Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 52 of 125
Found at i:16043419 original size:162 final size:162
Alignment explanation
Indices: 16043152--16043497 Score: 532
Period size: 162 Copynumber: 2.1 Consensus size: 162
16043142 TTTTAATTGG
* *
16043152 TTTTTAATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCAAGTATCACTTTTTGGTTTA
1 TTTTTAAATTAGTCCTTTGACTATTTGACTGCACCAGAGGCTACCAAGTATCACTTTTTGGTTTA
*
16043217 TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTT
66 TTTATGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTT
* * *
16043282 AATTATAAAATTGACCCAGGAATCTTTT-GAGA
131 AATTACAAAATTGACCCAAGAAT-TTTTCAAGA
* * *
16043314 TTTTTAAATTAGTCCTTTGACTATTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGTTTA
1 TTTTTAAATTAGTCCTTTGACTATTTGACTGCACCAGAGGCTACCAAGTATCACTTTTTGGTTTA
* * *
16043379 TTTATGTATCTAGTCCCTATCTTTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTTCTT
66 TTTATGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTT
*
16043444 AATTACAAAATTGGCCCAAGAATTTTTCAAGA
131 AATTACAAAATTGACCCAAGAATTTTTCAAGA
** *
16043476 TTTACAAATTCGTCCTTTGACT
1 TTTTTAAATTAGTCCTTTGACT
16043498 TCTGGATGCC
Statistics
Matches: 167, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 4 0.02
162 163 0.98
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (162 bp):
TTTTTAAATTAGTCCTTTGACTATTTGACTGCACCAGAGGCTACCAAGTATCACTTTTTGGTTTA
TTTATGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTT
AATTACAAAATTGACCCAAGAATTTTTCAAGA
Found at i:16043619 original size:30 final size:28
Alignment explanation
Indices: 16043571--16043790 Score: 97
Period size: 29 Copynumber: 7.5 Consensus size: 28
16043561 GGATGGTCCA
* *
16043571 AAAATTACCATTTTACCCCCGAACTTCCC
1 AAAATT-CCTTTTTACCCCCAAACTTCCC
* * *
16043600 AAAATTCCGTTTTTAACCCCGATC-TCACC
1 AAAATTCC-TTTTTACCCCCAAACTTC-CC
* * *
16043629 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCTTTTTACCCCCAAACTTCCC
**
16043659 AAAATTCCATTTTTGA-CCCC-AGTTTCACC
1 AAAATTCC-TTTTT-ACCCCCAAACTTC-CC
* * *
16043688 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCTTTTTACCCCCAAACTTCCC
* ***
16043718 AAAATTCCATTTTTAACCCC-GGTTTCACC
1 AAAATTCC-TTTTTACCCCCAAACTTC-CC
* * *
16043747 AAAAATTGCCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCTTTTTACCCCCAAACTTCCC
*
16043777 AAAATTCCATTTTA
1 AAAATTCCTTTTTA
16043791 ACCTTGATTT
Statistics
Matches: 141, Mismatches: 33, Indels: 35
0.67 0.16 0.17
Matches are distributed among these distances:
28 21 0.15
29 58 0.41
30 50 0.35
31 12 0.09
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTCCTTTTTACCCCCAAACTTCCC
Found at i:16043661 original size:59 final size:58
Alignment explanation
Indices: 16043568--16043882 Score: 375
Period size: 59 Copynumber: 5.4 Consensus size: 58
16043558 CCTGGATGGT
** * *
16043568 CCAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCGTTTTTAACCCCGATCTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-TTTTTAACCCCGATTTCA
*
16043627 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCC-AGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-TTTTTAACCCCGA-TTTCA
*
16043686 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-TTTTTAACCCCGATTTCA
* * ** *
16043745 CCAAAAATTGCCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCTTGATTTAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCTTTTTAACCCCGATTTCA
* * * * * *
16043803 CCAGAAATTACTATTTTA-CCCTCGAATTTTCCAAAATT-CTCTTTTGACCCCGATTTGA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCT-TTTTAACCCCGATTTCA
* * *
16043861 TCGAAAATTACCATTTTGCCCC
1 CCAAAAATTACCATTTTACCCC
16043883 CGCGAGTCCA
Statistics
Matches: 222, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
57 5 0.02
58 68 0.31
59 149 0.67
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCTTTTTAACCCCGATTTCA
Found at i:16043839 original size:29 final size:27
Alignment explanation
Indices: 16043713--16043877 Score: 80
Period size: 30 Copynumber: 5.7 Consensus size: 27
16043703 ACCCCTAAAC
* *
16043713 TTTCCAAAATTCCATTTTTAACCCCGGT
1 TTTCCAAAATTCCA-TTTTAACCTCGAT
* * ** *
16043741 TTCACCAAAAATTGCCATTTTACCCCTAAAC
1 TT-TCC-AAAATT-CCATTTTA-ACCTCGAT
*
16043772 TTTCCAAAATTCCATTTTAACCTTGAT
1 TTTCCAAAATTCCATTTTAACCTCGAT
* * *
16043799 TTAACCAGAAATTACTATTTTACCCTCGAAT
1 TT-TCCA-AAATT-CCATTTTAACCTCG-AT
* *
16043830 TTTCCAAAATTCTC-TTTTGACCCCGAT
1 TTTCCAAAATTC-CATTTTAACCTCGAT
*
16043857 TTGATCGAAAATTACCATTTT
1 TT--TCCAAAATT-CCATTTT
16043878 GCCCCCGCGA
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
27 10 0.10
28 22 0.22
29 27 0.26
30 32 0.31
31 11 0.11
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.38
Consensus pattern (27 bp):
TTTCCAAAATTCCATTTTAACCTCGAT
Found at i:16043919 original size:27 final size:28
Alignment explanation
Indices: 16043864--16043922 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
16043854 GATTTGATCG
*
16043864 AAAATTACCATTTTGCCCCCGCGAGTCC
1 AAAATTACCATTTTGCCCCCGCGAATCC
16043892 AAAATTACCATTTTG-CCCCG-GATATCC
1 AAAATTACCATTTTGCCCCCGCGA-ATCC
16043919 AAAA
1 AAAA
16043923 GTCTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 2 0.07
27 12 0.41
28 15 0.52
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCCCGCGAATCC
Found at i:16047014 original size:219 final size:219
Alignment explanation
Indices: 16046635--16047076 Score: 884
Period size: 219 Copynumber: 2.0 Consensus size: 219
16046625 CCAATTTTTT
16046635 ACTTAAAAAATCAGTAGACTTGTGATGATTTTTTGGATGGAATCTCAACCTTTCTAAGTTAAGAT
1 ACTTAAAAAATCAGTAGACTTGTGATGATTTTTTGGATGGAATCTCAACCTTTCTAAGTTAAGAT
16046700 GTCTTCTTTCCAATGAAATAGTTATATCTTGTCTTCAAAATACATTTTTAGTCACTTGATTTTGA
66 GTCTTCTTTCCAATGAAATAGTTATATCTTGTCTTCAAAATACATTTTTAGTCACTTGATTTTGA
16046765 GTTCAAGGTCTCAAGTTATGGTTATTATAGTGAGGACTGTGCAAGTAGAATTTATAAATAGGATT
131 GTTCAAGGTCTCAAGTTATGGTTATTATAGTGAGGACTGTGCAAGTAGAATTTATAAATAGGATT
16046830 ATTACGAGAAATTACGAATTTCGA
196 ATTACGAGAAATTACGAATTTCGA
16046854 ACTTAAAAAATCAGTAGACTTGTGATGATTTTTTGGATGGAATCTCAACCTTTCTAAGTTAAGAT
1 ACTTAAAAAATCAGTAGACTTGTGATGATTTTTTGGATGGAATCTCAACCTTTCTAAGTTAAGAT
16046919 GTCTTCTTTCCAATGAAATAGTTATATCTTGTCTTCAAAATACATTTTTAGTCACTTGATTTTGA
66 GTCTTCTTTCCAATGAAATAGTTATATCTTGTCTTCAAAATACATTTTTAGTCACTTGATTTTGA
16046984 GTTCAAGGTCTCAAGTTATGGTTATTATAGTGAGGACTGTGCAAGTAGAATTTATAAATAGGATT
131 GTTCAAGGTCTCAAGTTATGGTTATTATAGTGAGGACTGTGCAAGTAGAATTTATAAATAGGATT
16047049 ATTACGAGAAATTACGAATTTCGA
196 ATTACGAGAAATTACGAATTTCGA
16047073 ACTT
1 ACTT
16047077 TCATTTGTTT
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 223 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (219 bp):
ACTTAAAAAATCAGTAGACTTGTGATGATTTTTTGGATGGAATCTCAACCTTTCTAAGTTAAGAT
GTCTTCTTTCCAATGAAATAGTTATATCTTGTCTTCAAAATACATTTTTAGTCACTTGATTTTGA
GTTCAAGGTCTCAAGTTATGGTTATTATAGTGAGGACTGTGCAAGTAGAATTTATAAATAGGATT
ATTACGAGAAATTACGAATTTCGA
Found at i:16048282 original size:6 final size:6
Alignment explanation
Indices: 16048268--16048366 Score: 76
Period size: 6 Copynumber: 16.0 Consensus size: 6
16048258 TTTAAATTTG
* * *
16048268 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA TTT-AA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA
** * *
16048316 TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA TTAAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TT-TAAA TTTAAA
16048367 GTCCAATGTC
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.11
6 46 0.61
7 15 0.20
8 6 0.08
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:16048288 original size:17 final size:15
Alignment explanation
Indices: 16048262--16048326 Score: 69
Period size: 17 Copynumber: 4.1 Consensus size: 15
16048252 ATTGATTTTA
*
16048262 AATTTGTTTAAATTT
1 AATTTATTTAAATTT
16048277 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
16048294 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
16048308 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
16048325 AA
1 AA
16048327 ATAAAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.10
16 5 0.12
17 22 0.52
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:16048306 original size:31 final size:31
Alignment explanation
Indices: 16048268--16048329 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
16048258 TTTAAATTTG
*
16048268 TTTAAATTTAGATTT-ATTTTAAATTTAAATA
1 TTTAAATTTA-ATTTGAATTTAAATTTAAATA
16048299 TTTAAATTTAATTTGAATTTAAATTTAAATA
1 TTTAAATTTAATTTGAATTTAAATTTAAATA
16048330 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTAAATTTAATTTGAATTTAAATTTAAATA
Found at i:16048307 original size:25 final size:25
Alignment explanation
Indices: 16048273--16048322 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16048263 ATTTGTTTAA
* *
16048273 ATTTAGATTTATTTTAAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAAT
*
16048298 ATTTAAATTTAATTTGAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAAT
16048323 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATTTAAATTTAATTTAAATTTAAAT
Found at i:16048320 original size:11 final size:11
Alignment explanation
Indices: 16048248--16048328 Score: 55
Period size: 11 Copynumber: 7.5 Consensus size: 11
16048238 GACTTTTGAG
* *
16048248 TTAAATTGATT
1 TTAAATTTAAT
*
16048259 TTAAATTT-GT
1 TTAAATTTAAT
16048269 TTAAATTTAGAT
1 TTAAATTTA-AT
*
16048281 TT-ATTTTAAAT
1 TTAAATTT-AAT
16048292 TTAAA--T-AT
1 TTAAATTTAAT
16048300 TTAAATTTAAT
1 TTAAATTTAAT
*
16048311 TTGAATTTAAAT
1 TTAAATTT-AAT
16048323 TTAAAT
1 TTAAAT
16048329 AAAAATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
8 7 0.13
10 11 0.20
11 24 0.44
12 13 0.24
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:16048325 original size:42 final size:41
Alignment explanation
Indices: 16048258--16048351 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 41
16048248 TTAAATTGAT
* * ** * *
16048258 TTTAAATTT-GTTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
16048299 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
16048340 TATTAAATTTAA
1 T-TTAAATTTAA
16048352 CATTAAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 11 0.25
42 33 0.75
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:16048365 original size:20 final size:18
Alignment explanation
Indices: 16048314--16048366 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
16048304 ATTTAATTTG
*
16048314 AATTTAAATTTAAATAAA
1 AATTAAAATTTAAATAAA
*
16048332 AATTAAAATATTAAATTTAA
1 AATTAAAAT-TTAAA-TAAA
*
16048352 CATTAAAAATTTAAA
1 AATT-AAAATTTAAA
16048367 GTCCAATGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 11 0.38
