Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 4 of 132
Found at i:949531 original size:12 final size:12
Alignment explanation
Indices: 949514--949548 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
949504 GTCCTTCCAC
949514 TCTTATTCTTCT
1 TCTTATTCTTCT
949526 TCTTATTCTTCT
1 TCTTATTCTTCT
*
949538 TCTTGTTCTTC
1 TCTTATTCTTC
949549 GAAGTTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.26, G:0.03, T:0.66
Consensus pattern (12 bp):
TCTTATTCTTCT
Found at i:951219 original size:31 final size:32
Alignment explanation
Indices: 951174--951233 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
951164 AAATGGTCAC
951174 TGAACAATTCAAAAG-TCTTTATTTAAGTTTT
1 TGAACAATTCAAAAGTTCTTTATTTAAGTTTT
* * *
951205 TGAACTATTTAAAAGTTTTTTATTTAAGT
1 TGAACAATTCAAAAGTTCTTTATTTAAGT
951234 CATTGGACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (32 bp):
TGAACAATTCAAAAGTTCTTTATTTAAGTTTT
Found at i:952469 original size:233 final size:234
Alignment explanation
Indices: 952039--952509 Score: 766
Period size: 233 Copynumber: 2.0 Consensus size: 234
952029 TCAATTCAAC
*
952039 TAGGAAAGTTATATTTTTTTAATTAAAATAAATTATATTAGTTAAAATTATTTTAATTTTTTATA
1 TAGGAAAGTTATATTTTTGTAATTAAAATAAATTATATTAGTTAAAATTATTTTAATTTTTTATA
*
952104 TTTTAAAAAATAAAAAAAATTATATGATGGAATCTGAACCAATATTAATTGTATTATTAAAATCT
66 TTTTAAAAAAT--AAAAAATTATATAATGGAATCTGAACCAATATTAATTGTATTATTAAAATCT
* * *
952169 TATATCGCATTAGTATTTTTCATATGATGTATATACGTGTTTAAATTTCGTTTGATTCGCAATTT
129 TATATCGCATTAGTATTTTTCATATGATGTATATACGTGTTTAAATTTCGCTTGACTCCCAATTT
* *
952234 AAATTATTTTATTTTAATATAATACATATTTCATGTGTTAT
194 AAATTACTTTATTTTAATATAATACATATTTCATGCGTTAT
* * *
952275 TAGGAAAGTTATCTTTTTCGTAATTAAAATAAGTTATATTAGTTGAAATTATTTTAATTTTTTAT
1 TAGGAAAGTTATATTTTT-GTAATTAAAATAAATTATATTAGTTAAAATTATTTTAATTTTTTAT
* * * *
952340 ATTTTAAAAAAT-ATATA-TATATAATGGGATCTGAACCAATGTTAATTGTATTATTAAAATCTT
65 ATTTTAAAAAATAAAAAATTATATAATGGAATCTGAACCAATATTAATTGTATTATTAAAATCTT
952403 ATATCGCATTAGTATTTTTCATATGATGTATATACGTGTTTAAATTTCGCTTGACTCCCAATTTA
130 ATATCGCATTAGTATTTTTCATATGATGTATATACGTGTTTAAATTTCGCTTGACTCCCAATTTA
*
952468 AATTACTTTATTTTAATATCATACATATTTCATGCGTTAT
195 AATTACTTTATTTTAATATAATACATATTTCATGCGTTAT
952508 TA
1 TA
952510 TTAATTAGTT
Statistics
Matches: 219, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
233 144 0.66
234 3 0.01
236 17 0.08
237 55 0.25
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (234 bp):
TAGGAAAGTTATATTTTTGTAATTAAAATAAATTATATTAGTTAAAATTATTTTAATTTTTTATA
TTTTAAAAAATAAAAAATTATATAATGGAATCTGAACCAATATTAATTGTATTATTAAAATCTTA
TATCGCATTAGTATTTTTCATATGATGTATATACGTGTTTAAATTTCGCTTGACTCCCAATTTAA
ATTACTTTATTTTAATATAATACATATTTCATGCGTTAT
Found at i:952831 original size:19 final size:19
Alignment explanation
Indices: 952807--952844 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
952797 GTTTAATAAA
952807 GTTAATAATTTTAAATTTT
1 GTTAATAATTTTAAATTTT
952826 GTTAATAATTTTAAATTTT
1 GTTAATAATTTTAAATTTT
952845 TTATGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
GTTAATAATTTTAAATTTT
Found at i:962933 original size:19 final size:19
Alignment explanation
Indices: 962909--962945 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
962899 TATTATTAAT
*
962909 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
962928 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
962946 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:963844 original size:23 final size:24
Alignment explanation
Indices: 963813--963859 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
963803 TTTTTTGAAT
*
963813 TTTTATGAACT-TTTTATATTTTTA
1 TTTTATGAA-TATTTTATAATTTTA
963837 TTTT-TGAATATTTTATAATTTTA
1 TTTTATGAATATTTTATAATTTTA
963860 AAATATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 16 0.76
24 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTATGAATATTTTATAATTTTA
Found at i:964648 original size:12 final size:11
Alignment explanation
Indices: 964632--964665 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
964622 AACATTAGCA
964632 ATATATTTTTT
1 ATATATTTTTT
*
964643 ACTATATATTTT
1 A-TATATTTTTT
964655 ATATATTTTTT
1 ATATATTTTTT
964666 CGAGAAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
ATATATTTTTT
Found at i:973346 original size:7 final size:8
Alignment explanation
Indices: 973328--973358 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
973318 ATTTAAATCA
973328 TTTTAAAT
1 TTTTAAAT
973336 TTTTAAAT
1 TTTTAAAT
973344 TTTTAAAT
1 TTTTAAAT
973352 TTTTAAA
1 TTTTAAA
973359 AATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTAAAT
Found at i:973650 original size:20 final size:20
Alignment explanation
Indices: 973625--973671 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
973615 CGAAAAATTG
* **
973625 TTATAATTTTAATAAATTAT
1 TTATAATTTTAAAAAAAAAT
*
973645 TTATAAATTTAAAAAAAAAT
1 TTATAATTTTAAAAAAAAAT
973665 TTATAAT
1 TTATAAT
973672 GAAATGGATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATAATTTTAAAAAAAAAT
Found at i:976144 original size:89 final size:88
Alignment explanation
Indices: 975967--976173 Score: 221
Period size: 90 Copynumber: 2.4 Consensus size: 88
975957 ATCATTAAAC
975967 TTTTTC-AAAAAAATAATTAAA-CCTTTATTTTTTTTACATTTAATTAAATACTTAAACTATCAA
1 TTTTTCAAAAAAAATAATTAAACCCTTTATTTTTTTTACATTTAATTAAATACTTAAACTATCAA
* * * *
976030 AAATGCATTAAAAATATCTTTAAA
66 AAAT-CATTAAAAAGACCCTCAAA
* * * * *
976054 TTTTTCAAAAAAAATAATTAAACCCTTTATGTTTTTTTGC-TTTCCATTAAATACTTAAATTTTT
1 TTTTTCAAAAAAAATAATTAAACCCTTTAT-TTTTTTTACATTT-AATTAAATACTTAAACTATC
* *
976118 AAAATAT-ATTACAACGACCCTCAAA
64 AAAA-ATCATTAAAAAGACCCTCAAA
*
976143 -TTTT-AAAAAAAATAATCAAACCCTTT-TTTTT
1 TTTTTCAAAAAAAATAATTAAACCCTTTATTTTT
976174 ATGCACTCAA
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
85 4 0.04
86 1 0.01
87 27 0.26
88 19 0.18
89 22 0.21
90 28 0.27
91 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (88 bp):
TTTTTCAAAAAAAATAATTAAACCCTTTATTTTTTTTACATTTAATTAAATACTTAAACTATCAA
AAATCATTAAAAAGACCCTCAAA
Found at i:976309 original size:19 final size:20
Alignment explanation
Indices: 976287--976342 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
976277 TAAAAATATA
*
976287 TATAAAAACGTA-AAAAAGT
1 TATAAAAACATATAAAAAGT
*
976306 TAT-AAAACATATAAAAATT
1 TATAAAAACATATAAAAAGT
* *
976325 TATAAAGATATATAAAAA
1 TATAAAAACATATAAAAA
976343 ATATAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 7 0.23
19 12 0.39
20 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (20 bp):
TATAAAAACATATAAAAAGT
Found at i:976481 original size:23 final size:23
Alignment explanation
Indices: 976448--976501 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
976438 CATAATAATT
*
976448 TTAACTAAACAAACTGAAAATCA
1 TTAACTTAACAAACTGAAAATCA
976471 TTAACTTAACAAACTGAAAATCA
1 TTAACTTAACAAACTGAAAATCA
976494 TTAACTTA
1 TTAACTTA
976502 TCGTTAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.28
Consensus pattern (23 bp):
TTAACTTAACAAACTGAAAATCA
Found at i:981188 original size:16 final size:17
Alignment explanation
Indices: 981167--981199 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
981157 TGAAAAAAGA
981167 TTTA-TTTGTTTTTTTC
1 TTTATTTTGTTTTTTTC
981183 TTTATTTTTGTTTTTTT
1 TTTA-TTTTGTTTTTTT
981200 TTTCCTGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTATTTTGTTTTTTTC
Found at i:989559 original size:23 final size:23
Alignment explanation
Indices: 989529--989603 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
989519 TATGATATTG
989529 TATGAATTTTACTTCATTTCATT
1 TATGAATTTTACTTCATTTCATT
*
989552 TATGAA-TTCA-TT--TTT-ATGTT
1 TATGAATTTTACTTCATTTCA--TT
989572 GTATGAATTTTACTTCATTTCATT
1 -TATGAATTTTACTTCATTTCATT
989596 TATGAATT
1 TATGAATT
989604 CATTTTTATG
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 2 0.05
21 8 0.19
22 6 0.14
23 16 0.38
24 2 0.05
25 3 0.07
26 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (23 bp):
TATGAATTTTACTTCATTTCATT
Found at i:989589 original size:44 final size:44
Alignment explanation
Indices: 989526--989617 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
989516 CCGTATGATA
989526 TTGTATGAATTTTACTTCATTTCATTTATGAATTCATTTTTATG
1 TTGTATGAATTTTACTTCATTTCATTTATGAATTCATTTTTATG
989570 TTGTATGAATTTTACTTCATTTCATTTATGAATTCATTTTTATG
1 TTGTATGAATTTTACTTCATTTCATTTATGAATTCATTTTTATG
989614 TTGT
1 TTGT
989618 TTGATATTGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.58
Consensus pattern (44 bp):
TTGTATGAATTTTACTTCATTTCATTTATGAATTCATTTTTATG
Found at i:998085 original size:265 final size:260
Alignment explanation
Indices: 997522--998268 Score: 930
Period size: 265 Copynumber: 2.8 Consensus size: 260
997512 CAAGTAGCTC
* * * * *
997522 GAGCTGTTGAACTGGTCGAATTTGAGTGT-TAATACTTTATTTGAGTAGCTTATGAGTTTAATGC
1 GAGCTGTTGAACTGGTCGAATTCGAGTATATAATACTTTATTTGAGTAGCTTATCAGCTTAATTC
* * * **
997586 AGCTTTTTTCTATTCTTAATGAGTATTG-GAAAACTTCAAGTTAAACCTTTAAACACGAGTTTGA
66 -GCTTTTTTCTATTTTTAATGAGTATTGAG-AAACTTCAATTTAAACATTTAAACACGAGTTAAA
** * *
997650 GTTTGAGCACTAATCATTGAGCTTGAAATCGAGCATGGGAGTTGAGCTTTAAACA-TGGAACTCG
129 GTTCAAGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTGAGCTTTAAA-AGTGGAACTCG
* * * * * * *
997714 ATTGAGCTTCTGTTGAGTTGT-AGGCTTCTGAGTTTCAAGTGAAATTTGAGCTCAAGCTTCTTAT
193 ATTGAGCTTCTGTTGAGTT-TCAAGCTT-TGAATCTCAACTCAAACTTGAGCTCAAGCTTCTTAG
997778 GGCTT
256 GGCTT
* *
997783 GAGCTGTTGAACTGGTTGATTTCGAGTATAGTAATACTTTATTTGAGTAGCTTATCAGCTTAATT
1 GAGCTGTTGAACTGGTCGAATTCGAGTATA-TAATACTTTATTTGAGTAGCTTATCAGCTTAATT
**
997848 CGGCTTTTTTTTCTATTTTTAATGAGTATTGAGAAACTTCAATTTTGGACATTTAAACACGAGTT
65 C-GC--TTTTTTCTATTTTTAATGAGTATTGAGAAACTTCAA-TTTAAACATTTAAACACGAGTT
*
997913 AAAGTTCAAGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTGAGCTTTAAATGTGGAACT
126 AAAGTTCAAGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTGAGCTTTAAAAGTGGAACT
997978 CGATTGAGCTTCTGTTGAGTTTCAAGCTTTGAATCTCAACTCAAACTTGAGCTCAAGCTTCTTAG
191 CGATTGAGCTTCTGTTGAGTTTCAAGCTTTGAATCTCAACTCAAACTTGAGCTCAAGCTTCTTAG
998043 GGCTT
256 GGCTT
* * * *
998048 GAGCTGTTGAAGTGGTCGAATTCGAGTATACTAATACTTTATTTGAGTATCGTATCAGCTTAATC
1 GAGCTGTTGAACTGGTCGAATTCGAGTATA-TAATACTTTATTTGAGTAGCTTATCAGCTTAATT
* * * * * **
998113 CAAC-TTTTTCTATATTTAATGAGTATTGAAAAACTTCAATGTAAACATTTAAACACTGAATTCT
65 C-GCTTTTTTCTATTTTTAATGAGTATTGAGAAACTTCAATTTAAACATTTAAACAC-GAGTTAA
* * * * * * *
998177 AGCTCCAGTACTAATAATTGAGCTTGAAATCGAGCATTAGAGTTAAGCTTTAAAAGTAGAACTCA
128 AGTTCAAGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTGAGCTTTAAAAGTGGAACTCG
*
998242 ATTGAGCTACTGTTGAGTTTCAA-CTTT
193 ATTGAGCTTCTGTTGAGTTTCAAGCTTT
998269 CAAGCTTTGA
Statistics
Matches: 424, Mismatches: 53, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
261 43 0.10
262 116 0.27
263 34 0.08
265 129 0.30
266 102 0.24
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (260 bp):
GAGCTGTTGAACTGGTCGAATTCGAGTATATAATACTTTATTTGAGTAGCTTATCAGCTTAATTC
GCTTTTTTCTATTTTTAATGAGTATTGAGAAACTTCAATTTAAACATTTAAACACGAGTTAAAGT
TCAAGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTGAGCTTTAAAAGTGGAACTCGATT
GAGCTTCTGTTGAGTTTCAAGCTTTGAATCTCAACTCAAACTTGAGCTCAAGCTTCTTAGGGCTT
Found at i:1001878 original size:31 final size:31
Alignment explanation
Indices: 1001840--1001898 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
1001830 TTGTACTAGG
*
1001840 TAATTGTTCTTATATTGGAGTTTAAATTAGA
1 TAATTGTTCTTAAATTGGAGTTTAAATTAGA
* * *
1001871 TAATTGTTTTTAAATTGGGGTTTGAATT
1 TAATTGTTCTTAAATTGGAGTTTAAATT
1001899 TTTTTTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.51
Consensus pattern (31 bp):
TAATTGTTCTTAAATTGGAGTTTAAATTAGA
Found at i:1003977 original size:22 final size:23
Alignment explanation
Indices: 1003935--1003978 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1003925 GTTTCCCCAA
1003935 TTGAAAGTAGTGATTTATTTTTC
1 TTGAAAGTAGTGATTTATTTTTC
* *
1003958 TTGAAATTATTGA-TTATTTTT
1 TTGAAAGTAGTGATTTATTTTT
1003979 ATTATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTGAAAGTAGTGATTTATTTTTC
Found at i:1005726 original size:2 final size:2
Alignment explanation
Indices: 1005715--1005787 Score: 98
Period size: 2 Copynumber: 37.5 Consensus size: 2
1005705 GAAACTGCAT
1005715 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1005756 TA TA T- TA TA TA -A GCA TA AA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T
1005788 CAGTTGGTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
1 3 0.05
2 60 0.94
3 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1006176 original size:4 final size:4
Alignment explanation
Indices: 1006167--1006203 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
1006157 GAAGTATATT
1006167 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1006204 ATTACAAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:1009424 original size:152 final size:152
Alignment explanation
Indices: 1009132--1009427 Score: 450
Period size: 152 Copynumber: 1.9 Consensus size: 152
1009122 TATATTGCAT
*
1009132 TAACTTATGATTTCATAACTTATATTTTTTTTGAGAGTCGAAGTGTGATTTTATACATCGTAACT
1 TAACTTATGATTTCATAACTTATATTTTTTTTGAGAGTCGAA----GATTTTATACATAGTAACT
* * * *
1009197 TTTAGTTTTGTTATTTATTAGGGGAGTAAAAGAAAAATTTTCCATTTGAGGGAGCCAGGCACCTG
62 TTTAATTTTGTTATTTACTAGCGGAGTAAAAGAAAAATTTTCCATTTGAGGGAGCCAAGCACCTG
1009262 TCTGCCGCCTTTAATTTTAATCATAG
127 TCTGCCGCCTTTAATTTTAATCATAG
*
1009288 TAACTTATGATTTCATAACTTATATTTTTTTTGAGAGTCGAA-ATTTTATATATAGTAACTTTTA
1 TAACTTATGATTTCATAACTTATATTTTTTTTGAGAGTCGAAGATTTTATACATAGTAACTTTTA
* * * *
1009352 ATTTTGTTATTTACTAGCGGACTTAAAAGATAATTTTTCCATTTGAGGGAGTCAAGCACCTGTCT
66 ATTTTGTTATTTACTAGCGGA-GTAAAAGAAAAATTTTCCATTTGAGGGAGCCAAGCACCTGTCT
1009417 GCCGCCTTTAA
130 GCCGCCTTTAA
1009428 ATTTCATCTA
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
151 38 0.29
152 49 0.38
156 42 0.33
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (152 bp):
TAACTTATGATTTCATAACTTATATTTTTTTTGAGAGTCGAAGATTTTATACATAGTAACTTTTA
ATTTTGTTATTTACTAGCGGAGTAAAAGAAAAATTTTCCATTTGAGGGAGCCAAGCACCTGTCTG
CCGCCTTTAATTTTAATCATAG
Found at i:1011300 original size:18 final size:17
Alignment explanation
Indices: 1011277--1011343 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
1011267 CTTTAGAAAT
1011277 TTTTTTAAAATTTTATAA
1 TTTTTT-AAATTTTATAA
**
1011295 TTTTTTAAA-AATATAAA
1 TTTTTTAAATTTTAT-AA
* *
1011312 TTTTATAATTTTTATAAA
1 TTTTTTAAATTTTAT-AA
*
1011330 TATTTTAAATTTTA
1 TTTTTTAAATTTTA
1011344 AAACTTATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
16 3 0.08
17 12 0.32
18 23 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTTAAATTTTATAA
