Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 63 of 182
Found at i:20417166 original size:58 final size:58
Alignment explanation
Indices: 20417022--20417368 Score: 287
Period size: 58 Copynumber: 6.0 Consensus size: 58
20417012 TTGCCTAGGT
* * * * *
20417022 CCCT-GAACTGTCCAAAAATCATATTTTAACCC-CAAACTTTTCCAAAATCACATTTTAAC
1 CCCTCGAACT-TCCAAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTACATTTT--G
** * *
20417081 CCCTAAAATTTTCC-AAAATCACATTTTAACCCTTAAACTT-TCAAAAATTACATTTATG
1 CCCTCGAA-CTTCCAAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTACATTT-TG
* * *
20417139 CCCTCGAACTTCCAAAAATTACATTTTAACCCCCAAACTTCTCAAAAATTACATTTTT
1 CCCTCGAACTTCCAAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTACATTTTG
* * * ** ** * * *
20417197 CCCTTGAACTTTCAAAAATTATGTTTTTGCTCTCAAACTTC-CAAAAATTTCATTTATA
1 CCCTCGAACTTCCAAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTACATTT-TG
* * * * *
20417255 CCCTCGAACTTTCAAAAATCACATTTTAGCCC-CTGAACTTCTCAAAATTTACGTTTTCG
1 CCCTCGAACTTCCAAAAATCACATTTTAACCCTC-AAACTTCTCAAAAATTACATTTT-G
* * * *
20417314 ACCTCAAACTTCCAAAAATCACATTTTTA-CC-CAAACTTCTCAAAATTTACATTTT
1 CCCTCGAACTTCCAAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTACATTTT
20417369 TGCCTCCGAA
Statistics
Matches: 236, Mismatches: 42, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
57 39 0.17
58 100 0.42
59 84 0.36
60 12 0.05
61 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (58 bp):
CCCTCGAACTTCCAAAAATCACATTTTAACCCTCAAACTTCTCAAAAATTACATTTTG
Found at i:20417206 original size:29 final size:29
Alignment explanation
Indices: 20417095--20417374 Score: 200
Period size: 29 Copynumber: 9.7 Consensus size: 29
20417085 AAAATTTTCC
* * *
20417095 AAAATCACATTTTAACCCTTAAACTT-TCA
1 AAAATTACATTTT-TCCCTCAAACTTCTCA
* *
20417124 AAAATTACATTTATGCCCTCGAACTTC-CA
1 AAAATTACATTT-TTCCCTCAAACTTCTCA
* *
20417153 AAAATTACATTTTAACCCCCAAACTTCTCA
1 AAAATTACATTTT-TCCCTCAAACTTCTCA
**
20417183 AAAATTACATTTTTCCCTTGAACTT-TCA
1 AAAATTACATTTTTCCCTCAAACTTCTCA
** *
20417211 AAAATTATGTTTTTGCTCTCAAACTTC-CA
1 AAAATTACATTTTT-CCCTCAAACTTCTCA
* * *
20417240 AAAATTTCATTTATACCCTCGAACTT-TCA
1 AAAATTACATTT-TTCCCTCAAACTTCTCA
* * *
20417269 AAAATCACATTTTAGCCC-CTGAACTTCTCA
1 AAAATTACATTTT-TCCCTC-AAACTTCTCA
* *
20417299 AAATTTAC-GTTTTCGACCTCAAACTTC-CA
1 AAAATTACATTTTTC--CCTCAAACTTCTCA
* *
20417328 AAAATCACATTTTTACC-CAAACTTCTCA
1 AAAATTACATTTTTCCCTCAAACTTCTCA
* *
20417356 AAATTTACATTTTTGCCTC
1 AAAATTACATTTTTCCCTC
20417375 CGAATGCCCA
Statistics
Matches: 197, Mismatches: 37, Indels: 34
0.74 0.14 0.13
Matches are distributed among these distances:
27 8 0.04
28 37 0.19
29 113 0.57
30 38 0.19
31 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTTCCCTCAAACTTCTCA
Found at i:20417216 original size:87 final size:87
Alignment explanation
Indices: 20417061--20417368 Score: 322
Period size: 87 Copynumber: 3.6 Consensus size: 87
20417051 CCCCAAACTT
* * * * * *
20417061 TTCC-AAAATCACATTTTAACCCCTAAAATTTTCCAAAATCACATTTTAACCCTTAAACTTTCAA
1 TTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATCACATTTTATCCCTTGAACTTTCAA
* *
20417125 AAATTACATTTATGCCCTCGAAC
66 AAATTACGTTT-TGCCCTCAAAC
* *
20417148 TTCCAAAAATTACATTTTAACCCCCAAACTTCTCAAAAATTACATTTT-TCCCTTGAACTTTCAA
1 TTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATCACATTTTATCCCTTGAACTTTCAA
* *
20417212 AAATTATGTTTTTGCTCTCAAAC
66 AAATTACG-TTTTGCCCTCAAAC
** * * * *
20417235 TTCCAAAAATTTCA-TTTATACCCTCGAACTT-TCAAAAATCACATTTTAGCCCCTGAACTTCTC
1 TTCCAAAAATCACATTTTA-ACCCCCAAACTTCTCAAAAATCACATTTTATCCCTTGAACTT-TC
* *
20417298 AAAATTTACGTTTTCGACCTCAAAC
64 AAAAATTACGTTTT-GCCCTCAAAC
* * *