21 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAAATTTAAATAAA
Found at i:16048458 original size:13 final size:15
Alignment explanation
Indices: 16048441--16048477 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
16048431 ACCCATTTTT
16048441 TGGCCCAAATTA-AA
1 TGGCCCAAATTACAA
16048455 -GGCCC-AATTACAA
1 TGGCCCAAATTACAA
16048468 TGGCCCAAAT
1 TGGCCCAAAT
16048478 AGGCCCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.25
13 7 0.35
14 5 0.25
15 3 0.15
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (15 bp):
TGGCCCAAATTACAA
Found at i:16048558 original size:15 final size:15
Alignment explanation
Indices: 16048535--16048565 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16048525 GCCTATGCTG
16048535 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
*
16048550 CTGCTACCACCAGCT
1 CTGCCACCACCAGCT
16048565 C
1 C
16048566 CACCATGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.52, G:0.13, T:0.16
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:16049015 original size:15 final size:16
Alignment explanation
Indices: 16048995--16049029 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16048985 TTCATTAGCA
16048995 TTAATAA-TAATATCT
1 TTAATAATTAATATCT
*
16049010 TTAATAATTAATATTT
1 TTAATAATTAATATCT
16049026 TTAA
1 TTAA
16049030 ATAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATTAATATCT
Found at i:16050050 original size:160 final size:162
Alignment explanation
Indices: 16049878--16050173 Score: 472
Period size: 160 Copynumber: 1.8 Consensus size: 162
16049868 TCAATTTCGC
* *
16049878 CCTTTGACTGTTTGACTGTACCATAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCATTTAG
1 CCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCATTTAG
* *
16049943 TCCTTTTT-TTTTTTATTTGTTTTAATTTAAT-CTCAAATCAAC-TTTATTTTAATTACGAAATT
66 TCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTACAAAATT
16050005 GGCCCAATAATTTTTCAAGGTTTATAAACTAGT
130 GGCCCAATAATTTTTCAAGGTTTATAAACTAGT
* * *
16050038 CCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATTTTTTGGATTATTTCTGCATTTAG
1 CCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCATTTAG
* *
16050103 TCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTATTTAATTACAAAATTG
66 TCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAAATTG
*
16050168 GTCCAA
131 GCCCAA
16050174 ATTTTTTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
160 68 0.55
161 22 0.18
162 29 0.24
163 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (162 bp):
CCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCATTTAG
TCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAAATTG
GCCCAATAATTTTTCAAGGTTTATAAACTAGT
Found at i:16050324 original size:30 final size:30
Alignment explanation
Indices: 16050278--16050511 Score: 333
Period size: 30 Copynumber: 7.7 Consensus size: 30
16050268 CCCTAAATTG
* *
16050278 TCCAGAAATTATATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTAACCCCAAAACTTT
16050309 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * *
16050339 CCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * * *
16050369 TCCAAAATTATATTTTTGACCTCGAAACTTT
1 TCCAAAATTACA-TTTTAACCCCAAAACTTT
* *
16050400 ACCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
16050430 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* *
16050460 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
16050490 TCCAAAATTACATTTTAACCCC
1 TCCAAAATTACATTTTAACCCC
16050512 GATTTCACCG
Statistics
Matches: 182, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
30 152 0.84
31 30 0.16
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:16050376 original size:60 final size:60
Alignment explanation
Indices: 16050283--16050511 Score: 368
Period size: 60 Copynumber: 3.8 Consensus size: 60
16050273 AATTGTCCAG
*
16050283 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTCCCA
1 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTACCA
* * * *
16050343 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTTGACCTCGAAACTTTACCA
1 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACA-TTTTAACCCCAAAACTTTACCA
* * * *
16050404 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTACCA
16050464 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCC
1 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCC
16050512 GATTTCACCG
Statistics
Matches: 152, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
60 100 0.66
61 52 0.34
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (60 bp):
AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTACCA
Found at i:16050497 original size:121 final size:121
Alignment explanation
Indices: 16050283--16050505 Score: 401
Period size: 121 Copynumber: 1.8 Consensus size: 121
16050273 AATTGTCCAG
* *
16050283 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTCCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTCCCAAAATT
*
16050348 ATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTTGACCTCGAAACTTTACCA
66 ATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTTGACCTCGAAACTTTACCA
* *
16050404 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTCCCAAAATT
16050469 ATATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
66 ATATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
16050506 AACCCCGATT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 97 1.00
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (121 bp):
AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTCCCAAAATT
ATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTTGACCTCGAAACTTTACCA
Found at i:16050535 original size:60 final size:59
Alignment explanation
Indices: 16050283--16050598 Score: 317
Period size: 60 Copynumber: 5.3 Consensus size: 59
16050273 AATTGTCCAG
* *
16050283 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTC-CCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCC--GACTTTCACCA
* * * *
16050343 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTTGACCTCGAAACTTT-ACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACA-TTTTAACCCCG--ACTTTCACCA
* * * *
16050404 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCC--GACTTTCACCA
*
16050464 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGA-TTTCACCGA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGACTTTCACC-A
* * * *
16050523 AAATTACCATTTT-ACCCTCGAATC-TTT--AAAATTCCATTTTTAACCCCGA-TTACACCA
1 AAATTA-CATTTTGACCC-CAAAACTTTTCCAAAATTACA-TTTTAACCCCGACTTTCACCA
*
16050580 AAATTACCATTTTGCCCCC
1 AAATTA-CATTTTGACCCC
16050599 GGGTATCCAT
Statistics
Matches: 221, Mismatches: 23, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
57 26 0.12
58 24 0.11
59 14 0.06
60 107 0.48
61 50 0.23
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (59 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGACTTTCACCA
Found at i:16050539 original size:29 final size:29
Alignment explanation
Indices: 16050491--16050592 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
16050481 CAAAACTTTT
16050491 CCAAAATTA-CATTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTAACCCCGATTTCA
* *
16050519 CCGAAAATTACCATTTT-ACCCTCGA-ATCT
1 CC-AAAATTACCATTTTAACCC-CGATTTCA
** *
16050548 TTAAAATT-CCATTTTTAACCCCGATTACA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
16050577 CCAAAATTACCATTTT
1 CCAAAATTACCATTTT
16050593 GCCCCCGGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
27 3 0.05
28 15 0.26
29 28 0.48
30 12 0.21
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
CCAAAATTACCATTTTAACCCCGATTTCA
Found at i:16062827 original size:68 final size:68
Alignment explanation
Indices: 16062718--16063115 Score: 724
Period size: 68 Copynumber: 5.8 Consensus size: 68
16062708 ACCTTTTCCT
* * *
16062718 ATCCCCTTGAAATTGAAATAGAGTGGATAAAACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
16062783 GTC
66 GTC
16062786 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
16062851 GTC
66 GTC
16062854 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
16062919 GTC
66 GTC
16062922 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
16062987 GTC
66 GTC
*
16062990 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
16063055 GTC
66 GTC
* * *
16063058 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCCCTCGAAATTGAAGTA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCT-GAAATTGAAGTA
16063116 GAGTGGATAA
Statistics
Matches: 321, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
68 309 0.96
69 12 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:16063102 original size:38 final size:38
Alignment explanation
Indices: 16063063--16063295 Score: 186
Period size: 38 Copynumber: 6.4 Consensus size: 38
16063053 ACGTCATCCC
*
16063063 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCC
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCT
* *
16063101 CTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCT
** * *
16063139 C-TGAAATTGAAGTA-A---GAGCA-ATGTCAT--CCT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCT
* * * *
16063169 CTTGAAATTGGAGTAAAGTGGATAATACGTCTTCATCT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCT
* * * * *
16063207 C-TGAAATTGAAGTA-A--GAACAAAACCTCTTCCTATCCC
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTT-C-A-CCT
* *
16063244 CTCGAAATTGAAGTAGAGTGGATAACACGTCTTTACCT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCT
16063282 C-TGAAATTGAAGTA
1 CTTGAAATTGAAGTA
16063296 AGAGCAACGT
Statistics
Matches: 150, Mismatches: 30, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
30 3 0.02
31 12 0.08
32 6 0.04
33 3 0.02
34 10 0.07
35 4 0.03
36 8 0.05
37 38 0.25
38 54 0.36
39 2 0.01
41 10 0.07
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (38 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCACCT
Found at i:16063135 original size:174 final size:177
Alignment explanation
Indices: 16062924--16063295 Score: 554
Period size: 174 Copynumber: 2.1 Consensus size: 177
16062914 GCAACGTCAT
*
16062924 CCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGT
1 CCCC-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGT
* * * *
16062989 CATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGC-A
65 CATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAACAA
*
16063053 A-CGT-C-ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCA
130 ACCGTCCTATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCA
*
16063098 CCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGT
1 CCCCT-GAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGT
* * *
16063163 CATCCTCTTGAAATTGGAGTAAAGTGGATAATACGTCTTCATCTCTGAAATTGAAGTAAGAACAA
65 CATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAAC-A
* *
16063228 AACCTCTTCCTATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTA
129 AA-C-CGTCCTATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCA
*
16063279 CCTCTGAAATTGAAGTA
1 CCCCTGAAATTGAAGTA
16063296 AGAGCAACGT
Statistics
Matches: 177, Mismatches: 13, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
173 1 0.01
174 117 0.66
176 2 0.01
179 2 0.01
180 13 0.07
181 42 0.24
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (177 bp):
CCCCTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTC
ATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAACAAA
CCGTCCTATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCA
Found at i:16063213 original size:68 final size:68
Alignment explanation
Indices: 16063104--16063336 Score: 295
Period size: 68 Copynumber: 3.3 Consensus size: 68
16063094 TTCACCCCTC
*
16063104 GAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATCCT
1 GAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATCCT
16063169 CTT
66 CTT
* * * *
16063172 GAAATTGGAGTAAAGTGGATAATACGTCTTCATCTCTGAAATTGAAGTAAGAACAAAACCTCTTC
1 GAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC--AA--T-GT-
* *
16063237 CTATCCCCTC
60 C-ATCCTCTT
* * * *
16063247 GAAATTGAAGTAGAGTGGATAACACGTCTTTACCTCTGAAATTGAAGTAAGAGCAACGTCATCCT
1 GAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATCCT
16063312 CTT
66 CTT
16063315 GAAATTGAAGTAAAGTTGGATA
1 GAAATTGAAGTAAAG-TGGATA
16063337 GCAAAGTCTT
Statistics
Matches: 139, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
68 70 0.50
69 7 0.05
70 3 0.02
72 1 0.01
73 3 0.02
74 1 0.01
75 54 0.39
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (68 bp):
GAAATTGAAGTAAAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATCCT
CTT
Found at i:16063251 original size:106 final size:105
Alignment explanation
Indices: 16062788--16063258 Score: 319
Period size: 106 Copynumber: 4.5 Consensus size: 105
16062778 GCAACGTCAT
* * * * ** *
16062788 CCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGT
1 CCCCTCGAAATTGAAGTAGAG-GAACAAAACCTCTTCATCCCTGAAATTGAAGTAAGAGCAACGT
* *
16062853 CATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCA
65 CATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCA
* * * * * * *
16062894 TCTCT-GAAATTGAAGTA-A-GAGC--AACGTCATC--CCCTTGAAATTGAAGTAGAGTGGATAA
1 CCCCTCGAAATTGAAGTAGAGGAACAAAACCTCTTCATCCC-TGAAATTGAAGTA-AG-AG-CAA
* ** ** *
16062952 CATGTCTTCATCTCTGAAATTGAAGT-AA---GAGCA-ACGTCAT--
62 C--GTCATCCCCT-TGAAATTGAAGTAAAGTGGATAACACGTCTTCA
* * * * ** * *
16062992 CCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGT
1 CCCCTCGAAATTGAAGTAGAG-GAACAAAACCTCTTCATCCCTGAAATTGAAGTAAGAGCAACGT
*
16063057 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCA
65 CATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCA
* * * * * *
16063098 CCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGT
1 CCCCTCGAAATTGAAGTAGAG-GAACAAAACCTCTTCATCCCTGAAATTGAAGTAAGAGCAACGT
* * *
16063163 CATCCTCTTGAAATTGGAGTAAAGTGGATAATACGTCTTCA
65 CATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCA
* *
16063204 TCTCT-GAAATTGAAGTA-A-GAACAAAACCTCTTCCTATCCCCTCGAAATTGAAGTA
1 CCCCTCGAAATTGAAGTAGAGGAACAAAACCTCTT-C-AT-CCCT-GAAATTGAAGTA
16063259 GAGTGGATAA
Statistics
Matches: 286, Mismatches: 53, Indels: 52
0.73 0.14 0.13
Matches are distributed among these distances:
98 5 0.02
99 37 0.13
100 22 0.08
101 4 0.01
102 18 0.06
103 5 0.02
104 25 0.09
105 52 0.18
106 118 0.41
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (105 bp):
CCCCTCGAAATTGAAGTAGAGGAACAAAACCTCTTCATCCCTGAAATTGAAGTAAGAGCAACGTC
ATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTCA
Found at i:16063664 original size:6 final size:6
Alignment explanation
Indices: 16063650--16063748 Score: 76
Period size: 6 Copynumber: 16.0 Consensus size: 6
16063640 TTTAAATTTG
* * *
16063650 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA TTT-AA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA
** * *
16063698 TTTAAA TTTAAA TGAAAA TTAAAA TATTAAA TTTAACA TTAAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TT-TAAA TTTAAA
16063749 AGTCCAATGT
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.11
6 46 0.61
7 15 0.20
8 6 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:16063670 original size:17 final size:15
Alignment explanation
Indices: 16063644--16063708 Score: 69
Period size: 17 Copynumber: 4.1 Consensus size: 15
16063634 ATTGATTTTA
*
16063644 AATTTGTTTAAATTT
1 AATTTATTTAAATTT
16063659 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
16063676 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
16063690 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
16063707 AA
1 AA
16063709 ATGAAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.10
16 5 0.12
17 22 0.52
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:16063688 original size:31 final size:31
Alignment explanation
Indices: 16063650--16063710 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
16063640 TTTAAATTTG
*
16063650 TTTAAATTTAGATTT-ATTTTAAATTTAAATA
1 TTTAAATTTA-ATTTGAATTTAAATTTAAATA
16063681 TTTAAATTTAATTTGAATTTAAATTTAAAT
1 TTTAAATTTAATTTGAATTTAAATTTAAAT
16063711 GAAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTAAATTTAATTTGAATTTAAATTTAAATA
Found at i:16063689 original size:25 final size:25
Alignment explanation
Indices: 16063655--16063704 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16063645 ATTTGTTTAA
* *
16063655 ATTTAGATTTATTTTAAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAAT
*
16063680 ATTTAAATTTAATTTGAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAAT
16063705 TTAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATTTAAATTTAATTTAAATTTAAAT
Found at i:16063702 original size:11 final size:11
Alignment explanation
Indices: 16063630--16063710 Score: 55
Period size: 11 Copynumber: 7.5 Consensus size: 11
16063620 GACTTTTGAG
* *
16063630 TTAAATTGATT
1 TTAAATTTAAT
*
16063641 TTAAATTT-GT
1 TTAAATTTAAT
16063651 TTAAATTTAGAT
1 TTAAATTTA-AT
*
16063663 TT-ATTTTAAAT
1 TTAAATTT-AAT
16063674 TTAAA--T-AT
1 TTAAATTTAAT
16063682 TTAAATTTAAT
1 TTAAATTTAAT
*
16063693 TTGAATTTAAAT
1 TTAAATTT-AAT
16063705 TTAAAT
1 TTAAAT
16063711 GAAAATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
8 7 0.13
10 11 0.20
11 24 0.44
12 13 0.24
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:16063707 original size:42 final size:41
Alignment explanation
Indices: 16063640--16063733 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 41
16063630 TTAAATTGAT
* * ** * *
16063640 TTTAAATTT-GTTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATGAAAATTAAA-A
*
16063681 TTTAAATTTAATTTGAATTTAAATTTAAATGAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATGAAAATTAAAA
16063722 TATTAAATTTAA
1 T-TTAAATTTAA
16063734 CATTAAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 11 0.25
42 33 0.75
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATGAAAATTAAAA
Found at i:16063747 original size:20 final size:18
Alignment explanation
Indices: 16063696--16063748 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
16063686 ATTTAATTTG
*
16063696 AATTTAAATTTAAATGAA
1 AATTAAAATTTAAATGAA
*
16063714 AATTAAAATATTAAATTTAA
1 AATTAAAAT-TTAAA-TGAA
*
16063734 CATTAAAAATTTAAA
1 AATT-AAAATTTAAA
16063749 AGTCCAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 11 0.38
21 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AATTAAAATTTAAATGAA
Found at i:16063842 original size:13 final size:15
Alignment explanation
Indices: 16063823--16063859 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
16063813 GACCCATTTT
16063823 TGGCCCAAATTA-AA
1 TGGCCCAAATTACAA
16063837 -GGCCC-AATTACAA
1 TGGCCCAAATTACAA
16063850 TGGCCCAAAT
1 TGGCCCAAAT
16063860 AGGCCCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.25
13 7 0.35
14 5 0.25
15 3 0.15
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (15 bp):
TGGCCCAAATTACAA
Found at i:16063937 original size:15 final size:15
Alignment explanation
Indices: 16063917--16063947 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16063907 GCCTATGCTA
16063917 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
16063932 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
16063947 C
1 C
16063948 CATCATGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:16064397 original size:15 final size:16
Alignment explanation
Indices: 16064377--16064411 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16064367 TTCATTAGCA
16064377 TTAATAA-TAATATCT
1 TTAATAATTAATATCT
*
16064392 TTAATAATTAATATTT
1 TTAATAATTAATATCT
16064408 TTAA
1 TTAA
16064412 ATAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATTAATATCT
Found at i:16065615 original size:161 final size:160
Alignment explanation
Indices: 16065255--16065623 Score: 408
Period size: 161 Copynumber: 2.3 Consensus size: 160
16065245 CTTTTCAATT
* * * * *
16065255 TAGTCCTTTGACTGTTTGACTGTACCATAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
1 TAGTCCCTTGACTGCTGGACT-CACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
* *
16065320 TTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACGAAA
65 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACAAAA
* * *
16065385 TTGGCCCAATAATTTTTCAAGGTTTATAAAC
130 CTGGCCAAATAATTTTTCAAGATTTATAAAC
* * * * * *
16065416 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATTTTTTGGATTATTTCTGCAT
1 TAGTCCCTTGACTGCTGGACT-CACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCAT
* *
16065481 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTT-TATTTAATTACAA
65 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCC-CAAATCAACTTTAT-TTTAATTACAA
* * *
16065545 AACTGGTCCAAAT-TTTTTTTAAGATTT-TCAAAT
128 AACTGG-CCAAATAATTTTTCAAGATTTAT-AAAC
* *
16065578 TGGTCCCTTGACCT-CTGGA-T-ACCTATGGGGCTGCCACGTGTCACTT
1 TAGTCCCTTGA-CTGCTGGACTCACC-A-GAGGCTGCCACGTGTCACTT
16065624 GTTTTTGGTT
Statistics
Matches: 179, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
159 3 0.02
160 1 0.01
161 117 0.65
162 51 0.28
163 7 0.04
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (160 bp):
TAGTCCCTTGACTGCTGGACTCACCAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCATT
TAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACAAAAC
TGGCCAAATAATTTTTCAAGATTTATAAAC
Found at i:16065739 original size:30 final size:30
Alignment explanation
Indices: 16065660--16065892 Score: 297
Period size: 30 Copynumber: 7.7 Consensus size: 30
16065650 CCCTAAATTG
* * *
16065660 TCCAGAAATTATATTTTAACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
*
16065691 TTCAAAATTACA-TTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
16065720 CCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
16065750 TCCAAAATTATATTTTTGACCTCGAAACTTT
1 TCCAAAATTACA-TTTTGACCCCAAAACTTT
* * *
16065781 ACCAAAATTACATTTTGAACCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
16065811 TCCAAAATTACATTTTAACGCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
16065841 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
16065871 TCCAAAATTACATTTTAACCCC
1 TCCAAAATTACATTTTGACCCC
16065893 GATTTCATCG
Statistics
Matches: 174, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
29 24 0.14
30 121 0.70
31 29 0.17
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:16065878 original size:121 final size:120
Alignment explanation
Indices: 16065665--16065886 Score: 365
Period size: 121 Copynumber: 1.8 Consensus size: 120
16065655 AATTGTCCAG
* * *
16065665 AAATTATATTTTAACCCTAAAACTTTTTCAAAATTACATTTGACCCCAAAACTTTCCCAAAATTA
1 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTAACCCCAAAACTTTCCCAAAATTA
*
16065730 TATTTTGACCCCAAAACTTTTCCAAAATTATATTTTTGACCTCGAAACTTTACCA
66 TATTTTGACCCCAAAACTTTTCCAAAATTACATTTTTGACCTCGAAACTTTACCA
* *
16065785 AAATTACATTTTGAA-CCTAAAACTTTTCCAAAATTACATTTTAACGCCAAAACTTTTCCAAAAT
1 AAATTACATTTT-AACCCTAAAACTTTTCCAAAATTACA-TTTAACCCCAAAACTTTCCCAAAAT
16065849 TATATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
64 TATATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
16065887 AACCCCGATT
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
120 33 0.35
121 61 0.65
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (120 bp):
AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTAACCCCAAAACTTTCCCAAAATTA
TATTTTGACCCCAAAACTTTTCCAAAATTACATTTTTGACCTCGAAACTTTACCA
Found at i:16065915 original size:90 final size:89
Alignment explanation
Indices: 16065660--16065922 Score: 291
Period size: 90 Copynumber: 2.9 Consensus size: 89
16065650 CCCTAAATTG
* * * *
16065660 TCCAGAAATTATATTTTAACCCTAAAACTTTTTCAAAATTACA-TTTGACCCCAAAACTTTC-CC
1 TCCA-AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCC--AACTTTCTCC
* *
16065723 AAAATTATATTTTGACCCCAAAACTTT
63 AAAATTACATTTTAACCCCAAAACTTT
* * * **
16065750 TCCAAAATTATATTTTTGACCTCGAAACTTTACCAAAATTACATTTTGAACCTAAAACTTT-TCC
1 TCCAAAATTATA-TTTTGACCCCAAAACTTTTCCAAAATTACATTTT-AACC-CCAACTTTCTCC
*
16065814 AAAATTACATTTTAACGCCAAAACTTT
63 AAAATTACATTTTAACCCCAAAACTTT
* *
16065841 TCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGA-TTTCATCGAA
1 TCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAACTTTC-TCCAA
*
16065905 AATTACCATTTTACCCCC
65 AATTA-CATTTTAACCCC
16065923 GAATCTTTAA
Statistics
Matches: 144, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
87 3 0.02
88 1 0.01
89 21 0.15
90 69 0.48
91 47 0.33
92 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (89 bp):
TCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAACTTTCTCCAAA
ATTACATTTTAACCCCAAAACTTT
Found at i:16065916 original size:60 final size:59
Alignment explanation
Indices: 16065665--16065979 Score: 254
Period size: 60 Copynumber: 5.3 Consensus size: 59
16065655 AATTGTCCAG
* * * * * *
16065665 AAATTATATTTTAACCCTAAAACTTTTTCAAAATTACA-TTTGACCCCAAAACTTTC-CCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCC--GACTTTCACCA
* * * *
16065724 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTTGACCTCGAAACTTT-ACCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACA-TTTTAACCCCG--ACTTTCACCA
* * ** *
16065785 AAATTACATTTTGAACCTAAAACTTTTCCAAAATTACATTTTAACGCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAAC-CC-CGACTTTCACCA
* *
16065845 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGA-TTTCATCGA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGACTTTCA-CCA
** * *
16065904 AAATTACCATTTT-ACCCCCGAA-TCTTT--AAAATTCCATTTTTAACCCCGA-TTACACCA
1 AAATTA-CATTTTGACCCCAAAACT-TTTCCAAAATTACA-TTTTAACCCCGACTTTCACCA
*
16065961 AAATTACCATTTTGCCCCC
1 AAATTA-CATTTTGACCCC
16065980 GGGTATCCAT
Statistics
Matches: 214, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
57 26 0.12
58 22 0.10
59 54 0.25
60 61 0.29
61 51 0.24
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (59 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCGACTTTCACCA
Found at i:16065920 original size:29 final size:30
Alignment explanation
Indices: 16065871--16065973 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 30
16065861 CCAAAACTTT
16065871 TCCAAAATTA-CATTTTAACCCCGATTTCA
1 TCCAAAATTACCATTTTAACCCCGATTTCA
* * *
16065900 TCGAAAATTACCATTTTACCCCCGA-ATC-
1 TCCAAAATTACCATTTTAACCCCGATTTCA
** *
16065928 TTTAAAATT-CCATTTTTAACCCCGATTACA
1 TCCAAAATTACCA-TTTTAACCCCGATTTCA
16065958 -CCAAAATTACCATTTT
1 TCCAAAATTACCATTTT
16065974 GCCCCCGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
27 3 0.05
28 18 0.31
29 22 0.37
30 16 0.27
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACCATTTTAACCCCGATTTCA
Found at i:16070966 original size:31 final size:31
Alignment explanation
Indices: 16070931--16070993 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
16070921 TGGAATTTGA
16070931 TGTCATGATTTCAAAACACAAGAAAAATGTT
1 TGTCATGATTTCAAAACACAAGAAAAATGTT
*
16070962 TGTCATGATTTCAGAACACAAGAAAAATGTT
1 TGTCATGATTTCAAAACACAAGAAAAATGTT
16070993 T
1 T
16070994 CAAAATTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (31 bp):
TGTCATGATTTCAAAACACAAGAAAAATGTT
Found at i:16072164 original size:20 final size:21
Alignment explanation
Indices: 16072139--16072180 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16072129 CAAACAATGA
*
16072139 CAAAAAGTATCAATACCTTTT
1 CAAAATGTATCAATACCTTTT
*
16072160 CAAAATGTATCGATACCTTTT
1 CAAAATGTATCAATACCTTTT
16072181 ATCAGGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (21 bp):
CAAAATGTATCAATACCTTTT
Found at i:16078651 original size:2 final size:2
Alignment explanation
Indices: 16078646--16078671 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16078636 ATAAGTCGCC
16078646 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16078672 GTAAGTGTAT
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):
AT
Found at i:16086108 original size:42 final size:42
Alignment explanation
Indices: 16086059--16086144 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
16086049 ATGAAAAACT
*
16086059 ATATTATTTTTATAATATATAGCATAAACACATAAATAAGTG
1 ATATTATTTTTATAATATATAGAATAAACACATAAATAAGTG
16086101 ATATTATTTTTATAATATATAGAATAAACACATAAATAAGTG
1 ATATTATTTTTATAATATATAGAATAAACACATAAATAAGTG
16086143 AT
1 AT
16086145 GTTGATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (42 bp):
ATATTATTTTTATAATATATAGAATAAACACATAAATAAGTG
Found at i:16100116 original size:17 final size:17
Alignment explanation
Indices: 16100074--16100116 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16100064 AGATGAACTA
*
16100074 ACAAGTAAAATGCAACG
1 ACAAATAAAATGCAACG
* *
16100091 AAAAATAAAATGCAATG
1 ACAAATAAAATGCAACG
*
16100108 ACAATTAAA
1 ACAAATAAA
16100117 TGAGATGCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (17 bp):
ACAAATAAAATGCAACG
Found at i:16105373 original size:17 final size:17
Alignment explanation
Indices: 16105348--16105391 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16105338 CATGCATTTC
16105348 TTTTAATTGTCATTGCA
1 TTTTAATTGTCATTGCA
* *
16105365 TTTTTATTGTCTTTGCA
1 TTTTAATTGTCATTGCA
*
16105382 TTTTATTTGT
1 TTTTAATTGT
16105392 TCTAGCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (17 bp):
TTTTAATTGTCATTGCA
Found at i:16110088 original size:2 final size:2
Alignment explanation
Indices: 16110049--16110074 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16110039 TGATTAGATA
16110049 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16110075 GTTTTTTATA
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):
AT
Found at i:16112305 original size:25 final size:25
Alignment explanation
Indices: 16112277--16112357 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 25
16112267 CAAGAAGATG
* * *
16112277 AAAAGTTTAAGGAAGATGGAAGGTT
1 AAAAGGTTAAAGAAGATGAAAGGTT
16112302 AAAAGGTTAAAGAAGATGAAAGG-T
1 AAAAGGTTAAAGAAGATGAAAGGTT
* * * *
16112326 GAAAGGTCAAAGGAGATAAAAGG-T
1 AAAAGGTTAAAGAAGATGAAAGGTT
*
16112350 GAAAGGTT
1 AAAAGGTT
16112358 GAACATCCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 28 0.58
25 20 0.42
ACGTcount: A:0.48, C:0.01, G:0.32, T:0.19
Consensus pattern (25 bp):
AAAAGGTTAAAGAAGATGAAAGGTT
Found at i:16112337 original size:24 final size:24
Alignment explanation
Indices: 16112288--16112356 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
16112278 AAAGTTTAAG
* * *
16112288 GAAGATGGAAGGTTAAAAGGTTAAA
1 GAAGATGAAAGG-TGAAAGGTCAAA
16112313 GAAGATGAAAGGTGAAAGGTCAAA
1 GAAGATGAAAGGTGAAAGGTCAAA
* *
16112337 GGAGATAAAAGGTGAAAGGT
1 GAAGATGAAAGGTGAAAGGT
16112357 TGAACATCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 28 0.72
25 11 0.28
ACGTcount: A:0.48, C:0.01, G:0.35, T:0.16
Consensus pattern (24 bp):
GAAGATGAAAGGTGAAAGGTCAAA
Found at i:16114354 original size:25 final size:25
Alignment explanation
Indices: 16114326--16114404 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
16114316 CTTCTATTGG
16114326 ATATTGATTAGAATAAGGTGTTTCA
1 ATATTGATTAGAATAAGGTGTTTCA
* * * * *
16114351 ATATT-ATTA-CATTA-TTTTTATTA
1 ATATTGATTAGAATAAGGTGTT-TCA
16114374 GATATTGATTAGAATAAGGTGTTTCA
1 -ATATTGATTAGAATAAGGTGTTTCA
16114400 ATATT
1 ATATT
16114405 ACTACATTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 3 0.08
23 5 0.13
24 9 0.23
25 14 0.36
26 5 0.13
27 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (25 bp):
ATATTGATTAGAATAAGGTGTTTCA
Found at i:16114449 original size:49 final size:49
Alignment explanation
Indices: 16114320--16114439 Score: 222
Period size: 49 Copynumber: 2.4 Consensus size: 49
16114310 ACACTTCTTC
* *
16114320 TATTGGATATTGATTAGAATAAGGTGTTTCAATATTATTACATTATTTT
1 TATTAGATATTGATTAGAATAAGGTGTTTCAATATTACTACATTATTTT
16114369 TATTAGATATTGATTAGAATAAGGTGTTTCAATATTACTACATTATTTT
1 TATTAGATATTGATTAGAATAAGGTGTTTCAATATTACTACATTATTTT
16114418 TATTAGATATTGATTAGAATAA
1 TATTAGATATTGATTAGAATAA