Found at i:1011313 original size:25 final size:27
Alignment explanation
Indices: 1011284--1011343 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 27
1011274 AATTTTTTTA
1011284 AAATTTTATAATTTTT-TAAA-AATAT
1 AAATTTTATAATTTTTATAAATAATAT
* *
1011309 AAATTTTATAATTTTTATAAATATTTT
1 AAATTTTATAATTTTTATAAATAATAT
1011336 AAATTTTA
1 AAATTTTA
1011344 AAACTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 16 0.52
26 4 0.13
27 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATTTTATAATTTTTATAAATAATAT
Found at i:1012754 original size:29 final size:29
Alignment explanation
Indices: 1012721--1012776 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1012711 TTTAATTAAT
*
1012721 TTTAATAGTATAAG-GACTAAATTGATACA
1 TTTAATAATA-AAGAGACTAAATTGATACA
*
1012750 TTTAATAATAAAGAGACTAATTTGATA
1 TTTAATAATAAAGAGACTAAATTGATA
1012777 ACCCCTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (29 bp):
TTTAATAATAAAGAGACTAAATTGATACA
Found at i:1021143 original size:27 final size:27
Alignment explanation
Indices: 1021101--1021156 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1021091 ATAGTTCTAA
*
1021101 TTAAGTATTGTTGGTTCT-ATTTTT-TT
1 TTAAGTATAGTTGGTT-TAATTTTTATT
1021127 TTAAGTAATAGTTGGTTTAATTTTTATT
1 TTAAGT-ATAGTTGGTTTAATTTTTATT
1021155 TT
1 TT
1021157 TTAGGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 15 0.58
28 4 0.15
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.62
Consensus pattern (27 bp):
TTAAGTATAGTTGGTTTAATTTTTATT
Found at i:1021150 original size:26 final size:26
Alignment explanation
Indices: 1021101--1021151 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1021091 ATAGTTCTAA
* *
1021101 TTAAGTATTGTTGGTTCTATTTTTTT
1 TTAAGTATAGTTGGTTCTAATTTTTT
1021127 TTAAGTAATAGTTGGTT-TAATTTTT
1 TTAAGT-ATAGTTGGTTCTAATTTTT
1021152 ATTTTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.61
Consensus pattern (26 bp):
TTAAGTATAGTTGGTTCTAATTTTTT
Found at i:1023985 original size:144 final size:142
Alignment explanation
Indices: 1023695--1024293 Score: 599
Period size: 144 Copynumber: 4.3 Consensus size: 142
1023685 GAACATAGCG
* * *
1023695 AACATATCGATTACAAGTATATACAAGCATAAACAAGTGTTTACAGAAAAA---GGGAGCATGTA
1 AACATATCGATTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACTGGGGAGCATGTA
* * * * *
1023757 TGTTACATCAACGGTTACAAGGATCAGCGAACCTATGTTACAATTCGCATCAAGCTCACATATGC
66 TGTTACATCAATGGTTACATGGATCAGCGAACCTATGTTACAATTTGCATCTAGCTCATATATG-
* *
1023822 CCCTATTACAACCT
130 -CCTATTATAAGCT
* *
1023836 AACATATCGATTACAAGTATATACAAGCATGAATAAGTGCTTACACAAAAACTGGGGAGCATTTA
1 AACATATCGATTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACTGGGGAGCATGTA
* * *
1023901 TGTTACATCCATGGTTACAGCTGGATCAG-AAACACTATGTTACAATTTGTATCTAGCTCATATA
66 TGTTACATCAATGGTTACA--TGGATCAGCGAAC-CTATGTTACAATTTGCATCTAGCTCATATA
**
1023965 TGCCTATTATAAATT
128 TGCCTATTATAAGCT
*
1023980 AACATATTGATTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACT-GGGA--A-GTA
1 AACATATCGATTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACTGGGGAGCATGTA
* * * *
1024041 TG-T--A-C----GTTACAT-CAACAGCGAACCTATGCTACAATTTGCATCTAAGCTCATCTATG
66 TGTTACATCAATGGTTACATGGATCAGCGAACCTATGTTACAATTTGCATCT-AGCTCATATATG
*
1024097 CCTATTCTAAGCT
130 CCTATTATAAGCT
* * * * * *
1024110 AACATATTGGTTACAAGTGA-ATACAAGCATGAGCAAGTGCTTGA-ACAGAAACAGGGGAGTATG
1 AACATATCGATTACAAGT-ATATACAAGCATGAACAAGTGCTT-ACACAAAAACTGGGGAGCATG
* * * * *
1024173 CATGTTACATCAATGGTTACAGTTGGAT-AGGTGATCCTATGTTACAATTTGCATCTAGCTGATC
64 TATGTTACATCAATGGTTACA--TGGATCA-GCGAACCTATGTTACAATTTGCATCTAGCTCATA
* *
1024237 TATGCCTATTCTACGCT
126 TATGCCTATTATAAGCT
* * *
1024254 AACAAATCAATTACAAGTGTATACATAGCATGAACAAGTG
1 AACATATCGATTACAAGTATATACA-AGCATGAACAAGTG
1024294 TTCCCCTCGA
Statistics
Matches: 384, Mismatches: 46, Indels: 52
0.80 0.10 0.11
Matches are distributed among these distances:
129 22 0.06
130 70 0.18
131 6 0.02
132 6 0.02
133 1 0.00
134 4 0.01
135 1 0.00
136 1 0.00
137 2 0.01
138 1 0.00
139 1 0.00
140 4 0.01
141 48 0.12
142 6 0.02
143 4 0.01
144 132 0.34
145 40 0.10
146 35 0.09
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (142 bp):
AACATATCGATTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACTGGGGAGCATGTA
TGTTACATCAATGGTTACATGGATCAGCGAACCTATGTTACAATTTGCATCTAGCTCATATATGC
CTATTATAAGCT
Found at i:1024171 original size:130 final size:129
Alignment explanation
Indices: 1023935--1024185 Score: 344
Period size: 130 Copynumber: 1.9 Consensus size: 129
1023925 ATCAGAAACA
* * *
1023935 CTATGTTACAATTTGTATCTAGCTCATATATGCCTATTATAAATTAACATATTGATTACAAGTAT
1 CTATGCTACAATTTGCATCTAGCTCATATATGCCTATTATAAACTAACATATTGATTACAAGTAT
* *
1024000 ATACAAGCATGAACAAGTGCTTACACAAAAACTGGGAAGTATGTACGTTACATCAACAGCGAAC
66 ATACAAGCATGAACAAGTGCTTACACAAAAACAGGGAAGTATGCACGTTACATCAACAGCGAAC
* * * *
1024064 CTATGCTACAATTTGCATCTAAGCTCATCTATGCCTATTCTAAGCTAACATATTGGTTACAAGTG
1 CTATGCTACAATTTGCATCT-AGCTCATATATGCCTATTATAAACTAACATATTGATTACAAGT-
* * * *
1024129 A-ATACAAGCATGAGCAAGTGCTTGA-ACAGAAACAGGGGAGTATGCATGTTACATCAA
64 ATATACAAGCATGAACAAGTGCTT-ACACAAAAACAGGGAAGTATGCACGTTACATCAA
1024186 TGGTTACAGT
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
129 18 0.17
130 86 0.81
131 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (129 bp):
CTATGCTACAATTTGCATCTAGCTCATATATGCCTATTATAAACTAACATATTGATTACAAGTAT
ATACAAGCATGAACAAGTGCTTACACAAAAACAGGGAAGTATGCACGTTACATCAACAGCGAAC
Found at i:1024215 original size:274 final size:275
Alignment explanation
Indices: 1023781--1024293 Score: 655
Period size: 274 Copynumber: 1.9 Consensus size: 275
1023771 TTACAAGGAT
*
1023781 CAGCGAACCTATGTTACAATTCGCATCAAGCTCACATATGCCCCTATTACAACCTAACATATCGA
1 CAGCGAACCTATGCTACAATTCGCATCAAGCTCACATATG-CCCTATTACAACCTAACATATCGA
* * ** *
1023846 TTACAAGTATATACAAGCATGAATAAGTGCTTACACAAAAACTGGGGAGCATTTATGTTACATCC
65 TTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACAGGGGAGCATGCATGTTACATCA
*
1023911 ATGGTTACAGCTGGATCAGAAACACTATGTTACAATTTGTATCTAGCTCATATATGCCTATTATA
130 ATGGTTACAGCTGGATCAGAAACACTATGTTACAATTTGCATCTAGCTCATATATGCCTATTATA
* * **
1023976 AATTAACATATTGATTACAAGTATATACA-AGCATGAACAAGTGCTTACACAAAAACTGGGAAGT
195 AACTAACAAATCAATTACAAGTATATACATAGCATGAACAAGTGCTTACACAAAAACTGGGAAGT
1024040 ATGTACGTTACATCAA
260 ATGTACGTTACATCAA
* * *
1024056 CAGCGAACCTATGCTACAATTTGCATCTAAGCTCATC-TATG-CCTATT-CTAAGCTAACATATT
1 CAGCGAACCTATGCTACAATTCGCATC-AAGCTCA-CATATGCCCTATTAC-AACCTAACATATC
* * * *
1024118 GGTTACAAGTGA-ATACAAGCATGAGCAAGTGCTTGA-ACAGAAACAGGGGAGTATGCATGTTAC
63 GATTACAAGT-ATATACAAGCATGAACAAGTGCTT-ACACAAAAACAGGGGAGCATGCATGTTAC
* * * * *
1024181 ATCAATGGTTACAGTTGGAT-AGGTGATC-CTATGTTACAATTTGCATCTAGCTGATCTATGCCT
126 ATCAATGGTTACAGCTGGATCA-G-AAACACTATGTTACAATTTGCATCTAGCTCATATATGCCT
* ** *
1024244 ATTCTACGCTAACAAATCAATTACAAGTGTATACATAGCATGAACAAGTG
189 ATTATAAACTAACAAATCAATTACAAGTATATACATAGCATGAACAAGTG
1024294 TTCCCCTCGA
Statistics
Matches: 203, Mismatches: 27, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
273 2 0.01
274 146 0.72
275 43 0.21
276 11 0.05
277 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (275 bp):
CAGCGAACCTATGCTACAATTCGCATCAAGCTCACATATGCCCTATTACAACCTAACATATCGAT
TACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACAGGGGAGCATGCATGTTACATCAA
TGGTTACAGCTGGATCAGAAACACTATGTTACAATTTGCATCTAGCTCATATATGCCTATTATAA
ACTAACAAATCAATTACAAGTATATACATAGCATGAACAAGTGCTTACACAAAAACTGGGAAGTA
TGTACGTTACATCAA
Found at i:1028715 original size:5 final size:5
Alignment explanation
Indices: 1028705--1028732 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1028695 TCCTCCTCCA
1028705 CTTCT CTTCT CTTCT CTTCT CTTCT CTT
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTT
1028733 GTGCTTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
CTTCT
Found at i:1030338 original size:31 final size:29
Alignment explanation
Indices: 1030258--1030338 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
1030248 GAATTTAATC
1030258 AAACCAAAATTTCATATATAAAATTACACA
1 AAACCAAAA-TTCATATATAAAATTACACA
** * * *
1030288 AAATTAAAATTTATGTATAAAATTATACA
1 AAACCAAAATTCATATATAAAATTACACA
*
1030317 TTAGACCAAAATTCATATATAA
1 --AAACCAAAATTCATATATAA
1030339 TTTTGAAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
29 17 0.44
30 7 0.18
31 15 0.38
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.32
Consensus pattern (29 bp):
AAACCAAAATTCATATATAAAATTACACA
Found at i:1032557 original size:3 final size:3
Alignment explanation
Indices: 1032549--1032574 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1032539 GCCTTTACAA
1032549 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
1032575 TTCACTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:1034118 original size:21 final size:22
Alignment explanation
Indices: 1034088--1034128 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1034078 AACATACATG
1034088 AATATATTTTTAACAGTAAAAA
1 AATATATTTTTAACAGTAAAAA
*
1034110 AATAT-TTTTTAATAGTAAA
1 AATATATTTTTAACAGTAAA
1034129 GAAGCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (22 bp):
AATATATTTTTAACAGTAAAAA
Found at i:1037035 original size:29 final size:29
Alignment explanation
Indices: 1036989--1037064 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
1036979 AAAAATAACG
*
1036989 CTTTTCAAAA-GCACTTTCTCTAAACCAAA
1 CTTTT-AAAATGCATTTTCTCTAAACCAAA
1037018 CTTTTAAAATGCATTTTCTCTAAACCAAA
1 CTTTTAAAATGCATTTTCTCTAAACCAAA
*
1037047 ATTTTAAAATGCACTTTT
1 CTTTTAAAATGCA-TTTT
1037065 TAACCGCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 4 0.09
29 35 0.81
30 4 0.09
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (29 bp):
CTTTTAAAATGCATTTTCTCTAAACCAAA
Found at i:1038220 original size:22 final size:22
Alignment explanation
Indices: 1038171--1038220 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
1038161 AACTTTGGTC
* *
1038171 GTTTTAGGTTTGGGTCATTTAA
1 GTTTAAGGCTTGGGTCATTTAA
* * *
1038193 GGTTAAGGCTTGGGTCTTTTGA
1 GTTTAAGGCTTGGGTCATTTAA
1038215 GTTTAA
1 GTTTAA
1038221 TAATTTTGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.06, G:0.30, T:0.46
Consensus pattern (22 bp):
GTTTAAGGCTTGGGTCATTTAA
Found at i:1040684 original size:17 final size:18
Alignment explanation
Indices: 1040664--1040703 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
1040654 TTTAAATTAA
1040664 ATTATAAA-AATATAAT-T
1 ATTATAAATAA-ATAATAT
1040681 ATTA-AAATAAATAATAT
1 ATTATAAATAAATAATAT
1040698 ATTATA
1 ATTATA
1040704 TAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.40
17 11 0.55
18 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTATAAATAAATAATAT
Found at i:1041137 original size:22 final size:21
Alignment explanation
Indices: 1041095--1041143 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
1041085 GTTAAAAATA
1041095 AAATTT-TATACTTTTATATT
1 AAATTTATATACTTTTATATT
1041115 AATATTTATATA-TTTTATAATT
1 AA-ATTTATATACTTTTAT-ATT
1041137 AAATTTA
1 AAATTTA
1041144 AATAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.08
21 15 0.58
22 9 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATTTATATACTTTTATATT
Found at i:1043833 original size:2 final size:2
Alignment explanation
Indices: 1043828--1043853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1043818 GAAGCCAATT
1043828 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1043854 AAAATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1045458 original size:103 final size:102
Alignment explanation
Indices: 1045272--1045474 Score: 286
Period size: 103 Copynumber: 2.0 Consensus size: 102
1045262 AATTCAAAAC
*
1045272 AAAAAATTCATTTGTAGAATCATAAAAAAGACTTTCGATAGCTCAATTAATGATAAATTTTAAAC
1 AAAAAACTCATTTGTAGAATCATAAAAAAGACTTTCGATAGCTCAATTAATGATAAATTTTAAAC
* *
1045337 AATAAATAATAACTCTATTAAAATTTGGACTTATTAA
66 AATAAATAATAACTCTATTAAAAATTAGACTTATTAA
* * *
1045374 AAAAAACTCATTTGTAGAATCAT-AAAAAGAACTTTC-TTAG-TTAATAGTAAATGATAATTTTT
1 AAAAAACTCATTTGTAGAATCATAAAAAAG-ACTTTCGATAGCTCAAT--T-AATGATAAATTTT
*
1045436 AAACAATAAATACTAACTCTATTAAAAATTAGACTTATT
62 AAACAATAAATAATAACTCTATTAAAAATTAGACTTATT
1045475 TAATTCATGT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
100 4 0.04
101 9 0.10
102 29 0.32
103 48 0.53
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (102 bp):
AAAAAACTCATTTGTAGAATCATAAAAAAGACTTTCGATAGCTCAATTAATGATAAATTTTAAAC
AATAAATAATAACTCTATTAAAAATTAGACTTATTAA
Found at i:1045888 original size:8 final size:8
Alignment explanation
Indices: 1045877--1045917 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1045867 TAATACTTTA
1045877 AAAATTAT
1 AAAATTAT
*
1045885 AAAAATAT
1 AAAATTAT
*
1045893 AAAATTTT
1 AAAATTAT
1045901 AAAATTAT
1 AAAATTAT
*
1045909 AAAACTAT
1 AAAATTAT
1045917 A
1 A
1045918 TTTTTACTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATTAT
Found at i:1059085 original size:17 final size:18
Alignment explanation
Indices: 1059051--1059087 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1059041 TCAAATATTT
*
1059051 TTATTTTTAATATAAATA
1 TTATTTTTAAAATAAATA
1059069 TTATTTTTAAAAT-AATA
1 TTATTTTTAAAATAAATA
1059086 TT
1 TT
1059088 GAAAAATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTTTAAAATAAATA
Found at i:1061268 original size:87 final size:85
Alignment explanation
Indices: 1061112--1061368 Score: 313
Period size: 87 Copynumber: 3.0 Consensus size: 85
1061102 CGATATTACA
* * * *
1061112 ACGATTAGTAAGGAATTGATTCACTTTGTGTTGAAGCAGTTGAAATTACT-TGGCGCTATTATTT
1 ACGATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCT-GCACT-TT-TTT
*
1061176 TTCTAGATTCTCTTATGTTGCAT
63 TTCTAGATTCTTTTATGTTGCAT
* * *
1061199 ACGATTACTAAGGAACTGATTTACTTTGTGTTTAAGTAGTTGAAATTAGTCTGCACTTCTTTTTC
1 ACGATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCTGCACTT-TTTTT-
1061264 TCTAGATTCTTTTATGTTGCAT
64 TCTAGATTCTTTTATGTTGCAT
* * * *
1061286 ACGATTAGTAAGGAACTGCA-TCAGTTCGTGTTTAAGTAGTTGAAATCACTC-GATACTTTTTTT
1 ACGATTAGTAAGGAACTG-ATTCACTTTGTGTTTAAGTAGTTGAAATTACTCTG-CAC-TTTTTT
1061349 TTCTAGATTCTTTTATGTTG
63 TTCTAGATTCTTTTATGTTG
1061369 AATAGGAATT
Statistics
Matches: 149, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
86 25 0.17
87 120 0.81
88 4 0.03
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (85 bp):
ACGATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCTGCACTTTTTTTTC
TAGATTCTTTTATGTTGCAT
Found at i:1071821 original size:13 final size:13
Alignment explanation
Indices: 1071803--1071829 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1071793 TGTGGATATA
1071803 TAAAAGATCTAAG
