTATGCTT
2272015 TGTATCGATACAA
1 TGTATCGATACAA
2272028 TGTATCGATACA
1 TGTATCGATACA
2272040 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2272070 original size:20 final size:20
Alignment explanation
Indices: 2272024--2272080 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
2272014 TTGTATCGAT
*
2272024 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGC
* *
2272043 TC-ATTGTATTGATACATGC
1 ACAATTGTATCGATACATGC
2272062 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
2272081 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGC
Found at i:2272163 original size:33 final size:33
Alignment explanation
Indices: 2272116--2272181 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2272106 TACCACTATT
*
2272116 TGTATCGATACATGACATATTGTATCGATACAA
1 TGTATCGATACATGACACATTGTATCGATACAA
*
2272149 TGTATCGATCCATGACACATTGTATCGATACAA
1 TGTATCGATACATGACACATTGTATCGATACAA
2272182 GATGAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGACACATTGTATCGATACAA
Found at i:2272174 original size:20 final size:18
Alignment explanation
Indices: 2272115--2272177 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 18
2272105 CTACCACTAT
2272115 TTGTATCGATACATGACATA
1 TTGTATCGAT-CATGACA-A
2272135 TTGTATCG---AT-ACAA
1 TTGTATCGATCATGACAA
2272149 -TGTATCGATCCATGACACA
1 TTGTATCGAT-CATGACA-A
2272168 TTGTATCGAT
1 TTGTATCGAT
2272178 ACAAGATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
13 7 0.19
14 1 0.03
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 1 0.03
20 17 0.47
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (18 bp):
TTGTATCGATCATGACAA
Found at i:2278578 original size:20 final size:20
Alignment explanation
Indices: 2278540--2278579 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2278530 TTTCAAATTT
2278540 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
2278561 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
2278580 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Done.