16114440 AATTTTTCAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (49 bp):
TATTAGATATTGATTAGAATAAGGTGTTTCAATATTACTACATTATTTT
Found at i:16122962 original size:298 final size:299
Alignment explanation
Indices: 16122425--16123022 Score: 1002
Period size: 298 Copynumber: 2.0 Consensus size: 299
16122415 GGAAGTCAAA
16122425 AAGGAGTGTCATGACTTGAGATGGACTGGTCATCCAAGGATGCACCACACGTTGGCCCTTTTGGA
1 AAGGAGTGTCATGACTTGAGATGGACTGGTCATCCAAGGATGCACCACACGTTGGCCCTTTTGGA
* *
16122490 GGATCGTTACTATTAGCCTCACATGAGGAATGATGTGGAGACTTATATGAGAACTTATCATGTGT
66 GGATCGTTACTATTAGCCTCAAATAAGGAATGATGTGGAGACTTATATGAGAACTTATCATGTGT
*
16122555 GCCAATAAGACAAGGTGGAGTTAAAGGATCCAGTGGGTTTGTTACAACCATTTCCCATTCCGAAA
131 GCCAATAAGACAAGGTGGAGTTAAAGGATCCAGTGGGTTTGTTACAACCATTGCCCATTCCGAAA
* *
16122620 TGACCATGGGCAAGTGTATCCATGGATTTGATAGTGGGTTTGCCTAAGTTTAATAGATTTGGAAA
196 TGACCATGGGCAAGTGTATCCATGGATTTGATAGTGGGTTTGCCTAAGTCTAACAGATTTGGAAA
*
16122685 CATTTTTGTTGTGGTAGATAGGTTTTCCAAGTATGAAAC
261 CATTCTTGTTGTGGTAGATAGGTTTTCCAAGTATGAAAC
* * *
16122724 AAGGAGTGTCATGACTTGAGATGGACTGGTTATCCAGGGATGCACCACACGTTGGCCCTTTT-GT
1 AAGGAGTGTCATGACTTGAGATGGACTGGTCATCCAAGGATGCACCACACGTTGGCCCTTTTGGA
* * * *
16122788 GGATTGTTACTATTAGCCTCAAATAAGGAATGATGTGGAGACTTATGTGAGAACTTGTTGA-GTG
66 GGATCGTTACTATTAGCCTCAAATAAGGAATGATGTGGAGACTTATATGAGAACTT-ATCATGTG
* * *
16122852 TGCCAATAAGACAATGTGGAGTTAAAGGATCCGGTGGGTTTGTTACAACCATTGCCCATTCCGGA
130 TGCCAATAAGACAAGGTGGAGTTAAAGGATCCAGTGGGTTTGTTACAACCATTGCCCATTCCGAA
*
16122917 ATGACCATGGGCAAGTGTATCCATGGATTTTATAGTGGGTTTGCCTAAGTCTAACAGATTTGGAA
195 ATGACCATGGGCAAGTGTATCCATGGATTTGATAGTGGGTTTGCCTAAGTCTAACAGATTTGGAA
* *
16122982 GCATTCTTGTTTTGGTAGATAGGTTTTCCAAGTATGAAAC
260 ACATTCTTGTTGTGGTAGATAGGTTTTCCAAGTATGAAAC
16123022 A
1 A
16123023 TTCATTCCAG
Statistics
Matches: 279, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
298 217 0.78
299 62 0.22
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (299 bp):
AAGGAGTGTCATGACTTGAGATGGACTGGTCATCCAAGGATGCACCACACGTTGGCCCTTTTGGA
GGATCGTTACTATTAGCCTCAAATAAGGAATGATGTGGAGACTTATATGAGAACTTATCATGTGT
GCCAATAAGACAAGGTGGAGTTAAAGGATCCAGTGGGTTTGTTACAACCATTGCCCATTCCGAAA
TGACCATGGGCAAGTGTATCCATGGATTTGATAGTGGGTTTGCCTAAGTCTAACAGATTTGGAAA
CATTCTTGTTGTGGTAGATAGGTTTTCCAAGTATGAAAC
Found at i:16127767 original size:3 final size:3
Alignment explanation
Indices: 16127759--16127863 Score: 174
Period size: 3 Copynumber: 35.0 Consensus size: 3
16127749 AGTAATGACT
16127759 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
16127807 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16127855 TTA TTA TTA
1 TTA TTA TTA
16127864 AACATAGTCT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 100 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:16130496 original size:11 final size:11
Alignment explanation
Indices: 16130480--16130514 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
16130470 GTTCGTGAAC
16130480 ATGTTCGTTTA
1 ATGTTCGTTTA
16130491 ATGTTCGTTTA
1 ATGTTCGTTTA
*
16130502 TATGTTCATTTA
1 -ATGTTCGTTTA
16130514 A
1 A
16130515 CATTCGCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (11 bp):
ATGTTCGTTTA
Found at i:16130506 original size:12 final size:12
Alignment explanation
Indices: 16130464--16130513 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
16130454 ACATGTTCAC
16130464 TTATATGTTCGT
1 TTATATGTTCGT
** *
16130476 GAACATGTTCGT
1 TTATATGTTCGT
16130488 TTA-ATGTTCGT
1 TTATATGTTCGT
*
16130499 TTATATGTTCAT
1 TTATATGTTCGT
16130511 TTA
1 TTA
16130514 ACATTCGCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATATGTTCGT
Found at i:16130581 original size:24 final size:24
Alignment explanation
Indices: 16130446--16130583 Score: 88
Period size: 24 Copynumber: 6.0 Consensus size: 24
16130436 TTCTTTTATC
* *
16130446 GTTCACGAACATGTTCACTTATAT
1 GTTCGCGAACATGTTCATTTATAT
* *
16130470 GTTCGTGAACATGTTCGTTTA-AT
1 GTTCGCGAACATGTTCATTTATAT
*** * *
16130493 GTTCGTTTATATGTTCATTTA-AC
1 GTTCGCGAACATGTTCATTTATAT
* * * **
16130516 ATTCGCGAACATCTTC--GT-TGC
1 GTTCGCGAACATGTTCATTTATAT
* *
16130537 GTTCGCGAACATGTTTATTTATGT
1 GTTCGCGAACATGTTCATTTATAT
*
16130561 GTTCGCGAACATGTTCGTTTATA
1 GTTCGCGAACATGTTCATTTATA
16130584 ACTAACCAAA
Statistics
Matches: 85, Mismatches: 25, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
21 15 0.18
23 31 0.36
24 39 0.46
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.42
Consensus pattern (24 bp):
GTTCGCGAACATGTTCATTTATAT
Found at i:16133784 original size:21 final size:20
Alignment explanation
Indices: 16133758--16133830 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
16133748 TAGGGTTCGA
16133758 GTTTAAGGTTTAAGAGTTTGG
1 GTTTAAGGTTTAAG-GTTTGG
* *
16133779 GTTTAA-GTTTCAGGTTTTGA
1 GTTTAAGGTTTAAGG-TTTGG
* ***
16133799 GTTTTAGGTTTTATTTTTTGG
1 GTTTAAGG-TTTAAGGTTTGG
16133820 GTTTAAGGTTT
1 GTTTAAGGTTT
16133831 TGGATTCTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 18 0.45
21 18 0.45
22 3 0.08
ACGTcount: A:0.18, C:0.01, G:0.27, T:0.53
Consensus pattern (20 bp):
GTTTAAGGTTTAAGGTTTGG
Found at i:16133831 original size:21 final size:21
Alignment explanation
Indices: 16133758--16133831 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
16133748 TAGGGTTCGA
*
16133758 GTTTAAGGTTTAAGAG-TTTGG
1 GTTTAAGGTTTTAG-GTTTTGG
* *
16133779 GTTTAA-GTTTCAGGTTTTGA
1 GTTTAAGGTTTTAGGTTTTGG
* **
16133799 GTTTTAGGTTTTATTTTTTGG
1 GTTTAAGGTTTTAGGTTTTGG
16133820 GTTTAAGGTTTT
1 GTTTAAGGTTTT
16133832 GGATTCTAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 15 0.35
21 27 0.63
ACGTcount: A:0.18, C:0.01, G:0.27, T:0.54
Consensus pattern (21 bp):
GTTTAAGGTTTTAGGTTTTGG
Found at i:16134564 original size:30 final size:30
Alignment explanation
Indices: 16134520--16134578 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
16134510 ACACTCAAGG
* * * *
16134520 CACACGCCCGTGTGGGTTGCCTATGTGCAC
1 CACAAGCCCATGTGGGTTCCCCATGTGCAC
16134550 CACAAGCCCATGTGGGTTCCCCATGTGCA
1 CACAAGCCCATGTGGGTTCCCCATGTGCA
16134579 GGCTATTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (30 bp):
CACAAGCCCATGTGGGTTCCCCATGTGCAC
Found at i:16135470 original size:41 final size:41
Alignment explanation
Indices: 16135417--16135587 Score: 177
Period size: 41 Copynumber: 4.2 Consensus size: 41
16135407 AGCTAGGCAT
* *
16135417 AAGGCCCGATACAGTACATCGA-CATAAAGCTTGATAGGCTC
1 AAGGCCCAATACAGTACA-CGAGCATAAAGCCTGATAGGCTC
* * *
16135458 GAGGCCCAATACAGTACACTAGCATAAAGCCTGCTAGGCTC
1 AAGGCCCAATACAGTACACGAGCATAAAGCCTGATAGGCTC
* * * *
16135499 AAGGCCTAATATAGTACACTG-GCATAAAGCCTGCTAAGCTC
1 AAGGCCCAATACAGTACAC-GAGCATAAAGCCTGATAGGCTC
* * * *
16135540 GAGGCCTAATACAGTACACAAGCATAAAGCAT-ACTAGGCTC
1 AAGGCCCAATACAGTACACGAGCATAAAGCCTGA-TAGGCTC
16135581 AAGGCCC
1 AAGGCCC
16135588 GAATCATTAC
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.02
41 106 0.98
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (41 bp):
AAGGCCCAATACAGTACACGAGCATAAAGCCTGATAGGCTC
Found at i:16135504 original size:82 final size:82
Alignment explanation
Indices: 16135402--16135589 Score: 236
Period size: 82 Copynumber: 2.3 Consensus size: 82
16135392 CACCAACACG
* * *
16135402 AAGCCAGCTAGGCAT-AAGGCCCGATACAGTACA-TCGACATAAAGCTTGATAGGCTCGAGGCCC
1 AAGCCTGCTAGGC-TCAAGGCCCGATACAGTACACT-GACATAAAGCCTGATAAGCTCGAGGCCC
*
16135465 AATACAGTACACTAGCATA
64 AATACAGTACACAAGCATA
** * * * *
16135484 AAGCCTGCTAGGCTCAAGGCCTAATATAGTACACTGGCATAAAGCCTGCTAAGCTCGAGGCCTAA
1 AAGCCTGCTAGGCTCAAGGCCCGATACAGTACACTGACATAAAGCCTGATAAGCTCGAGGCCCAA
16135549 TACAGTACACAAGCATA
66 TACAGTACACAAGCATA
* *
16135566 AAGCATACTAGGCTCAAGGCCCGA
1 AAGCCTGCTAGGCTCAAGGCCCGA
16135590 ATCATTACGC
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 1 0.01
82 88 0.98
83 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.18
Consensus pattern (82 bp):
AAGCCTGCTAGGCTCAAGGCCCGATACAGTACACTGACATAAAGCCTGATAAGCTCGAGGCCCAA
TACAGTACACAAGCATA
Found at i:16138648 original size:41 final size:41
Alignment explanation
Indices: 16138602--16138742 Score: 142
Period size: 41 Copynumber: 3.4 Consensus size: 41
16138592 GGCACGGAGA
*
16138602 CTGCTAGGCACAAGGCCCGATACAATACA-CTGACATAAAGC
1 CTGCTAGGCACAAGGCCCGATACAATACACCAG-CATAAAGC
* * * *
16138643 TTGCTAAGCTCGAGGCCCGATACAATACACCAGCATAAAGC
1 CTGCTAGGCACAAGGCCCGATACAATACACCAGCATAAAGC
*** *
16138684 CTGCTAGGCTTGAGGCCTGATA-AATTACACCAGCATAAAGC
1 CTGCTAGGCACAAGGCCCGATACAA-TACACCAGCATAAAGC
* * *
16138725 CTACTACGCTCAAGGCCC
1 CTGCTAGGCACAAGGCCC
16138743 AAATCATTAC
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 2 0.02
41 80 0.95
42 2 0.02
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.18
Consensus pattern (41 bp):
CTGCTAGGCACAAGGCCCGATACAATACACCAGCATAAAGC
Found at i:16141654 original size:19 final size:19
Alignment explanation
Indices: 16141621--16141680 Score: 86
Period size: 20 Copynumber: 3.2 Consensus size: 19
16141611 AAATATTAGA
*
16141621 ATTTTTATAAA-TATTTTG
1 ATTTTTAAAAATTATTTTG
*
16141639 ATTTTTAAAAATTATTTTAA
1 ATTTTTAAAAATTATTTT-G
16141659 ATTTTTAAAAATTATTTTG
1 ATTTTTAAAAATTATTTTG
16141678 ATT
1 ATT
16141681 ATTTTGTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.27
19 9 0.24
20 18 0.49
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:16142363 original size:2 final size:2
Alignment explanation
Indices: 16142351--16142434 Score: 159
Period size: 2 Copynumber: 41.5 Consensus size: 2
16142341 AAGAACGAGC
16142351 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16142394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16142435 AACAAGGTAC
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 79 0.98
3 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16147584 original size:22 final size:23
Alignment explanation
Indices: 16147558--16147603 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
16147548 GTTATAATTG
* *
16147558 AATTATTATATATTTAAA-TAAT
1 AATTATAACATATTTAAATTAAT
16147580 AATTATAACATATTTAAATTAAT
1 AATTATAACATATTTAAATTAAT
16147603 A
1 A
16147604 TATACAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTATAACATATTTAAATTAAT
Found at i:16148252 original size:28 final size:29
Alignment explanation
Indices: 16148220--16148274 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
16148210 AGCAATTTCA
16148220 TTTTTTT-CCTT-TT-ATGTTCTTTTAACT
1 TTTTTTTCCCTTCTTCAT-TTCTTTTAACT
16148247 TTTTTTTCCCTTCTTCATTTCTTTTAAC
1 TTTTTTTCCCTTCTTCATTTCTTTTAAC
16148275 GTAGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.28
28 4 0.16
29 12 0.48
30 2 0.08