1 TAAAAGATCTAAG
1071816 TAAAAGATCTAAG
1 TAAAAGATCTAAG
1071829 T
1 T
1071830 TTACAGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (13 bp):
TAAAAGATCTAAG
Found at i:1073104 original size:18 final size:18
Alignment explanation
Indices: 1073061--1073104 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
1073051 TGCATCAACA
1073061 AAATTAAAATTTAATCTAT
1 AAATT-AAATTTAATCTAT
1073080 AAA-TAAATTTAAAT-TAT
1 AAATTAAATTT-AATCTAT
1073097 AAATTAAA
1 AAATTAAA
1073105 ATAATGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTAAATTTAATCTAT
Found at i:1085842 original size:31 final size:29
Alignment explanation
Indices: 1085770--1085843 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
1085760 ACAACACAAT
* * *
1085770 AACATAAGTGACTAAAATGTAACATTTCA
1 AACAAAAGTGACTAAAATGCAACATGTCA
*
1085799 AACATAAA-TGACTAAAATGCAACCTGAGTCA
1 AACA-AAAGTGACTAAAATGCAACAT--GTCA
1085830 AACAAAAGTGACTA
1 AACAAAAGTGACTA
1085844 TTTTTATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 19 0.51
30 5 0.14
31 13 0.35
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (29 bp):
AACAAAAGTGACTAAAATGCAACATGTCA
Found at i:1086033 original size:26 final size:26
Alignment explanation
Indices: 1085999--1086067 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
1085989 ATTTTAAAGT
*
1085999 TTAAGAATTTATTTATAATAAA-TTA
1 TTAATAATTTATTTATAATAAAGTTA
* *
1086024 TTATTTAATTATGTTTA-AATAAAGTTA
1 TTA-ATAATT-TATTTATAATAAAGTTA
1086051 TTAAT-ATTTATTTATAA
1 TTAATAATTTATTTATAA
1086068 GCTCTCTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.14
25 8 0.23
26 11 0.31
27 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAATAATTTATTTATAATAAAGTTA
Found at i:1088402 original size:123 final size:120
Alignment explanation
Indices: 1088255--1088483 Score: 332
Period size: 123 Copynumber: 1.9 Consensus size: 120
1088245 TTTATATATT
* *
1088255 AAAAAATTAAAAAAATAATATTATATTAATAGAGAGTTATCAAATAGCGGCATTATAAGAAAAAA
1 AAAAAATAAAAAAAATAATATTATATTAATAGAGAGTTATCAAATAGCAGCATTATAAGAAAAAA
* *
1088320 AATAAAAAAAAATGATATTATATTAGTGGAGAGTTATCAAATGATGATATTACTGTGA
66 AAT---AAAAAATAATATTATATTAGTAGAGAGTTATCAAATGATGATATTACTGTGA
* * * * * *
1088378 AAAAAATAAAAAAAATAATATTATATTAGTGGAGAGTTATCAAATGGTAGCATTATAGGGAAAAA
1 AAAAAATAAAAAAAATAATATTATATTAATAGAGAGTTATCAAATAGCAGCATTATAAGAAAAAA
*
1088443 AATAAAAACTAATATTATATTAGTAGAGAGTTATCAAATGA
66 AATAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGA
1088484 CGGTACTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
120 35 0.37
123 60 0.63
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (120 bp):
AAAAAATAAAAAAAATAATATTATATTAATAGAGAGTTATCAAATAGCAGCATTATAAGAAAAAA
AATAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGATGATATTACTGTGA
Found at i:1088494 original size:59 final size:60
Alignment explanation
Indices: 1088255--1088501 Score: 266
Period size: 61 Copynumber: 4.1 Consensus size: 60
1088245 TTTATATATT
* * * *
1088255 AAAAAATTAAAAAAATAATATTATATTAATAGAGAGTTATCAAAT-AGCGGCATTATAAGA
1 AAAAAAATAAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGA-CGGCATTATAGGG
* * * ** *
1088315 AAAAAAATAAAAAAAAATGATATTATATTAGTGGAGAGTTATCAAATGATGATATTACT-GTG
1 AAAAAAAT--AAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGACGGCATTA-TAGGG
* ***
1088377 AAAAAAATAAAAAAAATAATATTATATTAGTGGAGAGTTATCAAATGGTAGCATTATAGGG
1 AAAAAAAT-AAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGACGGCATTATAGGG
* * * *
1088438 AAAAAAAT-AAAAACTAATATTATATTAGTAGAGAGTTATCAAATGACGGTACTATAGAG
1 AAAAAAATAAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGACGGCATTATAGGG
1088497 AAAAA
1 AAAAA
1088502 TTATACAAAA
Statistics
Matches: 158, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
59 48 0.30
60 8 0.05
61 53 0.34
62 47 0.30
63 2 0.01
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (60 bp):
AAAAAAATAAAAAAATAATATTATATTAGTAGAGAGTTATCAAATGACGGCATTATAGGG
Found at i:1088584 original size:23 final size:23
Alignment explanation
Indices: 1088558--1088702 Score: 97
Period size: 23 Copynumber: 6.5 Consensus size: 23
1088548 AAAATATACG
1088558 AAAAAATAAATAATAAATCAATT
1 AAAAAATAAATAATAAATCAATT
* *
1088581 -AAAAGTAACT--TAAA--AATT
1 AAAAAATAAATAATAAATCAATT
* * * * *
1088599 AAATAACAAATAAAAATATTAAAT
1 AAAAAATAAATAATAA-ATCAATT
* *
1088623 AACAAATCAATTAA-AAAT-AATTT
1 AAAAAAT-AAATAATAAATCAA-TT
*
1088646 AAAAATTAAATAATAAATCAATT
1 AAAAAATAAATAATAAATCAATT
* *
1088669 AAAAATTAAATAACAAATCAATT
1 AAAAAATAAATAATAAATCAATT
*
1088692 AAAAATTAAAT
1 AAAAAATAAAT
1088703 TAAACAAACA
Statistics
Matches: 95, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.04
19 6 0.06
20 4 0.04
21 2 0.02
22 16 0.17
23 47 0.49
24 11 0.12
25 5 0.05
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.28
Consensus pattern (23 bp):
AAAAAATAAATAATAAATCAATT
Found at i:1088630 original size:54 final size:56
Alignment explanation
Indices: 1088558--1088706 Score: 203
Period size: 54 Copynumber: 2.7 Consensus size: 56
1088548 AAAATATACG
* * *
1088558 AAAAAATAAATAATAAATCAATTAAAAGTAACTTAAAAATTAAATAACAAAT-AA-
1 AAAAATTAAATAACAAATCAATTAAAAATAACTTAAAAATTAAATAACAAATCAAT
* * *
1088612 AAATATTAAATAACAAATCAATTAAAAATAATTTAAAAATTAAATAATAAATCAATT
1 AAAAATTAAATAACAAATCAATTAAAAATAACTTAAAAATTAAATAACAAATCAA-T
*
1088669 AAAAATTAAATAACAAATCAATTAAAAATTAAATTAAA
1 AAAAATTAAATAACAAATCAATTAAAAA-TAACTTAAA
1088707 CAAACAAATA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
54 46 0.55
55 2 0.02
57 27 0.33
58 8 0.10
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (56 bp):
AAAAATTAAATAACAAATCAATTAAAAATAACTTAAAAATTAAATAACAAATCAAT
Found at i:1088678 original size:16 final size:16
Alignment explanation
Indices: 1088564--1088702 Score: 77
Period size: 16 Copynumber: 8.8 Consensus size: 16
1088554 TACGAAAAAA
1088564 TAAATAA-TAAATCAAT
1 TAAATAATTAAAT-AAT
1088580 TAAAAGTAACTTAAA-AAT
1 T-AAA-TAA-TTAAATAAT
*
1088598 TAAATAA-CAAATAA-
1 TAAATAATTAAATAAT
1088612 -AAAT-ATTAAATAA-
1 TAAATAATTAAATAAT
*
1088625 CAAATCAATTAAAAATAATT
1 TAAAT-AATT--AAATAA-T
1088645 TAAA-AATTAAATAA-
1 TAAATAATTAAATAAT
1088659 TAAATCAATTAAA-AAT
1 TAAAT-AATTAAATAAT
*
1088675 TAAATAA-CAAATCAAT
1 TAAATAATTAAAT-AAT
1088691 TAAA-AATTAAAT
1 TAAATAATTAAAT
1088703 TAAACAAACA
Statistics
Matches: 99, Mismatches: 5, Indels: 38
0.70 0.04 0.27
Matches are distributed among these distances:
12 1 0.01
13 10 0.10
14 14 0.14
15 8 0.08
16 36 0.36
17 6 0.06
18 17 0.17
20 7 0.07
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.29
Consensus pattern (16 bp):
TAAATAATTAAATAAT
Found at i:1088698 original size:7 final size:8
Alignment explanation
Indices: 1088564--1088702 Score: 77
Period size: 7 Copynumber: 17.6 Consensus size: 8
1088554 TACGAAAAAA
1088564 TAAATAA-
1 TAAATAAT
1088571 TAAATCAAT
1 TAAAT-AAT
1088580 TAAAAGTAACT
1 T-AAA-TAA-T
1088591 TAAA-AAT
1 TAAATAAT
1088598 TAAATAA-
1 TAAATAAT
*
1088605 CAAATAA-
1 TAAATAAT
1088612 -AAAT-AT
1 TAAATAAT
1088618 TAAATAA-
1 TAAATAAT
*
1088625 CAAATCAAT
1 TAAAT-AAT
1088634 TAAAAATAATT
1 T--AAATAA-T
1088645 TAAA-AAT
1 TAAATAAT
1088652 TAAATAA-
1 TAAATAAT
1088659 TAAATCAAT
1 TAAAT-AAT
1088668 TAAA-AAT
1 TAAATAAT
1088675 TAAATAA-
1 TAAATAAT
*
1088682 CAAATCAAT
1 TAAAT-AAT
1088691 TAAA-AAT
1 TAAATAAT
1088698 TAAAT
1 TAAAT
1088703 TAAACAAACA
Statistics
Matches: 106, Mismatches: 5, Indels: 41
0.70 0.03 0.27
Matches are distributed among these distances:
5 1 0.01
6 4 0.04
7 52 0.49
8 19 0.18
9 11 0.10
10 10 0.09
11 9 0.08
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.29
Consensus pattern (8 bp):
TAAATAAT
Found at i:1088703 original size:12 final size:11
Alignment explanation
Indices: 1088559--1088706 Score: 85
Period size: 11 Copynumber: 13.3 Consensus size: 11
1088549 AAATATACGA
1088559 AAAAATAAA-T
1 AAAAATAAATT
*
1088569 AATAAATCAATT
1 AA-AAATAAATT
* *
1088581 AAAAGTAACTT
1 AAAAATAAATT
1088592 AAAAATTAAA-T
1 AAAAA-TAAATT
1088603 AACAAATAAA--
1 AA-AAATAAATT
* *
1088613 AATATTAAA-T
1 AAAAATAAATT
*
1088623 AACAAATCAATT
1 AA-AAATAAATT
*
1088635 AAAAATAATTT
1 AAAAATAAATT
1088646 AAAAATTAAA-T
1 AAAAA-TAAATT
*
1088657 AATAAATCAATT
1 AA-AAATAAATT
1088669 AAAAATTAAA-T
1 AAAAA-TAAATT
*
1088680 AACAAATCAATT
1 AA-AAATAAATT
1088692 AAAAATTAAATT
1 AAAAA-TAAATT
1088704 AAA
1 AAA
1088707 CAAACAAATA
Statistics
Matches: 106, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
9 5 0.05
10 6 0.06
11 57 0.54
12 38 0.36
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (11 bp):
AAAAATAAATT
Found at i:1088722 original size:29 final size:30
Alignment explanation
Indices: 1088671--1088742 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
1088661 AATCAATTAA
* *
1088671 AAATTAAA-TAACAAATCAATTAAAA-ATT
1 AAATTAAACAAACAAATCAATTAAAACAAT
1088699 AAATTAAACAAACAAAT-AACTTAAAACAAT
1 AAATTAAACAAACAAATCAA-TTAAAACAAT
1088729 AAATGCTAAACAAA
1 AAAT--TAAACAAA
1088743 ATATAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 10 0.27
29 13 0.35
30 6 0.16
32 8 0.22
ACGTcount: A:0.65, C:0.11, G:0.01, T:0.22
Consensus pattern (30 bp):
AAATTAAACAAACAAATCAATTAAAACAAT
Found at i:1089207 original size:100 final size:93
Alignment explanation
Indices: 1089002--1089208 Score: 270
Period size: 93 Copynumber: 2.2 Consensus size: 93
1088992 TACTGCCGTT
* * * *
1089002 ATTTGATAACCTTCCATTAATATAATTTTATTTTTTATTTTTTAATATATAAATATAAAAAAAAT
1 ATTTGATAACCCTCCATTAATATAATATAATTTTTTATTTTTTAATATATAAATATAAAAAAAAA
* * *
1089067 TTGTGTCAGAAAATCTCGGAGTGTCGCC
66 TTATGTCAGAAAAACTCGGAGTGCCGCC
1089095 ATTTGATAACCCTCCATTAATATAATATAATTTTTTATTTTTTAATATATAAATATAATAAAAAA
1 ATTTGATAACCCTCCATTAATATAATATAATTTTTTATTTTTTAATATAT-AA-AT-AT---AAA
**
1089160 AAAAAATTATGTCAGAAAAACTCATTAGTGCCGCC
60 AAAAAATTATGTCAGAAAAACTC-GGAGTGCCGCC
1089195 ATTTGATAACCCTC
1 ATTTGATAACCCTC
1089209 TACCTAACTA
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
93 47 0.48
94 2 0.02
95 2 0.02
96 2 0.02
99 23 0.23
100 22 0.22
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (93 bp):
ATTTGATAACCCTCCATTAATATAATATAATTTTTTATTTTTTAATATATAAATATAAAAAAAAA
TTATGTCAGAAAAACTCGGAGTGCCGCC
Found at i:1089924 original size:29 final size:27
Alignment explanation
Indices: 1089892--1089955 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 27
1089882 ATTAATAATG
1089892 ATAAAATTATATTTTGACTCTTC-AAAATA
1 ATAAAATT-TA-TTT-ACTCTTCAAAAATA
*
1089921 ATAATAATTTATTTACTCTTCTAAAAATG
1 ATAA-AATTTATTTACTCTTC-AAAAATA
1089950 ATAAAA
1 ATAAAA
1089956 GATGTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 7 0.23
28 5 0.16
29 15 0.48
30 4 0.13
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (27 bp):
ATAAAATTTATTTACTCTTCAAAAATA
Found at i:1090320 original size:23 final size:22
Alignment explanation
Indices: 1090285--1090328 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1090275 CCAACTGCAT
1090285 TTATTCTCAAAAAAGAAAAAAAG
1 TTATTCTC-AAAAAGAAAAAAAG
* * *
1090308 TTATTTTCTAAAAGATAAAAA
1 TTATTCTCAAAAAGAAAAAAA
1090329 TAGATAAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
TTATTCTCAAAAAGAAAAAAAG
Found at i:1095976 original size:258 final size:256
Alignment explanation
Indices: 1095516--1096028 Score: 927
Period size: 258 Copynumber: 2.0 Consensus size: 256
1095506 AATTATCCAA
1095516 TATATTTATATAACTTAATTTTCACAGATCACTAGAACAATATCGATCAAATCAGTATCATGTTA
1 TATATTTATATAACTTAATTTTCACAGATCACTAGAACAATATCGATCAAATCAGTATCATGTTA
*
1095581 CGATGATATATTATATACACAAACAATTATATTAATATAATATAAAATGAATATATGTATTAATT
66 CGATGATATATTATATACACAAACAATTATATTAATATAATATAAAATAAATATATGTATTAATT
*
1095646 TTTTAAAAGTATGTAATTGAATTAAAATTAAAATTTCATGTACATAATTACATCCAATTAAAATT
131 TTTTAAAAGTATATAATTGAATTAAAATTAAAATTTCATGTACATAATTACATCCAATTAAAATT
*
1095711 TACATAAATCAAAACTCATGTATAAATTATACTCTACTTTATTATTATATTTTACCTAGATGG
196 CACATAAAT--AAACTCATGTATAAATTATACTCTACTTTATTATTATATTTTACCTAGATGG
* *
1095774 TATATTTATATAACTTAATTTTCACAGATCACTAGAACAATATTGATCGAATCAGTATCATGTTA
1 TATATTTATATAACTTAATTTTCACAGATCACTAGAACAATATCGATCAAATCAGTATCATGTTA
* *
1095839 CGATGATATATTGTATACACAAATAATTATATTAATATAATATAAAATAAATATATGTATTAATT
66 CGATGATATATTATATACACAAACAATTATATTAATATAATATAAAATAAATATATGTATTAATT
*
1095904 TTTTAAAAGTATATAATTGAATTAAAGTTAAAATTTCATGTACATAATTACATCCAATTAAAATT
131 TTTTAAAAGTATATAATTGAATTAAAATTAAAATTTCATGTACATAATTACATCCAATTAAAATT
*
1095969 CACATAAATTAACTCATGTATAAATTATACTCTACTTTATTATTATATTTTACCTAGATG
196 CACATAAATAAACTCATGTATAAATTATACTCTACTTTATTATTATATTTTACCTAGATG
1096029 TTGCAATTGT
Statistics
Matches: 246, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
256 50 0.20
258 196 0.80
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.40
Consensus pattern (256 bp):
TATATTTATATAACTTAATTTTCACAGATCACTAGAACAATATCGATCAAATCAGTATCATGTTA
CGATGATATATTATATACACAAACAATTATATTAATATAATATAAAATAAATATATGTATTAATT
TTTTAAAAGTATATAATTGAATTAAAATTAAAATTTCATGTACATAATTACATCCAATTAAAATT
CACATAAATAAACTCATGTATAAATTATACTCTACTTTATTATTATATTTTACCTAGATGG
Found at i:1097310 original size:12 final size:12
Alignment explanation
Indices: 1097293--1097322 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1097283 ACACGCACAT
1097293 ATATATGTACGG
1 ATATATGTACGG
1097305 ATATATGTACGG
1 ATATATGTACGG
1097317 ATATAT
1 ATATAT
1097323 AAATAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (12 bp):
ATATATGTACGG
Found at i:1098737 original size:20 final size:19
Alignment explanation
Indices: 1098702--1098740 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1098692 GAAACAAACA
1098702 ACATAAATGCATAATATAT
1 ACATAAATGCATAATATAT
*
1098721 ACATAATATGTATAATATAT
1 ACATAA-ATGCATAATATAT
1098741 GAAACTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (19 bp):
ACATAAATGCATAATATAT
Found at i:1111090 original size:24 final size:26
Alignment explanation
Indices: 1111063--1111110 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1111053 AGAGAAATGT
1111063 AAATG-TG-ATATATGAAATTATGAG
1 AAATGATGAATATATGAAATTATGAG
* *
1111087 AAATGATGAATATGTGAGATTATG
1 AAATGATGAATATATGAAATTATG
1111111 CCCATGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 2 0.10
26 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (26 bp):
AAATGATGAATATATGAAATTATGAG
Found at i:1111232 original size:22 final size:22
Alignment explanation
Indices: 1111178--1111286 Score: 130
Period size: 22 Copynumber: 4.9 Consensus size: 22
1111168 AGCGCGCCTA
* *
1111178 CTGTTTAGCA-CGTTTCGTGCCCT
1 CTGTTTAGCACCGTGT-GTG-CTT
* *
1111201 CTGTTCAGCACTGTGTGTGCTT
1 CTGTTTAGCACCGTGTGTGCTT
1111223 CTGTTTAGCACCGTGTGTGCTT
1 CTGTTTAGCACCGTGTGTGCTT
1111245 CTGTTTAGCACCGTGTGTGCTT
1 CTGTTTAGCACCGTGTGTGCTT
* **
1111267 CTGATTAGCACTTTGTGTGC
1 CTGTTTAGCACCGTGTGTGC
1111287 CTACTATTGC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
22 61 0.80
23 12 0.16
24 3 0.04
ACGTcount: A:0.10, C:0.24, G:0.26, T:0.40
Consensus pattern (22 bp):
CTGTTTAGCACCGTGTGTGCTT
Found at i:1112970 original size:10 final size:10
Alignment explanation
Indices: 1112955--1112984 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1112945 TTAGTTGATG
1112955 TAAAATATAA
1 TAAAATATAA
*
1112965 TAAAATACAA
1 TAAAATATAA
1112975 TAAAATATAA
1 TAAAATATAA
1112985 CATGAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAATATAA
Found at i:1113375 original size:15 final size:15
Alignment explanation
Indices: 1113355--1113392 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1113345 CATGTAAAGA
1113355 TGCGAACTCACCACG
1 TGCGAACTCACCACG
1113370 TGCGAACTCACCACG
1 TGCGAACTCACCACG
1113385 TGCGAACT
1 TGCGAACT
1113393 ATGCAGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.37, G:0.21, T:0.16
Consensus pattern (15 bp):
TGCGAACTCACCACG
Found at i:1115160 original size:59 final size:59
Alignment explanation
Indices: 1115048--1115175 Score: 145
Period size: 59 Copynumber: 2.2 Consensus size: 59
1115038 TTTTTAAGTT
* * ** *
1115048 GGTATCAAATTGGGTCCAAAAAAAGTTTAGCTACCAAATTAGTAAAAATTGTCAAGTTC
1 GGTATCAAATTGAGTCCAAAAAAAGTTCAAATACCAAATTAGTAAAAATTGTCAAATTC
*
1115107 AGGTATCAAATTGAGT-TAAAAAAAGTTCAAATACCAAATTAAG-AGAAAA-TGTCAAATTC
1 -GGTATCAAATTGAGTCCAAAAAAAGTTCAAATACCAAATT-AGTA-AAAATTGTCAAATTC
1115166 GGATATCAAA
1 GG-TATCAAA
1115176 AAGTTTAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
58 2 0.03
59 37 0.63
60 20 0.34
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.27
Consensus pattern (59 bp):
GGTATCAAATTGAGTCCAAAAAAAGTTCAAATACCAAATTAGTAAAAATTGTCAAATTC
Found at i:1120838 original size:175 final size:174
Alignment explanation
Indices: 1120437--1120907 Score: 667
Period size: 175 Copynumber: 2.7 Consensus size: 174
1120427 ACAATATAAC
* * * * *
1120437 AATTTCTAACATAGTAACAAGCAAACATAATAATATAATAAGTCACTGAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATAACAAGTCACTAAATAATTAATCAATTTC
* * * *
1120502 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTTGACGTACCAATCGCTTCACGGACAAA
66 ATCACATCTTCATAAAACATTCTGTGTCAATAAAATGTAGACATACCAATCGCTTCGCGGACAAA
* * *
1120567 TGTTCAAAAGAAAACATCGCCACCCACCAAGTAGGTAGGAAACA
131 TGTTCAAAAGAAAACATCGCCAACCACCAAGTAGGCAAGAAACA
* **
1120611 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATAACAAGTCACTAAATAATTAATCAATTTC
* * * * *
1120676 ATCATATCTTCATAAAACATTCTCTGTCAAAAAAATGTAGACATACCAATCGTTTCGCGTACAAA
66 ATCACATCTTCATAAAACATTCTGTGTCAATAAAATGTAGACATACCAATCGCTTCGCGGACAAA
* *
1120741 TGTTCAGAAAGAAAACATCGCGAACCACCAAGTGGGCAAGAAACA
131 TGTTCA-AAAGAAAACATCGCCAACCACCAAGTAGGCAAGAAACA
* * * *
1120786 AATTCCTAACATAATAAGAAGGAAATATGATAATATAACAAGTCATTAAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATAACAAGTCACTAAATAATTAATCAATTTC
1120851 AAT-ACATCTTCATAAAACATTCTGTGTCAATAAAATGTTAG-CATACCAATCGCTTCG
66 -ATCACATCTTCATAAAACATTCTGTGTCAATAAAATG-TAGACATACCAATCGCTTCG
1120908 TGAATGAACT
Statistics
Matches: 261, Mismatches: 33, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
174 119 0.46
175 137 0.52
176 5 0.02
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (174 bp):
AATTTCTAACATAATAAGAAGCAAACATGATAATATAACAAGTCACTAAATAATTAATCAATTTC
ATCACATCTTCATAAAACATTCTGTGTCAATAAAATGTAGACATACCAATCGCTTCGCGGACAAA
TGTTCAAAAGAAAACATCGCCAACCACCAAGTAGGCAAGAAACA
Found at i:1122179 original size:41 final size:40
Alignment explanation
Indices: 1122038--1122179 Score: 115
Period size: 41 Copynumber: 3.5 Consensus size: 40
1122028 GTTTATGGGA
* * * * *
1122038 AAACGCCGCTATTCCT-TAACCTTTAGCGGCGTTTTTCTCTT
1 AAACGCCGCTAATGCTCTGACCCTTAGCGGCG--TTTCTCAT
* ** * * *
1122079 AAACGCCGCTAATGCTTTGACTTTTAGCAGTGTGTTCTCAA
1 AAACGCCGCTAATGCTCTGACCCTTAGCGGCGT-TTCTCAT
* *
1122120 AAACGCCGCTATTACTCTGACCCTTAGCGGCGCTTTCTCAT
1 AAACGCCGCTAATGCTCTGACCCTTAGCGGCG-TTTCTCAT
*
1122161 AAATGCCGCTAATGCTCTG
1 AAACGCCGCTAATGCTCTG
1122180 TCCTTTTTAA
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
41 66 0.84
42 12 0.15
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (40 bp):
AAACGCCGCTAATGCTCTGACCCTTAGCGGCGTTTCTCAT
Found at i:1128996 original size:41 final size:41
Alignment explanation
Indices: 1128939--1129237 Score: 171
Period size: 41 Copynumber: 7.3 Consensus size: 41
1128929 GTTTATGGGA
* * *
1128939 AAACGCCGCTATTGCTTAACCTTTAGCGGCGTTTTTCTCTT
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTTCTCAT
* * * *
1128980 AAACGCCGCTAATGCTTTGACTTTTAGCAGTG-TTTTCTCAAA
1 AAACGCCGCTAATGC-TTGACCTTTAGCGGCGTTTTTCTC-AT
* * * * *
1129022 AAATGCCGCTATTACTCTGACCCTTAGCGGCG-CTTTCTCAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTTCTCAT
* * * *
1129063 AAATGCCGCTAATGCTCTGTCCTTTAGCGACG-TTGTCTCAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTTCTCAT
* * * * * *
1129104 AAACGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTTTC-CTAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTTCTC-AT
* * * * * * *
1129146 AAATGCCACTATTGCTTTACCTTTTGCGGCGTTTAT-ACA-
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTTCTCAT
* * * * * *
1129185 AAACGTCGCTATTGCTTTACCTTTTGCGGCGTTTTTTGTC-C
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCG-TTTTTCTCAT
1129226 AAACGCCGCTAA
1 AAACGCCGCTAA
1129238 AAATGTCGCT
Statistics
Matches: 197, Mismatches: 52, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
39 28 0.14
40 5 0.03
41 107 0.54
42 57 0.29
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (41 bp):
AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTTCTCAT
Found at i:1129030 original size:42 final size:41
Alignment explanation
Indices: 1128984--1129090 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 41
1128974 TCTCTTAAAC
* ** * *
1128984 GCCGCTAATGCTTTGACTTTTAGCAGTGTTTTCTCAAAAAAT
1 GCCGCTAATGCTCTGACCCTTAGCAGCGCTTTCTC-AAAAAT
* * * *
1129026 GCCGCTATTACTCTGACCCTTAGCGGCGCTTTCTCATAAAT
1 GCCGCTAATGCTCTGACCCTTAGCAGCGCTTTCTCAAAAAT
* *
1129067 GCCGCTAATGCTCTGTCCTTTAGC
1 GCCGCTAATGCTCTGACCCTTAGC
1129091 GACGTTGTCT
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
41 25 0.48
42 27 0.52
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (41 bp):
GCCGCTAATGCTCTGACCCTTAGCAGCGCTTTCTCAAAAAT
Found at i:1129089 original size:83 final size:83
Alignment explanation
Indices: 1128938--1129090 Score: 200
Period size: 83 Copynumber: 1.8 Consensus size: 83
1128928 CGTTTATGGG
* * * * * *
1128938 AAAACGCCGCTATTGCTTAACCTTTAGCGGCGTTTTTCTCTTAAACGCCGCTAATGCTTTGACTT
1 AAAACGCCGCTATTACTTAACCCTTAGCGGCGTCTTTCTCATAAACGCCGCTAATGCTCTGACCT
1129003 TTAGCAGTGTTTTCTCAA
66 TTAGCAGTGTTTTCTCAA
* * * *
1129021 AAAATGCCGCTATTACTCTGACCCTTAGCGGCG-CTTTCTCATAAATGCCGCTAATGCTCTGTCC
1 AAAACGCCGCTATTACT-TAACCCTTAGCGGCGTCTTTCTCATAAACGCCGCTAATGCTCTGACC
1129085 TTTAGC
65 TTTAGC
1129091 GACGTTGTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 46 0.78
84 13 0.22
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (83 bp):
AAAACGCCGCTATTACTTAACCCTTAGCGGCGTCTTTCTCATAAACGCCGCTAATGCTCTGACCT
TTAGCAGTGTTTTCTCAA
Found at i:1134509 original size:175 final size:175
Alignment explanation
Indices: 1134218--1134688 Score: 737
Period size: 175 Copynumber: 2.7 Consensus size: 175
1134208 ACAATATAAC
* * * * * * ** *
1134218 AATTTCTAGCATAGTAACAAGCAAACATAATAATATAATAAGTCACTGAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
*
1134283 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTTGGCATACCAATCGCTTCACGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTAGGCATACCAATCGCTTCACGGACAAA
* *
1134348 TGTTCAGAAAGAAAACATCGCCACCCACCAAGTAGGCAGGAGACA
131 TGTTCAGAAAGAAAACATCGCCAACCACCAAGTAGGCAGGAAACA
1134393 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* * * * * *
1134458 ACCATATCTTCATAAAACATTCTCTGTTAAAAAAATGTAGGCATACCAATCGTTTCGCGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTAGGCATACCAATCGCTTCACGGACAAA
*
1134523 TGTTCAGAAAGAAAACATCGCGAACCACCAAGTAGGCAGGAAACA
131 TGTTCAGAAAGAAAACATCGCCAACCACCAAGTAGGCAGGAAACA
1134568 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
**
1134633 AATACATCTTCATAAAACATTCTGTGTCAATAAAATGTCA-GCATACCAATCGCTTC
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGT-AGGCATACCAATCGCTTC
1134689 GCGAATGAAC
Statistics
Matches: 269, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
175 268 1.00
176 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (175 bp):
AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTAGGCATACCAATCGCTTCACGGACAAA
TGTTCAGAAAGAAAACATCGCCAACCACCAAGTAGGCAGGAAACA
Found at i:1135779 original size:41 final size:41
Alignment explanation
Indices: 1135722--1136020 Score: 171
Period size: 41 Copynumber: 7.3 Consensus size: 41
1135712 GTTTATGGGA
* * *
1135722 AAACGCCGCTATTGCTTAACCTTTAGCGGCGTTTTTCTCTT
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTTCTCAT
* * * *
1135763 AAACGCCGCTAATGCTTTGACTTTTAGCAGTG-TTTTCTCAAA
1 AAACGCCGCTAATGC-TTGACCTTTAGCGGCGTTTTTCTC-AT
* * * * *
1135805 AAATGCCGCTATTACTCTGACCCTTAGCGGCG-CTTTCTCAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTTCTCAT
* * * *
1135846 AAATGCCGCTAATGCTCTGTCCTTTAGCGACG-TTGTCTCAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTTCTCAT
* * * * * *
1135887 AAACGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTTTC-CTAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTTCTC-AT
* * * * * * *
1135929 AAATGCCACTATTGCTTTACCTTTTGCGGCGTTTAT-ACA-
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTTCTCAT
* * * * * *
1135968 AAACGTCGCTATTGCTTTACCTTTTGCGGCGTTTTTTGTC-C
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCG-TTTTTCTCAT
1136009 AAACGCCGCTAA
1 AAACGCCGCTAA
1136021 AAATGTCGCT
Statistics
Matches: 197, Mismatches: 52, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
39 28 0.14
40 5 0.03
41 107 0.54
42 57 0.29
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (41 bp):
AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTTCTCAT
Found at i:1135813 original size:42 final size:41
Alignment explanation
Indices: 1135767--1135873 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 41
1135757 TCTCTTAAAC
* ** * *
1135767 GCCGCTAATGCTTTGACTTTTAGCAGTGTTTTCTCAAAAAAT
1 GCCGCTAATGCTCTGACCCTTAGCAGCGCTTTCTC-AAAAAT
* * * *
1135809 GCCGCTATTACTCTGACCCTTAGCGGCGCTTTCTCATAAAT
1 GCCGCTAATGCTCTGACCCTTAGCAGCGCTTTCTCAAAAAT
* *
1135850 GCCGCTAATGCTCTGTCCTTTAGC
1 GCCGCTAATGCTCTGACCCTTAGC
1135874 GACGTTGTCT
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
41 25 0.48
42 27 0.52
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (41 bp):
GCCGCTAATGCTCTGACCCTTAGCAGCGCTTTCTCAAAAAT
Found at i:1135872 original size:83 final size:83
Alignment explanation
Indices: 1135721--1135873 Score: 200
Period size: 83 Copynumber: 1.8 Consensus size: 83
1135711 CGTTTATGGG
* * * * * *
1135721 AAAACGCCGCTATTGCTTAACCTTTAGCGGCGTTTTTCTCTTAAACGCCGCTAATGCTTTGACTT
1 AAAACGCCGCTATTACTTAACCCTTAGCGGCGTCTTTCTCATAAACGCCGCTAATGCTCTGACCT
1135786 TTAGCAGTGTTTTCTCAA
66 TTAGCAGTGTTTTCTCAA
* * * *
1135804 AAAATGCCGCTATTACTCTGACCCTTAGCGGCG-CTTTCTCATAAATGCCGCTAATGCTCTGTCC
1 AAAACGCCGCTATTACT-TAACCCTTAGCGGCGTCTTTCTCATAAACGCCGCTAATGCTCTGACC
1135868 TTTAGC
65 TTTAGC
1135874 GACGTTGTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 46 0.78
84 13 0.22
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (83 bp):
AAAACGCCGCTATTACTTAACCCTTAGCGGCGTCTTTCTCATAAACGCCGCTAATGCTCTGACCT
TTAGCAGTGTTTTCTCAA
Found at i:1143671 original size:2 final size:2
Alignment explanation
Indices: 1143666--1143697 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1143656 AAAAATACGT
1143666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1143698 CACTAATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1146260 original size:175 final size:175
Alignment explanation
Indices: 1145951--1146424 Score: 693
Period size: 175 Copynumber: 2.7 Consensus size: 175
1145941 ACAATATAAC
* * * * * * * ** *
1145951 AATTTATAGCATAGTAACAAGCAAACATAATAATATAATAAGTCACTGAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* * * *
1146016 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTTGGCATACCAATCGCTTCACGGACAAA
66 ACCATACCTTCATAAAACATTCTGTGTCAATAAAATGTAGGCATACCAATCGCTTCGCGGACAAA
* *
1146081 TGTTCAGAAAGAAAACATCGCCACCCACCAAGTAGGCAGGAGACA
131 TGTTCAGAAAGAAAACATCGCCAACCACCAAGTAGGCAGGAAACA
*
1146126 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCGATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* * * *
1146191 ACCATACCTTCATAAAACATTCTCTGTTAAAAAAATGTAGGCATACCAATCGTTTCGCGGACAAA
66 ACCATACCTTCATAAAACATTCTGTGTCAATAAAATGTAGGCATACCAATCGCTTCGCGGACAAA
*
1146256 TGTTCAGAAAGAAAACATCGCGAACCACCAAGTAGGCAGGAAACA
131 TGTTCAGAAAGAAAACATCGCCAACCACCAAGTAGGCAGGAAACA
1146301 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
1 AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
*
1146366 A--ATACATCTTCATAAAACATTCTGTGTCAATAAAATGTCA-GCATACCAATTGCTTCGCG
66 ACCATAC--CTTCATAAAACATTCTGTGTCAATAAAATGT-AGGCATACCAATCGCTTCGCG
1146425 AATGAACTTT
Statistics
Matches: 268, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
173 4 0.01
175 263 0.98
176 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (175 bp):
AATTTCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
ACCATACCTTCATAAAACATTCTGTGTCAATAAAATGTAGGCATACCAATCGCTTCGCGGACAAA
TGTTCAGAAAGAAAACATCGCCAACCACCAAGTAGGCAGGAAACA
Found at i:1147235 original size:43 final size:43
Alignment explanation
Indices: 1147174--1147267 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
1147164 TTTGGGTCTA
* *
1147174 TAGCGGTGCTTTTCTCACAAACGCCACTAAATGACATGATCTT
1 TAGCGGCGCTTTTCTCACAAACGCCACTAAAGGACATGATCTT
** *
1147217 TAGCGGCGCTTTTCTCACAAACGCCGTTAAAGGACATGGTCTT
1 TAGCGGCGCTTTTCTCACAAACGCCACTAAAGGACATGATCTT
1147260 TAGCGGCG
1 TAGCGGCG
1147268 TTTGTGTGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (43 bp):
TAGCGGCGCTTTTCTCACAAACGCCACTAAAGGACATGATCTT
Found at i:1147605 original size:41 final size:40
Alignment explanation
Indices: 1147548--1147828 Score: 154
Period size: 41 Copynumber: 6.9 Consensus size: 40
1147538 GTTTATGGGA
* * * *
1147548 AAACGCCACTATTGCTTAACCTTTAGCGGCGTTTTTCTCTT
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCG-TTTTCTCAT
* * * *
1147589 AAACGCCGCTAATGCTTTGACTTTTAGCAGTGTTTTCTCAAA