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTTTTCCCTTCTTCATTTCTTTTAACT
Found at i:16148948 original size:11 final size:11
Alignment explanation
Indices: 16148926--16148964 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
16148916 TACCAAATAG
16148926 TAATTAAACTAT
1 TAATT-AACTAT
16148938 TAATTAACTAT
1 TAATTAACTAT
*
16148949 TAATTAATTAT
1 TAATTAACTAT
16148960 TAATT
1 TAATT
16148965 TTTTTTGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (11 bp):
TAATTAACTAT
Found at i:16149197 original size:15 final size:15
Alignment explanation
Indices: 16149171--16149217 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
16149161 CTGTATAGTA
16149171 TATATATCATATGAT
1 TATATATCATATGAT
16149186 TATAT-TCAATAT-AT
1 TATATATC-ATATGAT
16149200 ATATATATCATATGAT
1 -TATATATCATATGAT
16149216 TA
1 TA
16149218 CTTCTCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (15 bp):
TATATATCATATGAT
Found at i:16149958 original size:23 final size:25
Alignment explanation
Indices: 16149932--16149977 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16149922 CCAATTAAGG
16149932 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
16149955 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
16149978 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:16153954 original size:9 final size:9
Alignment explanation
Indices: 16153942--16154029 Score: 52
Period size: 9 Copynumber: 9.7 Consensus size: 9
16153932 GTTTTTTTGT
16153942 AATTTTTAC
1 AATTTTTAC
16153951 AATTTTTAAC
1 AATTTTT-AC
* *
16153961 AATTTATAT
1 AATTTTTAC
** *
16153970 AATCTACTAT
1 AAT-TTTTAC
*
16153980 AATTTCTAC
1 AATTTTTAC
*
16153989 AATTTATA-
1 AATTTTTAC
* *
16153997 ATTTTTTAT
1 AATTTTTAC
* *
16154006 AGTTTTTAT
1 AATTTTTAC
16154015 AATTTTTAC
1 AATTTTTAC
16154024 AATTTT
1 AATTTT
16154030 AAAAAGTTCA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
8 6 0.09
9 43 0.67
10 15 0.23
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (9 bp):
AATTTTTAC
Found at i:16155203 original size:44 final size:44
Alignment explanation
Indices: 16155075--16155203 Score: 231
Period size: 44 Copynumber: 2.9 Consensus size: 44
16155065 GGTTTAGGGT
* *
16155075 TTAGATGTATTAAAATAAATTTGGAACAAACATAGTAATTCAAA
1 TTAGATGTATTAAAATAAACTTGGAACAAACATAGTAATTTAAA
16155119 TTAGATGTATTAAAATAAACTTGGAACAAACATAGTAATTTAAA
1 TTAGATGTATTAAAATAAACTTGGAACAAACATAGTAATTTAAA
*
16155163 TTAGATGTATTAAAATAAACTTGGAACAAACATATTAATTT
1 TTAGATGTATTAAAATAAACTTGGAACAAACATAGTAATTT
16155204 CATCATTGAG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (44 bp):
TTAGATGTATTAAAATAAACTTGGAACAAACATAGTAATTTAAA
Found at i:16158032 original size:3 final size:3
Alignment explanation
Indices: 16158026--16158054 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16158016 AATAATTAAA
16158026 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
16158055 ATTACCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:16160233 original size:38 final size:38
Alignment explanation
Indices: 16160185--16160264 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
16160175 TATCCCCGTT
* * * *
16160185 TTTATTAAAAATTATAA-ATCA-ATAAAAATTATTAAAT
1 TTTAATAAAAAATATAATAT-ATATAAAAATTATAAAAA
*
16160222 TTTAATAAAAAATATAATATATTTAAAAATTATAAAAA
1 TTTAATAAAAAATATAATATATATAAAAATTATAAAAA
16160260 TTTAA
1 TTTAA
16160265 AATTTTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 16 0.44
38 20 0.56
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (38 bp):
TTTAATAAAAAATATAATATATATAAAAATTATAAAAA
Found at i:16160256 original size:27 final size:27
Alignment explanation
Indices: 16160189--16160346 Score: 99
Period size: 28 Copynumber: 5.7 Consensus size: 27
16160179 CCCGTTTTTA
*
16160189 TTAAAAATTATAAATCAATA-AAAAT-T
1 TTAAAAATTATAAA-AAATATAAAATAT
** *
16160215 ATTAAATTTTAATAAAAAATATAATATAT
1 -TTAAAAATT-ATAAAAAATATAAAATAT
* *
16160244 TTAAAAATTAT-AAAAATTTAAAATTT
1 TTAAAAATTATAAAAAATATAAAATAT
* *
16160270 TATAAAAATCATAAAAATTTATAAAATAT
1 T-TAAAAATTATAAAAA-ATATAAAATAT
* * *
16160299 ATACAAATATAGAAAAAAATATAAAAT-T
1 TTAAAAAT-TA-TAAAAAATATAAAATAT
*
16160327 TTATAAAATTGTAAGAAAAT
1 TTA-AAAATTATAA-AAAAT
16160347 TATACAACAT
Statistics
Matches: 99, Mismatches: 22, Indels: 19
0.71 0.16 0.14
Matches are distributed among these distances:
26 13 0.13
27 24 0.24
28 35 0.35
29 22 0.22
30 5 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
TTAAAAATTATAAAAAATATAAAATAT
Found at i:16160257 original size:9 final size:9
Alignment explanation
Indices: 16160206--16160295 Score: 67
Period size: 9 Copynumber: 9.7 Consensus size: 9
16160196 TTATAAATCA
16160206 ATAAAAATT
1 ATAAAAATT
**
16160215 ATTAAATTTT
1 A-TAAAAATT
*
16160225 AATAAAAAAT
1 -ATAAAAATT
*
16160235 ATAATATATT
1 ATAA-AAATT
16160245 -TAAAAATT
1 ATAAAAATT
16160253 ATAAAAATT
1 ATAAAAATT
*
16160262 -TAAAATTTT
1 ATAAAA-ATT
*
16160271 ATAAAAATC
1 ATAAAAATT
16160280 ATAAAAATTT
1 ATAAAAA-TT
16160290 ATAAAA
1 ATAAAA
16160296 TATATACAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
8 9 0.15
9 26 0.42
10 26 0.42
11 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAAAAATT
Found at i:16160284 original size:19 final size:18
Alignment explanation
Indices: 16160251--16160334 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 18
16160241 TATTTAAAAA
*
16160251 TTATAAAAATTTAAAATT
1 TTATAAAAATATAAAATT
*
16160269 TTATAAAAATCATAAAAAT
1 TTATAAAAAT-ATAAAATT
16160288 TTATAAAATATATACAAATAT
1 TTATAAAA-ATATA-AAAT-T
** *
16160309 AGAAAAAAATATAAAATT
1 TTATAAAAATATAAAATT
16160327 TTATAAAA
1 TTATAAAA
16160335 TTGTAAGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
18 16 0.30
19 21 0.40
20 10 0.19
21 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (18 bp):
TTATAAAAATATAAAATT
Found at i:16160296 original size:9 final size:9
Alignment explanation
Indices: 16160242--16160336 Score: 52
Period size: 10 Copynumber: 10.3 Consensus size: 9
16160232 AATATAATAT
16160242 ATTTA-AAA
1 ATTTATAAA
16160250 A-TTATAAAA
1 ATTTAT-AAA
16160259 ATTTA-AAA
1 ATTTATAAA
*
16160267 TTTTATAAA
1 ATTTATAAA
* *
16160276 AATCATAAAA
1 ATTTAT-AAA
16160286 ATTTATAAA
1 ATTTATAAA
*
16160295 ATATATACAA
1 ATTTATA-AA
* *
16160305 ATATAGAAAA
1 ATTTA-TAAA
**
16160315 AAATATAAA
1 ATTTATAAA
16160324 ATTTTATAAA
1 A-TTTATAAA
16160334 ATT
1 ATT
16160337 GTAAGAAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
7 3 0.04
8 8 0.12
9 25 0.37
10 30 0.45
11 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (9 bp):
ATTTATAAA
Found at i:16160349 original size:19 final size:18
Alignment explanation
Indices: 16160327--16160391 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
16160317 ATATAAAATT
16160327 TTATAAAATTGTAAGAAAA
1 TTATAAAATTGTAA-AAAA
*
16160346 TTATACAACA-TGTAAAGAA
1 TTATA-AA-ATTGTAAAAAA
*
16160365 GTATAAAATTCGTAAAAAA
1 TTATAAAATT-GTAAAAAA
16160384 TTATAAAA
1 TTATAAAA
16160392 ATTTTCATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 26 0.68
20 7 0.18
21 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.29
Consensus pattern (18 bp):
TTATAAAATTGTAAAAAA
Found at i:16160627 original size:29 final size:29
Alignment explanation
Indices: 16160576--16160658 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
16160566 TTTGATGCAT
*
16160576 TTTATAATTTTTTTTCTAATTTTTAATAAAA
1 TTTATAA-TTTTTTTAT-ATTTTTAATAAAA
*
16160607 TTTA-AATATTTTTTATATTTTTATTAAAA
1 TTTATAAT-TTTTTTATATTTTTAATAAAA
*
16160636 TTTAGTAATTTTTATATATTTTT
1 TTTA-TAATTTTTTTATATTTTT
16160659 CTAGTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
29 17 0.37
30 22 0.48
31 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTATAATTTTTTTATATTTTTAATAAAA
Found at i:16160648 original size:28 final size:29
Alignment explanation
Indices: 16160594--16160657 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
16160584 TTTTTTTCTA
*
16160594 ATTTTTAATAAAATTTAAATATTTTTTAT
1 ATTTTTAATAAAATTTAAATAATTTTTAT
* *
16160623 ATTTTTATTAAAATTT-AGTAATTTTTAT
1 ATTTTTAATAAAATTTAAATAATTTTTAT
16160651 ATATTTT
1 AT-TTTT
16160658 TCTAGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTAATAAAATTTAAATAATTTTTAT
Found at i:16161910 original size:19 final size:19
Alignment explanation
Indices: 16161883--16161922 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16161873 TCGGGGTCTC
*
16161883 AGTTTGCATATACCCAAGG
1 AGTTCGCATATACCCAAGG
16161902 AGTTCGCATATACCCAAGG
1 AGTTCGCATATACCCAAGG
16161921 AG
1 AG
16161923 ATCTAGCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (19 bp):
AGTTCGCATATACCCAAGG
Found at i:16163493 original size:15 final size:15
Alignment explanation
Indices: 16163473--16163502 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16163463 CATTAGTTTG
*
16163473 ATTTTCTCTTTCCTC
1 ATTTTCTCTCTCCTC
16163488 ATTTTCTCTCTCCTC
1 ATTTTCTCTCTCCTC
16163503 CGGCATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTCTCTCTCCTC
Found at i:16163764 original size:14 final size:13
Alignment explanation
Indices: 16163731--16163770 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
16163721 TTTATCTTTA
16163731 ATTA-AATAAAAT
1 ATTATAATAAAAT
16163743 A-T-TAATAAATAT
1 ATTATAATAAA-AT
16163755 ATTATAATAAAAT
1 ATTATAATAAAAT
16163768 ATT
1 ATT
16163771 CAACCAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 7 0.29
12 4 0.17
13 6 0.25
14 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATAATAAAAT
Found at i:16164530 original size:21 final size:21
Alignment explanation
Indices: 16164506--16164557 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16164496 TGTGATAGTT
*
16164506 CTACTGATACAAG-TATAACTG
1 CTACCGATACAAGTTAT-ACTG
* *
16164527 CTACCGAAACAAGTTATACTT
1 CTACCGATACAAGTTATACTG
16164548 CTACCGATAC
1 CTACCGATAC
16164558 TAAAAACTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTTATACTG
Found at i:16169592 original size:3 final size:3
Alignment explanation
Indices: 16169584--16169624 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16169574 CTACTTACAT
16169584 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16169625 GCGAACTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16171761 original size:41 final size:43
Alignment explanation
Indices: 16171704--16171792 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
16171694 TTGATAAATT
*
16171704 GTTTACGAGAC-AAAAAAAATG-AGGTAGGTGATGATTTAAAG
1 GTTTACGAGACAAAAAAAAAGGTAGGTAGGTGATGATTTAAAG
*
16171745 GTTTACGAGACAAAAAAAAAGGTAGGTAGGTGATGATTTGAAG
1 GTTTACGAGACAAAAAAAAAGGTAGGTAGGTGATGATTTAAAG
16171788 GTTTA
1 GTTTA