1 AAACGCCGCTAATGC-TTGACCTTTAGCGGCGTTTTCTC-AT
* * * * *
1147631 AAATGCCGCTATTACTCTGACCATTAGCGGCGCTTTCTCAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTCTCAT
* * * *
1147672 AAATGCCGCTAATGCTCTGTCCTTTAGCGACGTTGTCTCAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTCTCAT
* * * * * *
1147713 AAACGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTT-TCCTAT
1 AAACGCCGCTAATGCT-TGACCTTTAGCGGCGTTTTCT-C-AT
* * * * * *
1147755 AAATGCCACTATTGCTTTACCTTTTGCGGCGTTTAT-ACA-
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTT-TCTCAT
* * * * *
1147794 AAACGTCACTATTGCTTTACCTTTTGCGGCGTTTT
1 AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTT
1147829 TTTTCCAAAC
Statistics
Matches: 186, Mismatches: 48, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.17
40 2 0.01
41 97 0.52
42 54 0.29
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (40 bp):
AAACGCCGCTAATGCTTGACCTTTAGCGGCGTTTTCTCAT
Found at i:1147639 original size:42 final size:41
Alignment explanation
Indices: 1147593--1147699 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 41
1147583 TCTCTTAAAC
* ** * *
1147593 GCCGCTAATGCTTTGACTTTTAGCAGTGTTTTCTCAAAAAAT
1 GCCGCTAATGCTCTGACCATTAGCAGCGCTTTCTC-AAAAAT
* * * *
1147635 GCCGCTATTACTCTGACCATTAGCGGCGCTTTCTCATAAAT
1 GCCGCTAATGCTCTGACCATTAGCAGCGCTTTCTCAAAAAT
* *
1147676 GCCGCTAATGCTCTGTCCTTTAGC
1 GCCGCTAATGCTCTGACCATTAGC
1147700 GACGTTGTCT
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
41 25 0.48
42 27 0.52
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (41 bp):
GCCGCTAATGCTCTGACCATTAGCAGCGCTTTCTCAAAAAT
Found at i:1150296 original size:14 final size:14
Alignment explanation
Indices: 1150277--1150308 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1150267 TTATTGTCAT
1150277 TAAATTTTAATATG
1 TAAATTTTAATATG
*
1150291 TAAATTTTAATATT
1 TAAATTTTAATATG
1150305 TAAA
1 TAAA
1150309 GTTATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TAAATTTTAATATG
Found at i:1152183 original size:24 final size:23
Alignment explanation
Indices: 1152139--1152187 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
1152129 TTTAGTATTA
**
1152139 AAATATTAAATTTTTATAAAATAT
1 AAATATTAAATTTAGATAAAA-AT
1152163 AAATATTAAA-TTAGATCAAAAAT
1 AAATATTAAATTTAGAT-AAAAAT
1152186 AA
1 AA
1152188 CTCAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATATTAAATTTAGATAAAAAT
Found at i:1152943 original size:25 final size:26
Alignment explanation
Indices: 1152910--1152984 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 26
1152900 GGGTTACAAA
1152910 ATTAGAG-TTTATGATTTAAGG-TTTAT
1 ATTAGAGTTTTA-GATTT-AGGATTTAT
1152936 ATTA-AGTTTTAGATTTAGGATTTAT
1 ATTAGAGTTTTAGATTTAGGATTTAT
1152961 A-TAGAGTTTTAGATTTTA-GATTTA
1 ATTAGAGTTTTAGA-TTTAGGATTTA
1152985 GGATTTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.11
25 28 0.62
26 12 0.27
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (26 bp):
ATTAGAGTTTTAGATTTAGGATTTAT
Found at i:1153549 original size:175 final size:175
Alignment explanation
Indices: 1153145--1155749 Score: 3654
Period size: 175 Copynumber: 14.9 Consensus size: 175
1153135 ATAATATAAC
* * * * *
1153145 AATTTCTAACATGGTAAGAAGCAAACATGATAATATAACAAGCCACTGAATAATTAACCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
** * ** **
1153210 ACCACATCTTCATAAAACATTCCATGTCAATAAAATGTCTGCATACCAATCTTTTCACAAACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * *
1153275 TGTT-AAAAAAAAAACATCGTCACCC-ACGAAGT-AGCTAAGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAAC-AAGTGGGC-AGGAAACA
* * *
1153319 AATTCCTAACATAGTAA-AAGGCAAATATGATAATACGACAAGCCACTAAATAATTAATCATTTT
1 AATTCCTAACATAGTAAGAA-GCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTT
* * * *
1153383 CACCACATCTTCATGAAACATTTTGTGTCAATAAAATATCGGCATACCAATCGCTTCACGAACAA
65 CACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAA
* * *
1153448 ATGTTCAAAAAGAAAACATCGTCACCCAGCAAGTGGCCAAGAAACA
130 ATGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* *
1153494 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAGATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * *
1153559 ACCACATCTTTATAAAACATTCTCTGTCAATAAAATGTCAGCATACCAATCGCTTCATGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
** * *
1153624 TGTTCAAAAAGAAAACATTTTCAACCAACAAGTTGGCAGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* *
1153669 AATTTCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * ** ** *
1153734 ACCACATCTT--T-----ATTCTGTGTCAATATAATGTTGGCATACCAATCATTTTGCAGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * *
1153792 TGTTCAAAAAGAAAACATCGTCACCCACCAAGTAGGCAGGAATCA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* *
1153837 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACTACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * *
1153902 ATCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCGCTTCGCGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * * *
1153967 TGTTCAAAAAGAAAACATTGTCAACCAGCAAGTGGGCAGGAAATA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* * * *
1154012 AATTCCTAACATAGTAAGAAGCAAATATGATAATACGACAAGCCACTAAATAATTAATCATTTTT
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * *
1154077 ACCACATCTTCATGAAACATTATGTGTCAATAAAATGTCGGCATACCAATCACTTCACGGGCAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * * *
1154142 TGTTCAAAAAGAAAACATTGCCACCCACCAAGTGGGCAGAAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* *
1154187 AATTCCTAACATAGTAAGAAGCAAACATGATAATATAACAAACCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * *
1154252 ACCACATCTTCATAAAACATTCTCTATCAATAAAATGTCGGCATACCAATCGCTTCATGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * *
1154317 TGTTCAAAAAGAAAACATTGTCAACCAACAAGTGGACAGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* * *
1154362 AATTTCTAACATAGTAAGAAGAAAATATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
** **
1154427 ACCACATCTTCAT-AAACATTCTGTGTCAATAAAATGTCGGCATACCAATCATTTTGCGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* *
1154491 TGTTCAAAAAGAAAACATCGCCACCCATCAAGTGGGCAGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
*
1154536 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * * ***
1154601 ATCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCACTTCGTAGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * *
1154666 TGTTCAAAAAGAAAACATTGTCAACCATCAAGTGGGCAGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
*
1154711 AATTCCTAACATAGTAAGAAGCAAAGATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * *
1154776 ACCACATCTTCATGAAATATTCTGTGTCAATATAATGTCGGCATACCAATCGCTTCACGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * *
1154841 TGTTCAAAAAGAAAACATTGCCACCCACCAAGTGGGCAGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* *
1154886 AATTCCTAACATAGTAAGAAGCAAACATGATAACATGACAAACCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * * *
1154951 ATCACATCTTCATAAAACATTCTCTATCAATAAAATGCCGGCATACCAATCGCTTCGCGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * * *
1155016 TGTTCAAAAAGAAAACATTGTCAACCAGCAAGTGGGCAGAAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
*
1155061 AATTCCTAACATAGTAAGAAGCAAAGATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * *
1155126 ACTACATCTTCATGAAACATTCTGTGTCAATATAATGTCGACATACCAATCGCTTCACGGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
*
1155191 TGTTCAAAAAGAAAACATCGTCACCCATCAAGTGGGCAGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* * * *
1155236 AATTCCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAACAAGTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * * * *
1155301 ACCACATCTTCATAAAACATTCTCTATCAATAAAATGTTGACATACCAATCGCTTCGCAGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* * *
1155366 TGTTC-AAAAGAAAACATCGTTAACCAACAAGTGGGCTGGAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
*
1155410 AATTCCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * * * *
1155475 ACCATATCTTCATGAAACATTCTGTGTCAATAAAATGTCAGCATATCAATCGCTTCGCAGACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
** * *
1155540 TGTTCAAAAAGAAAACATCCCCACCCAACAAGTGAGCAGAAAACA
131 TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
* *
1155585 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGATAAGCCAATAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
* * * * * *** *
1155650 ACCACATTTTTATAAAACATTCTTTGTCACTAAAATGCCGGCATACCAATCGCTTTGTGAACAAA
66 ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
* *
1155715 TGTTCAAAAAGAAAACA-CTGTCAACCACCAAGTGG
131 TGTTCAAAAAGAAAACATC-GTCACCCAACAAGTGG
1155750 TAGCTAATCG
Statistics
Matches: 2164, Mismatches: 252, Indels: 29
0.89 0.10 0.01
Matches are distributed among these distances:
168 146 0.07
170 1 0.00
173 3 0.00
174 429 0.20
175 1581 0.73
176 4 0.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (175 bp):
AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACTAAATAATTAATCAATTTC
ACCACATCTTCATAAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAA
TGTTCAAAAAGAAAACATCGTCACCCAACAAGTGGGCAGGAAACA
Found at i:1154804 original size:699 final size:697
Alignment explanation
Indices: 1153145--1155749 Score: 4073
Period size: 699 Copynumber: 3.7 Consensus size: 697
1153135 ATAATATAAC
* * * * * *
1153145 AATTTCTAACATGGTAAGAAGCAAACATGATAATATAACAAGCCACTGAATAATTAACCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* * ** * *
1153210 ACCACATCTTCATAAAACATTC-CATGTCAATAAAATGTCTGCATACCAATCTTTTCACAAACAA
66 ACCACATCTTCATAAAACATTCTC-TGTCAATAAAATATCGGCATACCAATCGCTTCGCAGACAA
* * * *
1153274 ATGTT-AAAAAAAAAACATCGTCACCCACGAAGT-AGCTAAGAAACAAATTCCTAACATAGTAA-
130 ATGTTCAAAAAGAAAACATCGTCAACCAC-AAGTGGGC-AGGAAACAAATTCCTAACATAGTAAG
*
1153336 AAGGCAAATATGATAATACGACAAGCCACTAAATAATTAATCATTTTCACCACATCTTCATGAAA
193 AA-GCAAATATGATAATACGACAAGCCACTAAATAATTAATCAATTTCACCACATCTTCATGAAA
* * *
1153401 CATTTTGTGTCAATAAAATATCGGCATACCAATCGCTTCACGAACAAATGTTCAAAAAGAAAACA
257 CATTCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAATGTTCAAAAAGAAAACA
* * *
1153466 TCGTCACCCAGCAAGTGGCCA-AGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATAT
322 TCGCCACCCACCAAGTGGGCAGA-AAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATAT
* * *
1153530 GACAAACCACTAGATAATTAATCAATTTCACCACATCTTTATAAAACATTCTCTGTCAATAAAAT
386 GACAAACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTATCAATAAAAT
* * *
1153595 GTCAGCATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTTTCAACCAACAAGTTGG
451 GCCGGCATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTGTCAACCAACAAG-TGG
1153660 CAGGAAACAAATTTCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTA
515 CAGGAAACAAATTTCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTA
*
1153725 ATCAATTTCACCACATCTT--T----ATTCTGTGTCAATATAATGTTGGCATACCAATCATTTTG
580 ATCAATTTCACCACATCTTCATAAACATTCTGTGTCAATATAATGTCGGCATACCAATCATTTTG
* * * *
1153784 CAGACAAATGTTCAAAAAGAAAACATCGTCACCCACCAAGTAGGCAGGAATCA
645 CGGACAAATGTTCAAAAAGAAAACATCGTCACCCATCAAGTGGGCAGGAAACA
*
1153837 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACTACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* *
1153902 ATCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCGCTTCGCGGACAAA
66 ACCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCGCTTCGCAGACAAA
* *
1153967 TGTTCAAAAAGAAAACATTGTCAACCAGCAAGTGGGCAGGAAATAAATTCCTAACATAGTAAGAA
131 TGTTCAAAAAGAAAACATCGTCAACCA-CAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAA
* *
1154032 GCAAATATGATAATACGACAAGCCACTAAATAATTAATCATTTTTACCACATCTTCATGAAACAT
195 GCAAATATGATAATACGACAAGCCACTAAATAATTAATCAATTTCACCACATCTTCATGAAACAT
* * * *
1154097 TATGTGTCAATAAAATGTCGGCATACCAATCACTTCACGGGCAAATGTTCAAAAAGAAAACATTG
260 TCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAATGTTCAAAAAGAAAACATCG
*
1154162 CCACCCACCAAGTGGGCAGAAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATAACA
325 CCACCCACCAAGTGGGCAGAAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACA
*
1154227 AACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTATCAATAAAATGTCG
390 AACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTATCAATAAAATGCCG
1154292 GCATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTGTCAACCAACAAGTGGACAGG
455 GCATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTGTCAACCAACAAGTGG-CAGG
*
1154357 AAACAAATTTCTAACATAGTAAGAAGAAAATATGATAATATGACAAGCCACTAAATAATTAATCA
519 AAACAAATTTCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTAATCA
*
1154422 ATTTCACCACATCTTCATAAACATTCTGTGTCAATAAAATGTCGGCATACCAATCATTTTGCGGA
584 ATTTCACCACATCTTCATAAACATTCTGTGTCAATATAATGTCGGCATACCAATCATTTTGCGGA
*
1154487 CAAATGTTCAAAAAGAAAACATCGCCACCCATCAAGTGGGCAGGAAACA
649 CAAATGTTCAAAAAGAAAACATCGTCACCCATCAAGTGGGCAGGAAACA
1154536 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* * *
1154601 ATCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCACTTCGTAGACAAA
66 ACCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCGCTTCGCAGACAAA
*
1154666 TGTTCAAAAAGAAAACATTGTCAACCATCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAA
131 TGTTCAAAAAGAAAACATCGTCAACCA-CAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAA
* * *
1154731 GCAAAGATGATAATATGACAAGCCACTAAATAATTAATCAATTTCACCACATCTTCATGAAATAT
195 GCAAATATGATAATACGACAAGCCACTAAATAATTAATCAATTTCACCACATCTTCATGAAACAT
* *
1154796 TCTGTGTCAATATAATGTCGGCATACCAATCGCTTCACGGACAAATGTTCAAAAAGAAAACATTG
260 TCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAATGTTCAAAAAGAAAACATCG
* *
1154861 CCACCCACCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAACATGACA
325 CCACCCACCAAGTGGGCAGAAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACA
*
1154926 AACCACTAAATAATTAATCAATTTCATCACATCTTCATAAAACATTCTCTATCAATAAAATGCCG
390 AACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTATCAATAAAATGCCG
** * *
1154991 GCATACCAATCGCTTCGCGGACAAATGTTCAAAAAGAAAACATTGTCAACCAGCAAGTGGGCAGA
455 GCATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTGTCAACCAACAAGT-GGCAGG
* *
1155056 AAACAAATTCCTAACATAGTAAGAAGCAAAGATGATAATATGACAAGCCACTAAATAATTAATCA
519 AAACAAATTTCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTAATCA
* * ** **
1155121 ATTTCACTACATCTTCATGAAACATTCTGTGTCAATATAATGTCGACATACCAATCGCTTCACGG
584 ATTTCACCACATCTTCAT-AAACATTCTGTGTCAATATAATGTCGGCATACCAATCATTTTGCGG
1155186 ACAAATGTTCAAAAAGAAAACATCGTCACCCATCAAGTGGGCAGGAAACA
648 ACAAATGTTCAAAAAGAAAACATCGTCACCCATCAAGTGGGCAGGAAACA
* * *
1155236 AATTCCTAACATAATAAGAAGCAAACATGATAATATGACAAACCACTAAACAAGTAATCAATTTC
1 AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
* * * *
1155301 ACCACATCTTCATAAAACATTCTCTATCAATAAAATGTTGACATACCAATCGCTTCGCAGACAAA
66 ACCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCGCTTCGCAGACAAA
* *
1155366 TGTTC-AAAAGAAAACATCGTTAACCAACAAGTGGGCTGGAAACAAATTCCTAACATAGTAAGAA
131 TGTTCAAAAAGAAAACATCGTCAACC-ACAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAA
* *
1155430 GCAAATATGATAATATGACAAGCCACTAAATAATTAATCAATTTCACCATATCTTCATGAAACAT
195 GCAAATATGATAATACGACAAGCCACTAAATAATTAATCAATTTCACCACATCTTCATGAAACAT
* * * * *
1155495 TCTGTGTCAATAAAATGTCAGCATATCAATCGCTTCGCAGACAAATGTTCAAAAAGAAAACATCC
260 TCTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAATGTTCAAAAAGAAAACATCG
* * *
1155560 CCACCCAACAAGTGAGCAGAAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGATA
325 CCACCCACCAAGTGGGCAGAAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACA
* * * * * * *
1155625 AGCCAATAAATAATTAATCAATTTCACCACATTTTTATAAAACATTCTTTGTCACTAAAATGCCG
390 AACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTATCAATAAAATGCCG
** * * *
1155690 GCATACCAATCGCTTTGTGAACAAATGTTCAAAAAGAAAACACTGTCAACCACCAAGTGG
455 GCATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTGTCAACCAACAAGTGG
1155750 TAGCTAATCG
Statistics
Matches: 1776, Mismatches: 121, Indels: 26
0.92 0.06 0.01
Matches are distributed among these distances:
692 120 0.07
693 429 0.24
694 6 0.00
695 1 0.00
698 2 0.00
699 1001 0.56
700 217 0.12
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (697 bp):
AATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACTAAATAATTAATCAATTTC
ACCACATCTTCATAAAACATTCTCTGTCAATAAAATATCGGCATACCAATCGCTTCGCAGACAAA
TGTTCAAAAAGAAAACATCGTCAACCACAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAG
CAAATATGATAATACGACAAGCCACTAAATAATTAATCAATTTCACCACATCTTCATGAAACATT
CTGTGTCAATAAAATGTCGGCATACCAATCGCTTCACGGACAAATGTTCAAAAAGAAAACATCGC
CACCCACCAAGTGGGCAGAAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAA
ACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTATCAATAAAATGCCGG
CATACCAATCGCTTCATGGACAAATGTTCAAAAAGAAAACATTGTCAACCAACAAGTGGCAGGAA
ACAAATTTCTAACATAGTAAGAAGCAAATATGATAATATGACAAGCCACTAAATAATTAATCAAT
TTCACCACATCTTCATAAACATTCTGTGTCAATATAATGTCGGCATACCAATCATTTTGCGGACA
AATGTTCAAAAAGAAAACATCGTCACCCATCAAGTGGGCAGGAAACA
Found at i:1156184 original size:20 final size:21
Alignment explanation
Indices: 1156135--1156206 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
1156125 AGAACGATAA
**
1156135 TTGTATAATTTTTTTACAAAA
1 TTGTATAATTTTTTTACAATT
1156156 TT-TAT-ATTTTTTTAC-ATT
1 TTGTATAATTTTTTTACAATT
*
1156174 TTGTATAATTTTCTTACAATT
1 TTGTATAATTTTTTTACAATT
* *
1156195 TTATAAAATTTT
1 TTGTATAATTTT
1156207 ATAATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.07
19 13 0.30
20 12 0.28
21 15 0.35
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (21 bp):
TTGTATAATTTTTTTACAATT
Found at i:1156214 original size:39 final size:39
Alignment explanation
Indices: 1156135--1156214 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
1156125 AGAACGATAA
* * *
1156135 TTGTATAATTTTTTTACAAAATTTATATTTTTTTACATT
1 TTGTATAATTTTCTTACAAAATTTATAATTTTATACATT
*
1156174 TTGTATAATTTTCTTAC-AATTTTATAAAATTTTATA-ATT
1 TTGTATAATTTTCTTACAAAATTTAT--AATTTTATACATT
1156213 TT
1 TT
1156215 TTTTATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 7 0.20
39 21 0.60
40 7 0.20
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (39 bp):
TTGTATAATTTTCTTACAAAATTTATAATTTTATACATT
Found at i:1156272 original size:29 final size:29
Alignment explanation
Indices: 1156177--1156325 Score: 130
Period size: 29 Copynumber: 5.2 Consensus size: 29
1156167 TTACATTTTG
1156177 TATAATTTTCTTACAA-TTTTATAAAATTT
1 TATAATTTT-TTACAATTTTTATAAAATTT
** * *
1156206 TATAATTTTTTTTATATGTTTAT-ATATTT
1 TATAATTTTTTACA-ATTTTTATAAAATTT
1156235 TATAA-TTTTTACAATTTTTATAAAATTT
1 TATAATTTTTTACAATTTTTATAAAATTT
* **
1156263 TATAATTTTTTACGATTTTT-TCTAATTT
1 TATAATTTTTTACAATTTTTATAAAATTT
* *
1156291 T-TAAATATTTGA-AATTTTTATTAAAATTT
1 TAT-AATTTTTTACAATTTTTA-TAAAATTT
*
1156320 AATAAT
1 TATAAT
1156326 ATTTATAGTT
Statistics
Matches: 95, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
27 14 0.15
28 33 0.35
29 42 0.44
30 6 0.06
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (29 bp):
TATAATTTTTTACAATTTTTATAAAATTT
Found at i:1156380 original size:10 final size:9
Alignment explanation
Indices: 1156156--1156376 Score: 96
Period size: 10 Copynumber: 23.4 Consensus size: 9
1156146 TTTTACAAAA
1156156 TTTAT-ATT
1 TTTATAATT
*
1156164 TTTTTACATT
1 TTTATA-ATT
1156174 TTGTATAATT
1 TT-TATAATT
*
1156184 TTCT-TACAAT
1 TT-TATA-ATT
*
1156194 TTTATAAAAT
1 TTTAT-AATT
1156204 TTTATAATTT
1 TTTATAA-TT
* *
1156214 TTTTTATATG
1 TTTATA-ATT
1156224 TTTAT-ATAT
1 TTTATAAT-T
1156233 TTTATAATT
1 TTTATAATT
*
1156242 TTTACAATT
1 TTTATAATT
*
1156251 TTTATAAAAT
1 TTTAT-AATT
1156261 TTTATAATT
1 TTTATAATT
1156270 TTT-TACGATTT
1 TTTATA--A-TT
*
1156281 TTTCTAATT
1 TTTATAATT
1156290 TTTA-AATAT
1 TTTATAAT-T
*
1156299 TTGA-AATT
1 TTTATAATT
*
1156307 TTTATTAAAAT
1 TTTA-T-AATT
* *
1156318 TTAATAATA
1 TTTATAATT
*
1156327 TTTATAGTT
1 TTTATAATT
*
1156336 TTTATTGATT
1 TTTA-TAATT
* *
1156346 TTAAT-TTT
1 TTTATAATT
1156354 TTTATATATT
1 TTTATA-ATT
1156364 TTTATAATT
1 TTTATAATT
1156373 TTTA
1 TTTA
1156377 ATAAAAGAAG
Statistics
Matches: 162, Mismatches: 29, Indels: 43
0.69 0.12 0.18
Matches are distributed among these distances:
8 21 0.13
9 61 0.38
10 62 0.38
11 16 0.10
12 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:1156479 original size:89 final size:88
Alignment explanation
Indices: 1156379--1156558 Score: 274
Period size: 89 Copynumber: 2.0 Consensus size: 88
1156369 AATTTTTAAT
* * *
1156379 AAAAGAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTATT-TTTGATGCATTTTAAAAG
1 AAAAGAAGGGGCTTAATTGCTTTTTTTGAAAAAGATTAAGGGT-TTATTTGATACATTTTAAAAG
1156443 TTCAAGTA-CCAAATTGAGTGCAAAA
65 TTCAAGTATCCAAA-TGAGTG-AAAA
* *
1156468 AAAAGGAGGGGCTTAATTGCTTTTTTTGAAAAGGATTAAGGGTTTATTTGATACATTTTAAAAGT
1 AAAAGAAGGGGCTTAATTGCTTTTTTTGAAAAAGATTAAGGGTTTATTTGATACATTTTAAAAGT
1156533 TCAAGTATCCAAATGAGTGAAAA
66 TCAAGTATCCAAATGAGTGAAAA
1156556 AAA
1 AAA
1156559 GGATTTTATT
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
88 9 0.11
89 70 0.83
90 5 0.06
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (88 bp):
AAAAGAAGGGGCTTAATTGCTTTTTTTGAAAAAGATTAAGGGTTTATTTGATACATTTTAAAAGT
TCAAGTATCCAAATGAGTGAAAA
Found at i:1157854 original size:23 final size:23
Alignment explanation
Indices: 1157828--1157875 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1157818 ATTTTTCAAT
* **
1157828 AAAAATACATAGAATTTTATAAA
1 AAAAATACATACAAAATTATAAA
1157851 AAAAATACATACAAAATTATAAA
1 AAAAATACATACAAAATTATAAA
1157874 AA
1 AA
1157876 TATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (23 bp):
AAAAATACATACAAAATTATAAA
Found at i:1160336 original size:61 final size:61
Alignment explanation
Indices: 1160241--1160360 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
1160231 ATCCAAATAG
* *
1160241 TTTTTTTCTTTGATCTTCAACACTGACCCTCAGATCGATTTGAATCTAAAGTATGTTCTAA
1 TTTTTTTCTTTGATCTTCAACACTAACCCTCAGATCGATTTGAATATAAAGTATGTTCTAA
1160302 TTTTTTTCTTTGATCTTCAACACTAACCCTCAGATCGATTTGAATATAAAGTATGTTCT
1 TTTTTTTCTTTGATCTTCAACACTAACCCTCAGATCGATTTGAATATAAAGTATGTTCT
1160361 TTTACTCGTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (61 bp):
TTTTTTTCTTTGATCTTCAACACTAACCCTCAGATCGATTTGAATATAAAGTATGTTCTAA
Found at i:1161595 original size:29 final size:30
Alignment explanation
Indices: 1161563--1161619 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
1161553 AATTATGATG
*
1161563 AAATTGTATTTTGAGC-TTCAAAAATGAGA
1 AAATTATATTTTGAGCTTTCAAAAATGAGA
* * *
1161592 AAATTATGTTTTGATCTTTTAAAAATGA
1 AAATTATATTTTGAGCTTTCAAAAATGA
1161620 TAAAGATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (30 bp):
AAATTATATTTTGAGCTTTCAAAAATGAGA
Found at i:1168374 original size:67 final size:67
Alignment explanation
Indices: 1168266--1168401 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
1168256 TTGATTCCGT
*
1168266 AATCTAAAACCAGCAGCACAACCAAACAAATTCCTCAAAGTTCAATTCTATAGAATAATCATAAA
1 AATCTAAAACCAGCAGCACAACCAAACAAATTACTCAAAGTTCAATTCTATAGAATAATCATAAA
1168331 TC
66 TC
1168333 AATCTAAAACCAGCAGCACAACCAAACAAATTACTCAAAGTTCAATTCTATAGAATAATCATAAA
1 AATCTAAAACCAGCAGCACAACCAAACAAATTACTCAAAGTTCAATTCTATAGAATAATCATAAA
1168398 TC
66 TC
1168400 AA
1 AA
1168402 GGAATCAATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.22
Consensus pattern (67 bp):
AATCTAAAACCAGCAGCACAACCAAACAAATTACTCAAAGTTCAATTCTATAGAATAATCATAAA
TC
Found at i:1169001 original size:114 final size:114
Alignment explanation
Indices: 1168764--1169602 Score: 584
Period size: 114 Copynumber: 7.6 Consensus size: 114
1168754 ATTTGCTTTG
* * * * *
1168764 AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAACGACAT--T
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAAGGAAATAAT
* * * * *
1168827 GATGAACTTTGAAATGAAAAGCAAGATCAAGAAGGACACAA-TGAACTAA
66 GGTGAACTTTGAAATGAATAGCGAGATCTAGAAGGAGA-AATTGAACTAA
* * * *
1168876 AAATCAATTCAAATTCATCACCAAAGAAATACTAACACAAATCAAACTTTAAAAAAGGAAATAAT
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAAGGAAATAAT
**
1168941 GGTGAACTTTGAAATGAATAGCGAGATCTAG-AGTGAGAAATTGAACTCC
66 GGTGAACTTTGAAATGAATAGCGAGATCTAGAAG-GAGAAATTGAACTAA
* * * *
1168990 AAATCAATTCAAATTTATCAGCAAAGAAATACTAGTACAAATCAAAC-T-AAAAAA--ACA-CA-
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAAGGAAATAAT
* * * *
1169049 GGTGAACTTTGAAATGAATAACGAGGTCTAGAAGGAAAAATTGAACTTA
66 GGTGAACTTTGAAATGAATAGCGAGATCTAGAAGGAGAAATTGAACTAA
* * * * * *
1169098 AAATGAATTTAAAATAATCAGCAAAGAAATATTAACACAAATCAATTTTTATTTTTTTAAAAAAG
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAA-----A----CTT-AAAAA-
* **
1169163 AAGGAAATATTGACGAACTTTGAAATGAATAGCGAGATCTAG-AGCGAGAAATTGAACTAA
55 AAGGAAATAATGGTGAACTTTGAAATGAATAGCGAGATCTAGAAG-GAGAAATTGAACTAA
* *
1169223 AAATCAATTCAAATTAACCAGC----AAACACTAATACAAATCAAAC-TAAAAAAAGGAGAGGA-
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAAGGA-A--AT
* * * * * *
1169282 AATGTTGATGAACTTCGAAATCAATA-CGAGGTCTAGAAGGAGAAAATGAGCTCA
63 AATG--G-TGAACTTTGAAATGAATAGCGAGATCTAGAAGGAGAAATTGAACTAA
* * * *
1169336 AAATCAATTCAAACTAATCAGCAAAGAAAAACTATTATAAATCAAA-TTAACAAAAAGG--A-AA
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAA-AAAAAGGAAATAA
1169397 ---T--A---T-AAATGAATAGCGAGATCTAGAAGGAG--A---AA-T--
65 TGGTGAACTTTGAAATGAATAGCGAGATCTAGAAGGAGAAATTGAACTAA
* * *
1169430 ---TCAA--CAAATTAATCAGCAAAGAAACACTAATTCAAATCAAA-GTAAAAAAATCGGGAAAT
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAA---GGAAAT
* * * * * *
1169489 -ATGGATGAACTTTGAAATGAAAAACGAGGTCTTGAAGGAGAAAATGAGCTAA
63 AATGG-TGAACTTTGAAATGAATAGCGAGATCTAGAAGGAGAAATTGAACTAA
* * * * * *
1169541 AAATGAATTCAAACTAATCAGCAAAGAAAAACTATTATAAATCAAA-TTAAAAAAAAGAAATA
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAAGGAAATA
1169603 TAAACGAATA
Statistics
Matches: 572, Mismatches: 88, Indels: 132
0.72 0.11 0.17
Matches are distributed among these distances:
88 5 0.01
89 35 0.06
91 6 0.01
93 2 0.00
96 1 0.00
97 2 0.00
99 1 0.00
100 1 0.00
101 8 0.01
102 16 0.03
103 22 0.04
105 2 0.00
107 1 0.00
108 80 0.14
109 9 0.02
110 8 0.01
111 4 0.01
112 61 0.11
113 55 0.10
114 100 0.17
116 41 0.07
117 20 0.03
118 8 0.01
120 4 0.01
121 18 0.03
123 2 0.00
124 2 0.00
125 58 0.10
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.22
Consensus pattern (114 bp):
AAATCAATTCAAATTAATCAGCAAAGAAATACTAATACAAATCAAACTTAAAAAAAGGAAATAAT
GGTGAACTTTGAAATGAATAGCGAGATCTAGAAGGAGAAATTGAACTAA
Found at i:1169118 original size:108 final size:109
Alignment explanation
Indices: 1168764--1169142 Score: 415
Period size: 108 Copynumber: 3.4 Consensus size: 109
1168754 ATTTGCTTTG
* * * *
1168764 AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAACGACATTGA
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAACT-AAAAAAAC-ACA-TGG
* * *
1168829 TGAACTTTGAAATGAA-AAGCAAGATCAAGAAGGACACAA-TGAACTAA
63 TGAACTTTGAAATGAATAA-CGAGATCTAGAAGGA-AAAATTGAACTAA
* * * *
1168876 AAATCAATTCAAATTCATCACCAAAGAAATACTAACACAAATCAAACTTTAAAAAAGGAAATAAT
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAAC--TAAAAAA--ACA-CAT
* * **
1168941 GGTGAACTTTGAAATGAATAGCGAGATCTAG-AGTGAGAAATTGAACTCC
61 GGTGAACTTTGAAATGAATAACGAGATCTAGAAG-GAAAAATTGAACTAA
* **
1168990 AAATCAATTCAAATTTATCAGCAAAGAAATACTAGTACAAATCAAACTAAAAAAACACA-GGTGA
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAACTAAAAAAACACATGGTGA
* *
1169054 ACTTTGAAATGAATAACGAGGTCTAGAAGGAAAAATTGAACTTA
66 ACTTTGAAATGAATAACGAGATCTAGAAGGAAAAATTGAACTAA
* * * *
1169098 AAATGAATTTAAAATAATCAGCAAAGAAATATTAACACAAATCAA
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAA
1169143 TTTTTATTTT
Statistics
Matches: 226, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
108 79 0.35
109 3 0.01
110 2 0.01
112 50 0.22
113 10 0.04
114 79 0.35
115 3 0.01
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.21
Consensus pattern (109 bp):
AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAACTAAAAAAACACATGGTGA
ACTTTGAAATGAATAACGAGATCTAGAAGGAAAAATTGAACTAA
Found at i:1169217 original size:233 final size:224
Alignment explanation
Indices: 1168764--1169273 Score: 622
Period size: 222 Copynumber: 2.2 Consensus size: 224
1168754 ATTTGCTTTG
1168764 AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAACGACATTGA
1 AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACT-AAAAAAACGACA-TGA
* * *
1168829 TGAACTTTGAAATGAAAAGCAAGATCAAGAAGGACACAATGAACTAAAAATCAATTCAAATTCAT
64 TGAACTTTGAAATGAAAAGCAAGATCAAGAAGGACAAAATGAACTAAAAATCAATTCAAAATAAT
**
1168894 CACCAAAGAAATACTAACACAAATCAAACTTTAAAAAAGGAAATAATGGTGAACTTTGAAATGAA
129 CACCAAAGAAATACTAACACAAATCAAACTTTAAAAAAGGAAATAATGACGAACTTTGAAATGAA
* **
1168959 TAGCGAGATCTAGAGTGAGAAATTGAACTCC
194 TAGCGAGATCTAGAGCGAGAAATTGAACTAA
* * *
1168990 AAATCAATTCAAATTTATCAGCAAAGAAATACTAGTACAAATCAAACTAAAAAAAC-ACA-GGTG
1 AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAACGACATGATG
* * * * * *
1169053 AACTTTGAAATGAATAA-CGAGGTCTAGAAGGA-AAAATTGAACTTAAAATGAATTTAAAATAAT
66 AACTTTGAAATGAA-AAGCAAGATCAAGAAGGACAAAA-TGAACTAAAAATCAATTCAAAATAAT
* * * *
1169116 CAGCAAAGAAATATTAACACAAATCAATTTTTATTTTTTTAAAAAAGAAGGAAATATTGACGAAC
129 CACCAAAGAAATACTAACACAAATCAA-----A---CTTT--AAAA-AAGGAAATAATGACGAAC
1169181 TTTGAAATGAATAGCGAGATCTAGAGCGAGAAATTGAACTAA
183 TTTGAAATGAATAGCGAGATCTAGAGCGAGAAATTGAACTAA
* *