16171793 ATCTAATTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 11 0.25
42 9 0.20
43 24 0.55
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.26
Consensus pattern (43 bp):
GTTTACGAGACAAAAAAAAAGGTAGGTAGGTGATGATTTAAAG
Found at i:16174704 original size:14 final size:14
Alignment explanation
Indices: 16174695--16174723 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16174685 GCTTAATTTA
16174695 ATTTAATTAATATT
1 ATTTAATTAATATT
16174709 ATTTAATT-ATATT
1 ATTTAATTAATATT
16174722 AT
1 AT
16174724 ATATTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTAATTAATATT
Found at i:16174722 original size:19 final size:20
Alignment explanation
Indices: 16174690--16174728 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16174680 AAATTGCTTA
16174690 ATTTAATTTAATTA-ATATT
1 ATTTAATTTAATTATATATT
16174709 ATTTAA-TTATATTATATATT
1 ATTTAATTTA-ATTATATATT
16174729 TTGAAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 10 0.56
20 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTAATTTAATTATATATT
Found at i:16176048 original size:23 final size:22
Alignment explanation
Indices: 16176013--16176087 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
16176003 ACAAAGTACT
16176013 GAGCACACAAAGTGCTAATCAGA
1 GAGCACA-AAAGTGCTAATCAGA
* *
16176036 GAGCACATGAAGTGTTAATAACAGA
1 GAGCACA-AAAGTGCTAAT--CAGA
* * *
16176061 TAGCACACACAGTGCTAAACAGA
1 GAGCACA-AAAGTGCTAATCAGA
16176084 GAGC
1 GAGC
16176088 GCGCTAGTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
23 23 0.57
25 17 0.43
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (22 bp):
GAGCACAAAAGTGCTAATCAGA
Found at i:16178156 original size:24 final size:25
Alignment explanation
Indices: 16178103--16178156 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
16178093 CTCAAATGCA
16178103 TCCTCCATCCCCTCATGTATCACCC
1 TCCTCCATCCCCTCATGTATCACCC
*
16178128 ACCTCCA-CCACCT-ATGTATC-CTCC
1 TCCTCCATCC-CCTCATGTATCAC-CC
16178152 TCCTC
1 TCCTC
16178157 AAATAAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 15 0.60
25 9 0.36
ACGTcount: A:0.17, C:0.52, G:0.04, T:0.28
Consensus pattern (25 bp):
TCCTCCATCCCCTCATGTATCACCC
Found at i:16182977 original size:10 final size:10
Alignment explanation
Indices: 16182964--16183002 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
16182954 AATTATAAAA
*
16182964 AATAAAAATC
1 AATAAAAATT
16182974 AATAAAAATT
1 AATAAAAATT
* *
16182984 ATTAAATATT
1 AATAAAAATT
16182994 AATAAAAAT
1 AATAAAAAT
16183003 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAAAAATT
Found at i:16183323 original size:92 final size:89
Alignment explanation
Indices: 16183137--16183381 Score: 339
Period size: 92 Copynumber: 2.7 Consensus size: 89
16183127 AGGGACGATC
* * * * *
16183137 CAAGTACCCAATTGAATGCAAA-AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG
1 CAAGTACCCAATTGAGTGAAAATAAAAGCAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGG
*
16183201 TCTTTTTGATACATTTTAAAAGTT
66 TCTTTTTGATACATATTAAAAGTT
*
16183225 CAAGTACCCAATTGAGTGAAAATAAAAGCAGTGGCTTAATTGCTTGTTTTTGGAAAAAGTTTGAA
1 CAAGTACCCAATTGAGTGAAAATAAAAGCAGAGGCTTAATTGCTT-TTTTT-GAAAAAGTTTGAA
* *
16183290 GGTCTTTTTTTATGCATATTAAAAGTT
64 GGTC-TTTTTGATACATATTAAAAGTT
* * *
16183317 CAAGTACTCAATTGAGTGCAAAATAAAAGCAGAGGCTTAATTACTTTTTTTGAAAAAATTTGAAG
1 CAAGTACCCAATTGAGTG-AAAATAAAAGCAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAG
16183382 ATTTTTTATA
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
88 20 0.14
89 20 0.14
90 5 0.04
91 29 0.21
92 41 0.29
93 25 0.18
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (89 bp):
CAAGTACCCAATTGAGTGAAAATAAAAGCAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGG
TCTTTTTGATACATATTAAAAGTT
Found at i:16183842 original size:12 final size:11
Alignment explanation
Indices: 16183816--16183841 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16183806 GAAGTATAAT
16183816 AAAATATTTAA
1 AAAATATTTAA
16183827 AAAATATTTAA
1 AAAATATTTAA
16183838 AAAA
1 AAAA
16183842 AGAGACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:16185498 original size:21 final size:20
Alignment explanation
Indices: 16185468--16185507 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16185458 ATATAAATAG
* *
16185468 AAATAGAAATGAGAGTAAAC
1 AAATAGAAATAAGAATAAAC
16185488 AAATATGAAATAAGAATAAA
1 AAATA-GAAATAAGAATAAA
16185508 TAAAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.17
Consensus pattern (20 bp):
AAATAGAAATAAGAATAAAC
Found at i:16186162 original size:50 final size:50
Alignment explanation
Indices: 16186108--16186323 Score: 162
Period size: 50 Copynumber: 4.4 Consensus size: 50
16186098 AATACTTTAC
*
16186108 TTAAAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAAATTTG
1 TTAAAAATTTAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAAATTTG
* ** ***
16186158 TTAAAAATTTAAACTTTT-TCTTTAAAATAACTAAAAAACAT-ATTTTTATTT-
1 TTAAAAATTTAAACTTTTAT-TTTGAAATAGTTAAAAAA-ATCA--AAAATTTG
* * * ** *
16186209 TTTAAAATCTAAACTTTCTCTTTT----T--TTAAAGAAAATCACTATTTTG
1 TTAAAAATTTAAACTTT-TATTTTGAAATAGTTAAA-AAAATCAAAAATTTG
* * *
16186255 CTTAAAAATTTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTG
1 -TTAAAAATTTAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAAATTTG
16186306 TTAAAAATTTAAACTTTT
1 TTAAAAATTTAAACTTTT
16186324 TCTTTAAAAT
Statistics
Matches: 128, Mismatches: 22, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
45 4 0.03
46 10 0.08
47 18 0.14
48 1 0.01
49 1 0.01
50 51 0.40
51 29 0.23
52 13 0.10
53 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (50 bp):
TTAAAAATTTAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAAATTTG
Found at i:16186320 original size:148 final size:147
Alignment explanation
Indices: 16186092--16186889 Score: 1129
Period size: 148 Copynumber: 5.4 Consensus size: 147
16186082 TGATTAAACA
* * * * *
16186092 AAAATCAATACTTTACTTAAAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAAATTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
*
16186157 GTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTTAAAATCTAAA
66 GTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTA-TTTTTAAAATATAAA
16186222 CTTTCTCTTTTTTTAAAG
130 CTTTCTCTTTTTTTAAAG
* ** *
16186240 AAAATCACTATTTTGCTTAAAAATTTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
16186305 GTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAATATATAAA
66 GTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAA-ATATAAA
16186370 CTTTCTC-TTTTTTAAAG
130 CTTTCTCTTTTTTTAAAG
* * * *
16186387 AAAATTATTATTTTACTTCAAAATCCAAACTTTTATTTAGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
*** *
16186452 TGTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATGGATTTTTATTTTAAAAATATAAA
65 TGTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAATATAAA
16186517 C-TT-TCTTTTTTTAAAG
130 CTTTCTCTTTTTTTAAAG
16186533 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAGAAAAATCAAAACTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAA-AAAAATCAAAACTT
* *
16186598 TATTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAAAATAGATTTTTATTTTTAAAAATA
65 TGTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAAACAT--ATTTTTATTTTT-AAAATA
16186663 TAAACTTTCTCTTTTTTTTTAAAG
126 TAAACTTTCTC--TTTTTTTAAAG
*
16186687 AAAATCACTATTTTACCTAAAAATCCAAACTTTTATTTCGAAATAGTT--AAAAATCAAAACTTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* * *
16186750 GTTAAAAAATTAAACTTTTTCTTTAAAATAACTAGAAAACATATTTTTATTTTTAAAATCTAAAC
66 GTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAATATAAAC
16186815 TTTCT-TTTTTTT----
131 TTTCTCTTTTTTTAAAG
* *
16186827 ---ATCACTATTTTACTTTAAAAAAT-CAAATCTTTTATTTCGAAATTGTTTTAAAAAAACCAAA
1 AAAATCACTATTTTAC-TT-AAAAATCCAAA-CTTTTATTTCGAAATAG--TTAAAAAAATCAAA
16186888 AC
61 AC
16186890 ATTTCCCAAA
Statistics
Matches: 593, Mismatches: 38, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
137 13 0.02
138 5 0.01
139 22 0.04
141 2 0.00
143 11 0.02
144 7 0.01
145 4 0.01
146 103 0.17
147 87 0.15
148 202 0.34
149 11 0.02
150 18 0.03
151 48 0.08
152 2 0.00
154 58 0.10
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.42
Consensus pattern (147 bp):
AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
GTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAATATAAAC
TTTCTCTTTTTTTAAAG
Found at i:16187199 original size:21 final size:22
Alignment explanation
Indices: 16187156--16187196 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
16187146 CTTTTTTTTA
16187156 TTCATTTAATCTATATATATTG
1 TTCATTTAATCTATATATATTG
*
16187178 TTCA-TTAATCT-TATTTATT
1 TTCATTTAATCTATATATATT
16187197 TGTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (22 bp):
TTCATTTAATCTATATATATTG
Found at i:16197889 original size:31 final size:30
Alignment explanation
Indices: 16197823--16197905 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 30
16197813 TTTAACGTCT
16197823 CATTATATTAAATTATTTAAAACAATTTAC
1 CATTATATTAAATTATTTAAAACAATTTAC
* *
16197853 CATTATATTAAATTATTTAAATATAATTTAT
1 CATTATATTAAATTATTTAAA-ACAATTTAC
* *
16197884 TATTATATTTAAAAT-TTTAAAA
1 CATTATA-TTAAATTATTTAAAA
16197906 TATTTCATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 22 0.47
31 19 0.40
32 6 0.13
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (30 bp):
CATTATATTAAATTATTTAAAACAATTTAC
Found at i:16202848 original size:25 final size:25
Alignment explanation
Indices: 16202816--16202904 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 25
16202806 GAGTCCAAAT
*
16202816 AGAATATCGCTCTTTCGAGCCAGAT
1 AGAATATCGCTCTTTCGAGCCAGAC
* * * *
16202841 AGAGTATCACTCTTCCGAGCTAGAC
1 AGAATATCGCTCTTTCGAGCCAGAC
*
16202866 AGAATATCGCTCTTTTGAGCCAGAC
1 AGAATATCGCTCTTTCGAGCCAGAC
*
16202891 AGAGTATCGCTCTT
1 AGAATATCGCTCTT
16202905 ACAACTCTCC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (25 bp):
AGAATATCGCTCTTTCGAGCCAGAC
Found at i:16208735 original size:25 final size:25
Alignment explanation
Indices: 16208687--16208818 Score: 131
Period size: 25 Copynumber: 5.3 Consensus size: 25
16208677 TTAGCTCATA
*
16208687 CGAGCCCAGATAGAATATCGCTCTTT
1 CGAG-CCAGACAGAATATCGCTCTTT
* *
16208713 CGAGCCAAACAGAGTATCGCTCTTT
1 CGAGCCAGACAGAATATCGCTCTTT
*
16208738 -GAGCCAGATAGAATATCGCTCTTT
1 CGAGCCAGACAGAATATCGCTCTTT
* * * * *
16208762 CAAGTCAGATAGAATATTGGTCTTT
1 CGAGCCAGACAGAATATCGCTCTTT
* * * *
16208787 CAAGCTAGACAGAGTATCGCTCTTA
1 CGAGCCAGACAGAATATCGCTCTTT
16208812 CGAGCCA
1 CGAGCCA
16208819 AAGTTTAGAA
Statistics
Matches: 86, Mismatches: 19, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