1169223 AAATCAATTCAAATTAACCAGC----AAACACTAATACAAATCAAACTAAAAAAA
1 AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAA
1169274 GGAGAGGAAA
Statistics
Matches: 246, Mismatches: 25, Indels: 23
0.84 0.09 0.08
Matches are distributed among these distances:
221 3 0.01
222 75 0.30
223 2 0.01
224 3 0.01
225 8 0.03
226 46 0.19
227 1 0.00
229 27 0.11
230 3 0.01
232 4 0.02
233 74 0.30
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.23
Consensus pattern (224 bp):
AAATCAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAACGACATGATG
AACTTTGAAATGAAAAGCAAGATCAAGAAGGACAAAATGAACTAAAAATCAATTCAAAATAATCA
CCAAAGAAATACTAACACAAATCAAACTTTAAAAAAGGAAATAATGACGAACTTTGAAATGAATA
GCGAGATCTAGAGCGAGAAATTGAACTAA
Found at i:1169317 original size:113 final size:112
Alignment explanation
Indices: 1169156--1169360 Score: 279
Period size: 113 Copynumber: 1.8 Consensus size: 112
1169146 TTATTTTTTT
* * *
1169156 AAAAAAGAAGGAAATATTGACGAACTTTGAAATGAATAGCGAGATCTAG-AGCGAGAAATTGAAC
1 AAAAAAGAAGGAAATATTGACGAACTTCGAAATCAATAGCGAGATCTAGAAG-GAGAAAATGAAC
*
1169220 TAAAAATCAATTCAAATTAACCAGCAAACACTAATACAAATCAAACTA
65 TAAAAATCAATTCAAACTAACCAGCAAACACTAATACAAATCAAACTA
* * * *
1169268 AAAAAAGGAGAGGAAATGTTGATGAACTTCGAAATCAATA-CGAGGTCTAGAAGGAGAAAATGAG
1 AAAAAA-GA-AGGAAATATTGACGAACTTCGAAATCAATAGCGAGATCTAGAAGGAGAAAATGAA
* *
1169332 CTCAAAATCAATTCAAACTAATCAGCAAA
64 CTAAAAATCAATTCAAACTAACCAGCAAA
1169361 GAAAAACTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
112 6 0.08
113 46 0.57
114 28 0.35
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (112 bp):
AAAAAAGAAGGAAATATTGACGAACTTCGAAATCAATAGCGAGATCTAGAAGGAGAAAATGAACT
AAAAATCAATTCAAACTAACCAGCAAACACTAATACAAATCAAACTA
Found at i:1169656 original size:204 final size:205
Alignment explanation
Indices: 1169245--1169946 Score: 955
Period size: 209 Copynumber: 3.4 Consensus size: 205
1169235 ATTAACCAGC
* ** * * * *
1169245 AAACACTAATACAAATCAAACTAAAAAAAGGAGAGGAAATGTTGATGAACTTCGAAAT-CAATAC
1 AAACACTAATACAAATCAAACTAAAAAAA-AACCGGAAATATGGATGAACTTCGAAATGAAAAAC
* *
1169309 GAGGTCTAGAAGGAGAAAATGAGCTCAAAATCAATTCAAACTAATCAGCAAAGAAAAACTATTAT
65 GAGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAAAGAAAAACTATTAT
* * * *
1169374 AAATCAAATTAACAAAAAGGAAATATAAATGAATAGCGAGATCTAGAAGGAGAAATTCAACAAAT
130 AAATCAAATTAA-AAAAAAGAAATATAAACGAATAGCGAGATCTAGAACGAGAAATTGAACAAAT
1169439 TAATCAGCAAAG
194 TAATCAGCAAAG
* * * * *
1169451 AAACACTAATTCAAATCAAAGT-AAAAAAATCGGGAAATATGGATGAACTTTGAAATGAAAAACG
1 AAACACTAATACAAATCAAACTAAAAAAAAACCGGAAATATGGATGAACTTCGAAATGAAAAACG
*
1169515 AGGTCTTGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAAAGAAAAACTATTATA
66 AGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAAAGAAAAACTATTATA
*
1169580 AATCAAATTAAAAAAAAGAAATATAAACGAATAGCGAGATCTAGAACGAGAAATTGAACAAAGTA
131 AATCAAATTAAAAAAAAGAAATATAAACGAATAGCGAGATCTAGAACGAGAAATTGAACAAATTA
1169645 ATCAGCAAAG
196 ATCAGCAAAG
*
1169655 AAACACTAATACAAATCAAACTAAAAAAAAAAAAACCGGAAATATAGATGAACTTCGAAATGAAA
1 AAACACTAATACAAATCAAACT----AAAAAAAAACCGGAAATATGGATGAACTTCGAAATGAAA
* * * *
1169720 AACGAGGTCTGGAAGGAGAAAGTGTGCTAAAAATGAATTCAAACTAATCAGCAAAGAAATACTAT
62 AACGAGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAAAGAAAAACTAT
** *
1169785 TATAAATC-GTTTAAAAAACAAGGAAATATAAACGAATAGCGAGATCCAGAACGA-AAGATTGAA
127 TATAAATCAAATTAAAAAA-AA-GAAATATAAACGAATAGCGAGATCTAGAACGAGAA-ATTGAA
*
1169848 CAAATTAATCAGAAAAG
189 CAAATTAATCAGCAAAG
* * * * * *
1169865 AAACACTAAAACAAATCAAGCTAAAAAAAAACCGGAAATATCGG-TGAACTTTGAAACGAACAGC
1 AAACACTAATACAAATCAAACTAAAAAAAAACCGGAAATAT-GGATGAACTTCGAAATGAAAAAC
*
1169929 GAGATCTAGAAGGAGAAA
65 GAGGTCTAGAAGGAGAAA
1169947 TAGAACTAAC
Statistics
Matches: 443, Mismatches: 43, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
204 100 0.23
205 84 0.19
206 71 0.16
207 1 0.00
208 8 0.02
209 107 0.24
210 72 0.16
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.18
Consensus pattern (205 bp):
AAACACTAATACAAATCAAACTAAAAAAAAACCGGAAATATGGATGAACTTCGAAATGAAAAACG
AGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAAAGAAAAACTATTATA
AATCAAATTAAAAAAAAGAAATATAAACGAATAGCGAGATCTAGAACGAGAAATTGAACAAATTA
ATCAGCAAAG
Found at i:1171468 original size:27 final size:26
Alignment explanation
Indices: 1171415--1171484 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
1171405 CGGATAAAAC
1171415 AAGAAAAATAAAAAGTTTCTGCCAAA
1 AAGAAAAATAAAAAGTTTCTGCCAAA
1171441 AAGAAAAATAAAAAGTTTCTGCCAAA
1 AAGAAAAATAAAAAGTTTCTGCCAAA
1171467 AAGAAAAATAAAGAAGTT
1 AAGAAAAATAAA-AAGTT
1171485 GAAAGGGGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 38 0.88
27 5 0.12
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.19
Consensus pattern (26 bp):
AAGAAAAATAAAAAGTTTCTGCCAAA
Found at i:1175825 original size:20 final size:18
Alignment explanation
Indices: 1175780--1175832 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
1175770 ACTATTATTT
*
1175780 AATTCAAATTTAAATAAA
1 AATTCGAATTTAAATAAA
*
1175798 ATACTCGAATTTAATATAAA
1 A-ATTCGAATTTAA-ATAAA
*
1175818 CAATTCGAGTTTAAA
1 -AATTCGAATTTAAA
1175833 ATAACTATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 15 0.54
21 1 0.04
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (18 bp):
AATTCGAATTTAAATAAA
Found at i:1180496 original size:30 final size:30
Alignment explanation
Indices: 1180461--1180523 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
1180451 AGGTGCTCTA
1180461 TATATTATAGGACATGGGTTCGAGTAAGAC
1 TATATTATAGGACATGGGTTCGAGTAAGAC
1180491 TATATTATAGGACATGGGTTCGAGTAAGAC
1 TATATTATAGGACATGGGTTCGAGTAAGAC
1180521 TAT
1 TAT
1180524 GTGTGACTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (30 bp):
TATATTATAGGACATGGGTTCGAGTAAGAC
Found at i:1183455 original size:23 final size:25
Alignment explanation
Indices: 1183410--1183464 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
1183400 ATTGAGAGAA
1183410 TTTTATTCATTGTTTCGAAATCTTT
1 TTTTATTCATTGTTTCGAAATCTTT
* *
1183435 TTTTATTCATT-TTTTG-TATCTTT
1 TTTTATTCATTGTTTCGAAATCTTT
1183458 TTTTATT
1 TTTTATT
1183465 ATATTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.46
24 4 0.14
25 11 0.39
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.69
Consensus pattern (25 bp):
TTTTATTCATTGTTTCGAAATCTTT
Found at i:1184281 original size:17 final size:17
Alignment explanation
Indices: 1184259--1184294 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1184249 CCAACCAAGC
1184259 TATTTTAAAATTAAATT
1 TATTTTAAAATTAAATT
*
1184276 TATTTTAAATTTAAATT
1 TATTTTAAAATTAAATT
1184293 TA
1 TA
1184295 AAATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTTAAAATTAAATT
Found at i:1184295 original size:23 final size:23
Alignment explanation
Indices: 1184262--1184316 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
1184252 ACCAAGCTAT
* *
1184262 TTTAAAATTAAATTTATTTTAAA
1 TTTAAAATTAAAATTATTATAAA
*
1184285 TTTAAATTTAAAATTATTATAAA
1 TTTAAAATTAAAATTATTATAAA
1184308 TTTATAAAT
1 TTTA-AAAT
1184317 AAATGTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAAAATTAAAATTATTATAAA
Found at i:1185050 original size:22 final size:20
Alignment explanation
Indices: 1185024--1185064 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1185014 TATATTAAAC
1185024 GTATTAACTAAAGTTTTAAATG
1 GTATTAA-TAAA-TTTTAAATG
*
1185046 GTATTAATTAATTTTAAAT
1 GTATTAATAAATTTTAAAT
1185065 AAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (20 bp):
GTATTAATAAATTTTAAATG
Found at i:1186164 original size:30 final size:31
Alignment explanation
Indices: 1186128--1186203 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 31
1186118 TGAACTACCC
*
1186128 AAAAATTATATTTTGA-CCTCAAAATTTTCT
1 AAAAATTACATTTTGACCCTCAAAATTTTCT
*
1186158 AAAAATTACATTTTGATCCCTCAAACTTTTCT
1 AAAAATTACATTTTGA-CCCTCAAAATTTTCT
*
1186190 -AAAATTCCATTTTG
1 AAAAATTACATTTTG
1186204 GCCTCGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
30 15 0.37
31 13 0.32
32 13 0.32
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.42
Consensus pattern (31 bp):
AAAAATTACATTTTGACCCTCAAAATTTTCT
Found at i:1186223 original size:29 final size:29
Alignment explanation
Indices: 1186190--1186295 Score: 91
Period size: 29 Copynumber: 3.7 Consensus size: 29
1186180 AAACTTTTCT
*
1186190 AAAATT-CCATTTTGGCCTCGATTTCACCA
1 AAAATTACCATTTTGACC-CGATTTCACCA
1186219 AAAATTACCATTTT-ACCCCCGAACTTT--CC-
1 AAAATTACCATTTTGA--CCCG-A-TTTCACCA
1186248 AAAATT-CCATTTTTGAACCCGATTTCACCA
1 AAAATTACCA-TTTTG-ACCCGATTTCACCA
1186278 AAAATTACCATTTT-ACCC
1 AAAATTACCATTTTGACCC
1186296 CTAAACTTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 25
0.71 0.01 0.28
Matches are distributed among these distances:
27 3 0.05
28 8 0.12
29 22 0.34
30 21 0.33
31 7 0.11
32 3 0.05
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTGACCCGATTTCACCA
Found at i:1186259 original size:58 final size:56
Alignment explanation
Indices: 1186159--1186469 Score: 345
Period size: 58 Copynumber: 5.3 Consensus size: 56
1186149 AAATTTTCTA
* * *
1186159 AAAATTA-CATTTTGATCCCTCAAACTTTTCTAAAATTCCATTTTGGCCTCGATTTCACC
1 AAAATTACCATTTT-A-CCCCCAAAC-TTTCCAAAATTCCATTTTGACC-CGATTTCACC
*
1186218 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGAACCCGATTTCACC
1 -AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTG-ACCCGATTTCACC
* * * *
1186277 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTGACCCCAATTTTACC
1 -AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTGA-CCCGATTTCACC
* * *
1186335 AAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCATTTTTGACCCTAATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTGACCC-GATTTCACC
* * * * *
1186393 AAAATTATCATTTTACCCCCGAACTTTCCAAAATTCCCGTTTTGACCCAGTTTTAACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CCATTTTGACCC-GATTTCACC
*
1186451 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
1186470 TGGATATCCA
Statistics
Matches: 221, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
57 40 0.18
58 105 0.48
59 60 0.27
60 10 0.05
61 6 0.03
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (56 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTGACCCGATTTCACC
Found at i:1186367 original size:116 final size:115
Alignment explanation
Indices: 1186158--1186470 Score: 389
Period size: 116 Copynumber: 2.7 Consensus size: 115
1186148 AAAATTTTCT
* * * * *
1186158 AAAAATTACATTTTGATCCCTCAAACTTTTCTAAAATTCCATTTTGGCCTCGATTTCACCAAAAA
1 AAAAATTACATTTT-ACCCCT-AAAC-TTTCTAAAATTCCATTTTGACCCCAATTTTACC-AAAA
** *
1186223 TTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGAACCC-GATTTCACC
62 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTG-ACCCTAATTTCACC
1186277 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTGACCCCAATTTTACCAAAATTA
1 AAAAATTA-CATTTTACCCCTAAACTTTCTAAAATTCCATTTTGACCCCAATTTTACCAAAATTA
*
1186342 CCATTTTACCCCTAAACTTTTCAAAATTCCATTTTTGACCCTAATTTCACC
65 CCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACC
** * * *
1186393 -AAAATTATCATTTTACCCCCGAACTTTCCAAAATTCCCGTTTTGA-CCCAGTTTTAACCAAAAT
1 AAAAATTA-CATTTTACCCCTAAACTTTCTAAAATT-CCATTTTGACCCCAATTTT-ACCAAAAT
*
1186456 TACCATTTTGCCCCT
63 TACCATTTTACCCCT
1186471 GGATATCCAA
Statistics
Matches: 174, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
115 43 0.25
116 79 0.45
117 29 0.17
118 4 0.02
119 13 0.07
120 6 0.03
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (115 bp):
AAAAATTACATTTTACCCCTAAACTTTCTAAAATTCCATTTTGACCCCAATTTTACCAAAATTAC
CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACC
Found at i:1186435 original size:29 final size:30
Alignment explanation
Indices: 1186219--1186440 Score: 159
Period size: 29 Copynumber: 7.6 Consensus size: 30
1186209 GATTTCACCA
1186219 AAAATTACCATTTT-ACCCCCGAACTTTCC
1 AAAATTACCATTTTGACCCCCGAACTTTCC
*
1186248 AAAATT-CCATTTTTGA-ACCCG-A-TTTCACC
1 AAAATTACCA-TTTTGACCCCCGAACTTT--CC
** *
1186277 AAAAATTACCATTTT-ACCCCTAAACTTTCT
1 -AAAATTACCATTTTGACCCCCGAACTTTCC
*
1186307 AAAATT-CCATTTTGA-CCCC-AATTTTACC
1 AAAATTACCATTTTGACCCCCGAACTTT-CC
** *
1186335 AAAATTACCATTTT-ACCCCTAAACTTTTC
1 AAAATTACCATTTTGACCCCCGAACTTTCC
*
1186364 AAAATT-CCATTTTTGA--CCCTAA-TTTCACC
1 AAAATTACCA-TTTTGACCCCCGAACTTT--CC
*
1186393 AAAATTATCATTTT-ACCCCCGAACTTTCC
1 AAAATTACCATTTTGACCCCCGAACTTTCC
* *
1186422 AAAATTCCCGTTTTGACCC
1 AAAATTACCATTTTGACCC
1186441 AGTTTTAACC
Statistics
Matches: 151, Mismatches: 19, Indels: 45
0.70 0.09 0.21
Matches are distributed among these distances:
27 11 0.07
28 30 0.20
29 69 0.46
30 31 0.21
31 7 0.05
32 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTGACCCCCGAACTTTCC
Found at i:1194708 original size:151 final size:150
Alignment explanation
Indices: 1194411--1194919 Score: 407
Period size: 151 Copynumber: 3.4 Consensus size: 150
1194401 GAAATACAAC
* * * * * *
1194411 GGGAAAGATCTAAGACCGCAATGGCGGATCTAGTACCTCAAAAGACGAAAGGGAAAGGTCTAAGT
1 GGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAACACAAAAGGGAAAGCTCTAAGT
* * * ** *
1194476 CGCAACGGCAGACCGTGTACCTCAAAAGATAAAAGTGAAAGGTCTAAGTTGCAACGGTAGACCGT
66 CGCAACGGCAGACCGTGTACCTCAAAACACAAAAGTGAAAGATCTAAGCCGCAACGATAGACCGT
1194541 GTACCTCAAAAGACACAAAA
131 GTACCTCAAAAGACACAAAA
*
1194561 -GGAAAGATCTAAGACCGTAATGGCAGATCCAGTACCGCAAAAAACACAAAAGGGAAAGCTCTAA
1 GGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGC--AAAACACAAAAGGGAAAGCTCTAA
* * *
1194625 GTCGCAACGGCGGACCGTGTACCTCAGAAACACGATAG-GAAAGATCTAAGACCGCAACGATAGA
64 GTCGCAACGGCAGACCGTGTACCTCA-AAACACAAAAGTGAAAGATCTAAG-CCGCAACGATAGA
*
1194689 TC-TAGTACCGT-AAAA-ACACAAAA
127 CCGT-GTACC-TCAAAAGACACAAAA
* * * * * ** * *
1194712 GGGAAAGGTCTAAG-TCGCAACGGCAGA-CCGTGTACCTCAGAAGA-ATGAAAGGGAAAGATTTA
1 GGGAAAGATCTAAGACCGCAATGGCAGATCC-AGTACCGCA-AA-ACACAAAAGGGAAAGCTCTA
* * * * * *
1194774 A-TACCGCAATGGCAGATCC-AGTACCGTAAAAATAAAAAAAG-GAAAGGAT-TAAGTCGCAAC-
63 AGT--CGCAACGGCAGA-CCGTGTACC-TCAAAA-CACAAAAGTGAAA-GATCTAAGCCGCAACG
* * *
1194834 AGCAGACCGTGTACCTCAAAAGACAC-GAC
122 A-TAGACCGTGTACCTCAAAAGACACAAAA
* * * * *
1194863 GGGAAAGATCTAAGACCGCAACGACAGTTTCAGTACCGCAAAAAGACAAAAGGGAAA
1 GGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGC-AAAACACAAAAGGGAAA
1194920 AGTCTTTATC
Statistics
Matches: 286, Mismatches: 49, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
149 36 0.13
150 21 0.07
151 135 0.47
152 88 0.31
153 6 0.02
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (150 bp):
GGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAACACAAAAGGGAAAGCTCTAAGT
CGCAACGGCAGACCGTGTACCTCAAAACACAAAAGTGAAAGATCTAAGCCGCAACGATAGACCGT