24 21 0.24
25 61 0.71
26 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
CGAGCCAGACAGAATATCGCTCTTT
Found at i:16208786 original size:49 final size:50
Alignment explanation
Indices: 16208692--16208820 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 50
16208682 TCATACGAGC
* * *
16208692 CCAGATAGAATATCGCTCTTTCGAGCCAAACAGAGTATCGCTCTTT-GAG
1 CCAGATAGAATATCGCTCTTTCAAGCCAAACAGAATATCGCTCTTTCAAG
* * * * *
16208741 CCAGATAGAATATCGCTCTTTCAAGTCAGATAGAATATTGGTCTTTCAAG
1 CCAGATAGAATATCGCTCTTTCAAGCCAAACAGAATATCGCTCTTTCAAG
* * * * *
16208791 CTAGACAGAGTATCGCTCTTACGAGCCAAA
1 CCAGATAGAATATCGCTCTTTCAAGCCAAA
16208821 GTTTAGAAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
49 39 0.61
50 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (50 bp):
CCAGATAGAATATCGCTCTTTCAAGCCAAACAGAATATCGCTCTTTCAAG
Found at i:16209086 original size:22 final size:22
Alignment explanation
Indices: 16209043--16209087 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16209033 TCTATCACAA
* * *
16209043 TAAATCATTCAATTTTTCTCAT
1 TAAATCATGCAATTTATATCAT
*
16209065 TAAATCATGGAATTTATATCAT
1 TAAATCATGCAATTTATATCAT
16209087 T
1 T
16209088 TATTGCATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATCATGCAATTTATATCAT
Found at i:16215248 original size:68 final size:69
Alignment explanation
Indices: 16215082--16215250 Score: 229
Period size: 68 Copynumber: 2.5 Consensus size: 69
16215072 TGTCAATTTT
* *
16215082 TTCACTACTTTCATTAAAAAGTTAATTTTAAT-TCCACATTGACTAAAAATACTCTTATAGCTCA
1 TTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACATTGACTAAAAATACTCTTATAGCTCA
16215146 CTCC
66 CTCC
* *
16215150 TTCATTATTTTTATTAAAAAGTTAATTTTAATCT-CACATTGACTAGAAAATACT-TTCATAGTT
1 TTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACATTGACTA-AAAATACTCTT-ATAGCT
*
16215213 CACTTC
64 CACTCC
* *
16215219 TTCACTATTTTTACTAAAAA-TTAACTTTAATC
1 TTCACTATTTTTATTAAAAAGTTAATTTTAATC
16215251 CCTTAAAAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
68 53 0.59
69 37 0.41
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.43
Consensus pattern (69 bp):
TTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACATTGACTAAAAATACTCTTATAGCTCA
CTCC
Found at i:16215259 original size:21 final size:22
Alignment explanation
Indices: 16215233--16215274 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16215223 CTATTTTTAC
16215233 TAAAAA-TTAACTTTAATCCCT
1 TAAAAAGTTAACTTTAATCCCT
*
16215254 TAAAAAGTTAATTTTAATCCC
1 TAAAAAGTTAACTTTAATCCC
16215275 ATATTGGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAAAGTTAACTTTAATCCCT
Found at i:16215363 original size:95 final size:94
Alignment explanation
Indices: 16215253--16215494 Score: 247
Period size: 94 Copynumber: 2.6 Consensus size: 94
16215243 CTTTAATCCC
* ** *
16215253 TTAAAAAGTTAATTTTAATCCCATATTGGCTAGAGAATACTCTCAT-GCTCACACTTACCATATA
1 TTAAAAAGTTAATTTTAATCCCACATTAACTAGAGAATACTCTCATAGCTCACACTTAACATATA
* ** *
16215317 CATAAGTGTCAATTTCTTCAATATTTTCA
66 AATAAGTAACAAATTCTTCAATATTTTCA
* * * * * *
16215346 TTAAAAAAAGTTGATTTTAA-CATCACATTAACTAGAGAATGCTCTCATATCTCACATTTAACTT
1 TT--AAAAAGTTAATTTTAATC-CCACATTAACTAGAGAATACTCTCATAGCTCACACTTAACAT
* *
16215410 ATAAATAAGTAACAAATTCTTCACTGTTTTCA
63 ATAAATAAGTAACAAATTCTTCAATATTTTCA
* * * *
16215442 TTAGAAAGTTAATTTTAATCCCA-AGTTTACTAAAGAATACTCTTATAGCTCAC
1 TTAAAAAGTTAATTTTAATCCCACA-TTAACTAGAGAATACTCTCATAGCTCAC
16215495 TTCTTCACTA
Statistics
Matches: 119, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
93 3 0.03
94 40 0.34
95 37 0.31
96 39 0.33
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (94 bp):
TTAAAAAGTTAATTTTAATCCCACATTAACTAGAGAATACTCTCATAGCTCACACTTAACATATA
AATAAGTAACAAATTCTTCAATATTTTCA
Found at i:16215665 original size:2 final size:2
Alignment explanation
Indices: 16215624--16215652 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16215614 AACAAATAGT
16215624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16215653 TAATTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16215844 original size:21 final size:21
Alignment explanation
Indices: 16215820--16215864 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16215810 ATAATTAATT
*
16215820 ATTAGA-TCCAAATTTTGATAG
1 ATTAGACT-CAAATTTTGACAG
*
16215841 ATTATACTCAAATTTTGACAG
1 ATTAGACTCAAATTTTGACAG
16215862 ATT
1 ATT
16215865 TTCATAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (21 bp):
ATTAGACTCAAATTTTGACAG
Found at i:16217741 original size:21 final size:21
Alignment explanation
Indices: 16217717--16217756 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16217707 TATTTTAAAA
* *
16217717 TAATATTTATTTATTTTATTT
1 TAATATTTAATAATTTTATTT
16217738 TAATATTTAATAATTTTAT
1 TAATATTTAATAATTTTAT
16217757 ACATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TAATATTTAATAATTTTATTT
Found at i:16219687 original size:26 final size:26
Alignment explanation
Indices: 16219638--16219693 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
16219628 CAAAAACTAT
**
16219638 TTTTGCCAATTTTGTCAATTTTAATA
1 TTTTGCCAATTTTGTCAAGCTTAATA
* *
16219664 TTTTGTCAATTTTGTCAAGCTTAATT
1 TTTTGCCAATTTTGTCAAGCTTAATA
16219690 TTTT
1 TTTT
16219694 TGTCCAAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (26 bp):
TTTTGCCAATTTTGTCAAGCTTAATA
Found at i:16222778 original size:26 final size:25
Alignment explanation
Indices: 16222749--16222804 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
16222739 TGAATTATTT
*
16222749 ATTAATTA-AAAATATTTTATTTTAAA
1 ATTAATTATAAAA-ATATT-TTTTAAA
16222775 ATTAATTATAAAAATATTTTTTAAA
1 ATTAATTATAAAAATATTTTTTAAA
16222800 ATTAA
1 ATTAA
16222805 ATGAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 12 0.43
26 12 0.43
27 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTAATTATAAAAATATTTTTTAAA
Found at i:16224073 original size:16 final size:17
Alignment explanation
Indices: 16224049--16224095 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
16224039 AAATGGTAAT
* *
16224049 TTTTTTAATTTA-AATA
1 TTTTATAATTTATAAAA
16224065 TTTTATAATTTATAAAA
1 TTTTATAATTTATAAAA
*
16224082 TTTTA-AATTAATAA
1 TTTTATAATTTATAA
16224096 TCATAATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATAATTTATAAAA
Found at i:16231847 original size:79 final size:79
Alignment explanation
Indices: 16231716--16231923 Score: 290
Period size: 79 Copynumber: 2.6 Consensus size: 79
16231706 AGTTTAACTG
* * * * *
16231716 ACTAGAGTTGGGCTTACATTTGCGGTTTATCCGCTAGGCATTGGATGCCAGGATTTGATGAACAT
1 ACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGAACAT
*
16231781 CGTTGGTTAATCTA
66 CGTTGATTAATCTA
* * * *
16231795 ACTAGAGGTGGGCTCACATTTGCGGTTTATTCGCTAGGCACTGGGTGTCAGGATTTGACGGACAT
1 ACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGAACAT
*
16231860 TGTTGATTAATCTA
66 CGTTGATTAATCTA
* * *
16231874 ACGAGAGCTGGACTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCCA
1 ACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
16231924 TATAGTTGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 113 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (79 bp):
ACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGAACAT
CGTTGATTAATCTA
Found at i:16237563 original size:24 final size:24
Alignment explanation
Indices: 16237502--16237564 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
16237492 TAGAGTAATA
* * *
16237502 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
* *
16237526 TGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
16237550 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
16237565 GATTATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:16239518 original size:24 final size:24
Alignment explanation
Indices: 16239490--16239546 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
16239480 TAGAGTAATA
* * *
16239490 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTAAAACAAATAAAC
*
16239514 AGAGTTTAATTAAAACAAATAAAC
1 AGAGTTTAACTAAAACAAATAAAC
16239538 AGAGTTTAA
1 AGAGTTTAA
16239547 TTGAAAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTAAAACAAATAAAC
Found at i:16239547 original size:24 final size:24
Alignment explanation
Indices: 16239502--16239548 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
16239492 AGTTTGACTC
*
16239502 AAACAAATAAATAGAGTTTAATTA
1 AAACAAATAAACAGAGTTTAATTA
16239526 AAACAAATAAACAGAGTTTAATT
1 AAACAAATAAACAGAGTTTAATT
16239549 GAAAGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTA
Found at i:16242992 original size:118 final size:118
Alignment explanation
Indices: 16242784--16243114 Score: 473
Period size: 118 Copynumber: 2.8 Consensus size: 118
16242774 GTTGTTTGAC
* * * * * * * *
16242784 CCACTTCTCTGTAGCTTACAAGGAAAATGGGACTATTTCGACCCACTTCTCTGTACCTCACTAGA
1 CCACTTCTCTGTATCTCACTAGGAAGATGGCACTGTTTCGACCCACTTCTCTGTACCTCACCAGG
16242849 AAGATGGGATTTGAAGCTTCACTCACATTTGAGCTTCACCTCATTATTTTGGT
66 AAGATGGGATTTGAAGCTTCACTCACATTTGAGCTTCACCTCATTATTTTGGT
* * *
16242902 CCACTTTTCTGTTTCTCACTAGGAAGATGGCACTGTTTCGACCCACTTCTTTGTACCTCACCAGG
1 CCACTTCTCTGTATCTCACTAGGAAGATGGCACTGTTTCGACCCACTTCTCTGTACCTCACCAGG
16242967 AAGATGGGATTTGAAGCTTCACTCACATTTGAGCTTCACCTCATTATTTTGGT
66 AAGATGGGATTTGAAGCTTCACTCACATTTGAGCTTCACCTCATTATTTTGGT
* * *
16243020 CCACTTCTCTGTATCTCACTAGGAAGATGAACACTTCGTTGTTTGACCCACTTCTCTGTATCTCA
1 CCACTTCTCTGTATCTCACTAGGAAGATG-GCAC-T-G-T-TTCGACCCACTTCTCTGTACCTCA
*
16243085 CCAGGAAGATGGGATTTTGAAGTTTCACTC
61 CCAGGAAGATGGGA-TTTGAAGCTTCACTC
16243115 CACTCCACTG
Statistics
Matches: 189, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
118 134 0.71
119 3 0.02
120 1 0.01
121 1 0.01
122 1 0.01
123 35 0.19
124 14 0.07
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (118 bp):
CCACTTCTCTGTATCTCACTAGGAAGATGGCACTGTTTCGACCCACTTCTCTGTACCTCACCAGG
AAGATGGGATTTGAAGCTTCACTCACATTTGAGCTTCACCTCATTATTTTGGT
Found at i:16243118 original size:47 final size:48
Alignment explanation
Indices: 16243019--16243128 Score: 116
Period size: 47 Copynumber: 2.3 Consensus size: 48
16243009 ATTATTTTGG
* ** *
16243019 TCCACTTCTCTGTATCTCACTAGGAAGATGAACACTTCGTTGTTTGAC
1 TCCACTTCTCTGTATCTCACCAGGAAGATGAACACTTCGAAGTTTCAC
** * *
16243067 -CCACTTCTCTGTATCTCACCAGGAAGATG-GGATTTTGAAGTTTCAC
1 TCCACTTCTCTGTATCTCACCAGGAAGATGAACACTTCGAAGTTTCAC
* *
16243113 TCCACTCCACTGTATC
1 TCCACTTCTCTGTATC
16243129 CTCAAGGACA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
46 10 0.20
47 41 0.80
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (48 bp):
TCCACTTCTCTGTATCTCACCAGGAAGATGAACACTTCGAAGTTTCAC
Done.