GTACCTCAAAAGACACAAAA
Found at i:1194767 original size:101 final size:102
Alignment explanation
Indices: 1194443--1194924 Score: 527
Period size: 101 Copynumber: 4.8 Consensus size: 102
1194433 GGCGGATCTA
* * * * *
1194443 GTACCTCAAAAG--ACGAAAGGGAAAGGTCTAAG-TCGCAACGGCAGA-CCGTGTACC-TCAAAA
1 GTACCTCAAAAGACACGAAAGGGAAAGATCTAAGACCGCAACGACAGATCC-AGTACCGTAAAAA
* * * * *
1194503 GATAAAAGTGAAAGGTCTAAGTTGCAACGGTAGACCGT
65 CACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGT
* * * * *
1194541 GTACCTCAAAAGACAC-AAAAGGAAAGATCTAAGACCGTAATGGCAGATCCAGTACCGCAAAAAA
1 GTACCTCAAAAGACACGAAAGGGAAAGATCTAAGACCGCAACGACAGATCCAGTACCG-TAAAAA
* *
1194605 CACAAAAGGGAAAGCTCTAAGTCGCAACGGCGGACCGT
65 CACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGT
* * * *
1194643 GTACCTCAGAA-ACACGATA-GGAAAGATCTAAGACCGCAACGATAGATCTAGTACCGTAAAAAC
1 GTACCTCAAAAGACACGAAAGGGAAAGATCTAAGACCGCAACGACAGATCCAGTACCGTAAAAAC
1194706 ACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGT
66 ACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGT
* * * * * * *
1194743 GTACCTCAGAAGA-ATGAAAGGGAAAGATTTAATACCGCAATGGCAGATCCAGTACCGTAAAAAT
1 GTACCTCAAAAGACACGAAAGGGAAAGATCTAAGACCGCAACGACAGATCCAGTACCGTAAAAAC
* * *
1194807 AAAAAAAGGAAAGGAT-TAAGTCGCAACAGCAGACCGT
66 ACAAAAGGGAAAGG-TCTAAGTCGCAACGGCAGACCGT
* * * * *
1194844 GTACCTCAAAAGACACG-ACGGGAAAGATCTAAGACCGCAACGACAGTTTCAGTACCGCAAAAAG
1 GTACCTCAAAAGACACGAAAGGGAAAGATCTAAGACCGCAACGACAGATCCAGTACCGTAAAAAC
*
1194908 ACAAAAGGGAAAAGTCT
66 ACAAAAGGGAAAGGTCT
1194925 TTATCTCTTT
Statistics
Matches: 321, Mismatches: 51, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
98 12 0.04
99 15 0.05
100 74 0.23
101 170 0.53
102 50 0.16
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (102 bp):
GTACCTCAAAAGACACGAAAGGGAAAGATCTAAGACCGCAACGACAGATCCAGTACCGTAAAAAC
ACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGACCGT
Found at i:1194918 original size:51 final size:51
Alignment explanation
Indices: 1194411--1194919 Score: 303
Period size: 50 Copynumber: 10.1 Consensus size: 51
1194401 GAAATACAAC
* * * * * *
1194411 GGGAAAGATCTAAGACCGCAATGGCGGATCTAGTACCTC-AAAAGACGAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACAAAA
* * * * *
1194461 GGGAAAGGTCTAAG-TCGCAACGGCAGACCGTGTACCTC-AAAAGATAAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACAAAA
* * ** * * *
1194510 GTGAAAGGTCTAAG-TTGCAACGGTAGACCGTGTACCTC-AAAAGACACAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACA-AAA
* * * *
1194560 AGGAAAGATCTAAGACCGTAATGGCAGATCC-AGTACCGCAAAAAACACAAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGA-CCGAGTACCGC-AAAAAGACAAAA
* * * * * * * * *
1194612 GGGAAAGCTCTAAG-TCGCAACGGCGGACCGTGTACCTCAGAAACACGATA
1 GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACAAAA
** * * * *
1194662 -GGAAAGATCTAAGACCGCAACGATAGATCTAGTACCGTAAAAACACAAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACAAAA
* * * * *
1194712 GGGAAAGGTCTAAG-TCGCAACGGCAGACCGTGTACCTC-AGAAGA-ATGAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACA--AAA
* * * * * *
1194762 GGGAAAGATTTAATACCGCAATGGCAGATCC-AGTACCGTAAAAATAAAAAA
1 GGGAAAGATCTAAGACCGCAACGGCAGA-CCGAGTACCGCAAAAAGACAAAA
* * * * * * *
1194813 AGGAAAGGAT-TAAG-TCGCAACAGCAGACCGTGTACCTC-AAAAGACACGAC
1 GGGAAA-GATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACA-AAA
* **
1194863 GGGAAAGATCTAAGACCGCAACGACAGTTTC-AGTACCGCAAAAAGACAAAA
1 GGGAAAGATCTAAGACCGCAACGGCAG-ACCGAGTACCGCAAAAAGACAAAA
1194914 GGGAAA
1 GGGAAA
1194920 AGTCTTTATC
Statistics
Matches: 347, Mismatches: 91, Indels: 41
0.72 0.19 0.09
Matches are distributed among these distances:
48 1 0.00
49 96 0.28
50 117 0.34
51 90 0.26
52 35 0.10
53 8 0.02
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (51 bp):
GGGAAAGATCTAAGACCGCAACGGCAGACCGAGTACCGCAAAAAGACAAAA
Found at i:1195080 original size:92 final size:92
Alignment explanation
Indices: 1194919--1198814 Score: 6580
Period size: 92 Copynumber: 42.5 Consensus size: 92
1194909 CAAAAGGGAA
* * * * * * *
1194919 AAGTCTTTATCTCTTTGAAGCTGTAGTAAGAGCAAGATAAAGCTTCAAACATCAATTCTTTTCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1194984 CTTGAAGTTATAGTAAAGTTGGATAATG-
66 CTTGAAGTTGTAGTAAAGTTGGAT-A-GC
* * * * * *
1195012 AA-CCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAACATCAATTCTTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1195076 CTTGAAGTTGTAGTAAAATTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1195103 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCTTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1195168 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
1195195 AAGTCTTTGTCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1195260 CTTAAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1195287 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1195352 CTTAAAGTAGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1195379 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1195444 CTTGAATTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
1195471 AAGTCTTTGTCTTTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCTTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1195536 CTTAAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1195563 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1195628 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1195655 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAA----T-T--T
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1195713 CTTGAAGTTGTAGTAAAGATGGAT-GC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1195739 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1195804 CTTGAAGTTGTAGTAAAGTTCGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1195831 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCTT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1195896 CTTAAAGTAGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1195923 AAGTCTTTGTCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1195988 CTTGAATTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
1196015 AAGTCTTTGTCTTTCTGAAGTTGTAGTAAGAGTAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1196080 CTTAAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1196107 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1196172 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1196199 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1196264 CTTGAATTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1196291 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1196356 CTTAAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1196383 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1196448 CTTAAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1196475 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1196540 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1196567 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1196632 CTTGAAGTTGTAGTAAAGTTGGATAAC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1196659 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1196724 CTTGAATTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1196751 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1196816 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1196843 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1196908 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1196935 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1197000 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1197027 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197092 CTTGAAGTTGTAATAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1197119 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197184 CTTGAAGTTGTAGTAAAGGTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1197211 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCTTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197276 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1197303 AAGTCTTTGTCTCTCTGAAGTTGTAGGAAGAGCAAGATGAAGCATCAAAAATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197368 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1197395 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197460 CTTAAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * * *
1197487 AAGTCTTTGTATCTATGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCTT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1197552 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1197579 AAGTCTTTGTCTCCCTAAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1197644 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1197671 AAGTCTTTGTCTCTATGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCTTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197736 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1197763 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1197828 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1197855 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1197920 CTTGAAGTTGTAATAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
1197947 AAGTCTTTGTCTCTCTGAAGTTGTAGTATGAGCAAGATGAAGCATCAAGCATCAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1198012 CTTGAAGTTGTAGTAAAGGTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* *
1198039 AAGTCTTTGTCTCTATGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1198104 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1198131 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATTAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1198196 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
1198223 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1198288 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
1198315 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATAAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1198380 CTTGAAGTTGTAGTAAAGTTGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * *
1198407 AAGTCTTTGTCTCTTTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAGCATCAATTTCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1198472 CTTGAAGTTGTAGTAAAGATGGATAGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
*
1198499 AAGTC-TT-TCTTTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
*
1198562 CTTGAAGTTGTAGTAAAGTTGGATGGC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * **
1198589 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACGTCAATTCTTATATT
1 AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
* *
1198654 CTTGAAGTTATAGTAAAGTTGGATAAC
66 CTTGAAGTTGTAGTAAAGTTGGATAGC
* * * *
1198681 GAA-TCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCCT-AGACGTCAATTCCTATCC
1 -AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
* * *
1198744 TCTTGAAGTTATAGTAAAATTGGATAAC
65 TCTTGAAGTTGTAGTAAAGTTGGATAGC
* * * *
1198772 GAA-TCTTTATTTCTTTGAAGTTGTAGTAAGAACAAGATGAAGC
1 -AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
1198815 TTAGACGTCA
Statistics
Matches: 3619, Mismatches: 171, Indels: 28
0.95 0.04 0.01
Matches are distributed among these distances:
84 56 0.02
85 24 0.01
87 1 0.00
88 2 0.00
89 1 0.00
90 83 0.02
91 111 0.03
92 3337 0.92
93 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (92 bp):
AAGTCTTTGTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCT
CTTGAAGTTGTAGTAAAGTTGGATAGC
Found at i:1195759 original size:39 final size:39
Alignment explanation
Indices: 1195626--1195767 Score: 119
Period size: 39 Copynumber: 3.5 Consensus size: 39
1195616 AATTCCTATC
*
1195626 CTCT-TGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTGT
1 CTCTCTGAAGTTGTAGTAAAGATGGAT-GCAAGTCTTTGT
* ****
1195665 CTCTCTGAAGTTGTAGTAAGAGCA-AGATG-AAGCATCAAACAT
1 CTCTCTGAAGTTGTAGTAA-AG-ATGGATGCAAG--TC-TTTGT
*
1195707 CAATTTCTTGAAGTTGTAGTAAAGATGGATGCAAGTCTTTGT
1 C--TCTC-TGAAGTTGTAGTAAAGATGGATGCAAGTCTTTGT
1195749 CTCTCTGAAGTTGTAGTAA
1 CTCTCTGAAGTTGTAGTAA
1195768 GAGCAAGATG
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
39 21 0.27
40 18 0.23
41 7 0.09
42 4 0.05
43 3 0.04
44 9 0.11
45 17 0.22
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (39 bp):
CTCTCTGAAGTTGTAGTAAAGATGGATGCAAGTCTTTGT
Found at i:1199090 original size:15 final size:15
Alignment explanation
Indices: 1199070--1199099 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1199060 CCAAGCCATT
1199070 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
1199085 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
1199100 AAATTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATTTAAATTTA
Found at i:1199106 original size:21 final size:22
Alignment explanation
Indices: 1199069--1199116 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
1199059 ACCAAGCCAT
*
1199069 TTTAAATTTAAATTTAT-TAAA
1 TTTAAATTTAAAATTATATAAA
1199090 TTTAAATTTAAAATTATAATAAA
1 TTTAAATTTAAAATTAT-ATAAA
1199113 TTTA
1 TTTA
1199117 TAAATAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.67
23 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAATTTAAAATTATATAAA
Found at i:1199827 original size:22 final size:20
Alignment explanation
Indices: 1199801--1199841 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1199791 TATATTAAAC
1199801 GTATTAACTAAAGTTTTAAATG
1 GTATTAA-TAAA-TTTTAAATG
*
1199823 GTATTAATTAATTTTAAAT
1 GTATTAATAAATTTTAAAT
1199842 AAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (20 bp):
GTATTAATAAATTTTAAATG
Found at i:1199879 original size:22 final size:23
Alignment explanation
Indices: 1199839--1199882 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1199829 ATTAATTTTA
*
1199839 AATAAAAATATTTAGCAATAATT
1 AATAAAAATATATAGCAATAATT
*
1199862 AATAAAAATA-ATATCAATAAT
1 AATAAAAATATATAGCAATAAT
1199883 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
AATAAAAATATATAGCAATAATT
Found at i:1200957 original size:30 final size:30
Alignment explanation
Indices: 1200884--1200957 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
1200874 TAGACTGTCC
*
1200884 AAAAATTATATTTTGACCCTAAAATTTTCT
1 AAAAATTCTATTTTGACCCTAAAATTTTCT
*
1200914 AAAAATTAC-ATTTTGACAACC-AAACTTTTC-
1 AAAAATT-CTATTTTGAC--CCTAAAATTTTCT
*
1200944 CAAAATTCTATTTT
1 AAAAATTCTATTTT
1200958 TGGCCCCGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
29 1 0.03
30 26 0.70
31 8 0.22
32 2 0.05
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAAATTCTATTTTGACCCTAAAATTTTCT
Done.