20417323 TTCCAAAAATCACATTTTTA--CCCAAACTTCTCAAAATTTACATTTT
1 TTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATCACATTTT
20417369 TGCCTCCGAA
Statistics
Matches: 184, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
86 26 0.14
87 84 0.46
88 71 0.39
89 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (87 bp):
TTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATCACATTTTATCCCTTGAACTTTCAA
AAATTACGTTTTGCCCTCAAAC
Found at i:20417358 original size:116 final size:115
Alignment explanation
Indices: 20417022--20417367 Score: 321
Period size: 116 Copynumber: 3.0 Consensus size: 115
20417012 TTGCCTAGGT
* * * *
20417022 CCCT-GAACTGTCCAAAAATCATATTTTAA-CCCCAAACTTTTCCAAAATCACA-TTTTAACCCC
1 CCCTCGAACT-TCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATTACAGTTTT---CCC
* * * * *
20417084 TAAAATTTTCC-AAAATCACATTTTAACCCTTAAACTT-TCAAAAATTACATTTATG
62 TCAAA-CTTCCAAAAATCACATTTTTACCC--AAACTTCTCAAAAATTTCATTTATA
* * **
20417139 CCCTCGAACTTCCAAAAATTACATTTTAACCCCCAAACTTCTCAAAAATTACATTTTTCCCTTGA
1 CCCTCGAACTTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATTACAGTTTTCCCTCAA
* * ** *
20417204 ACTTTCAAAAATTATGTTTTTGCTCTCAAACTTC-CAAAAATTTCATTTATA
66 ACTTCCAAAAATCACATTTTTAC-C-CAAACTTCTCAAAAATTTCATTTATA
* * ** *
20417255 CCCTCGAACTTTCAAAAATCACATTTTAGCCCCTGAACTTCTCAAAATTTAC-GTTTTCGACCTC
1 CCCTCGAACTTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATTACAGTTTTC--CCTC
20417319 AAACTTCCAAAAATCACATTTTTACCCAAACTTCTC-AAAATTTACATTT
64 AAACTTCCAAAAATCACATTTTTACCCAAACTTCTCAAAAATTT-CATTT
20417368 TTGCCTCCGA
Statistics
Matches: 188, Mismatches: 30, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
115 23 0.12
116 91 0.48
117 44 0.23
118 26 0.14
119 4 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (115 bp):
CCCTCGAACTTCCAAAAATCACATTTTAACCCCCAAACTTCTCAAAAATTACAGTTTTCCCTCAA
ACTTCCAAAAATCACATTTTTACCCAAACTTCTCAAAAATTTCATTTATA
Found at i:20417387 original size:116 final size:112
Alignment explanation
Indices: 20417022--20417426 Score: 315
Period size: 116 Copynumber: 3.5 Consensus size: 112
20417012 TTGCCTAGGT
* * * *
20417022 CCCT-GAACTGTCCAAAAATCATATTTTAACCCC-AAACTTTTCCAAAATCACATTTTAACCCCT
1 CCCTCGAACT-TCCAAAAATCACATTTT-ACCCCTAAACTTCT-CAAAATTACGTTTT---CCCT
* * * *
20417085 AAAATTTTCC-AAAATCACATTTTAACCCTTAAACTT-TCAAAAATTACATTTATG
60 CAAA-CTTCCAAAAATCACATTTTTACCC--AAACTTCTCAAAATTTACATTTATG
* * * **
20417139 CCCTCGAACTTCCAAAAATTACATTTTAACCCCCAAACTTCTCAAAAATTACATTTTTCCCTTGA
1 CCCTCGAACTTCCAAAAATCACATTTT-ACCCCTAAACTTCTC-AAAATTAC-GTTTTCCCTCAA
* * ** * *
20417204 ACTTTCAAAAATTATGTTTTTGCTCTCAAACTTC-CAAAAATTT-CATTTATA
63 ACTTCCAAAAATCACATTTTTAC-C-CAAACTTCTC-AAAATTTACATTTATG
* *
20417255 CCCTCGAACTTTCAAAAATCACATTTTAGCCCCTGAACTTCTCAAAATTTACGTTTTCGACCTCA
1 CCCTCGAACTTCCAAAAATCACATTTTA-CCCCTAAACTTCTCAAAA-TTACGTTTTC--CCTCA
*
20417320 AACTTCCAAAAATCACATTTTTACCCAAACTTCTCAAAATTTACATTTTTG
62 AACTTCCAAAAATCACATTTTTACCCAAACTTCTCAAAATTTACATTTATG
* * *
20417371 -CCTCCGAA-TGCCCAAAATGACATTTTTACCCCTAAAACTAT-TCAAAATTACGTTTT
1 CCCT-CGAACTTCCAAAAATCACA-TTTTACCCCT-AAACT-TCTCAAAATTACGTTTT
20417427 AACCCGAAAC
Statistics
Matches: 234, Mismatches: 35, Indels: 40
0.76 0.11 0.13
Matches are distributed among these distances:
115 55 0.24
116 99 0.42
117 56 0.24
118 20 0.09
119 4 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (112 bp):
CCCTCGAACTTCCAAAAATCACATTTTACCCCTAAACTTCTCAAAATTACGTTTTCCCTCAAACT
TCCAAAAATCACATTTTTACCCAAACTTCTCAAAATTTACATTTATG
Found at i:20421543 original size:12 final size:12
Alignment explanation
Indices: 20421528--20421553 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20421518 AATTAAAGAA
20421528 ATAATAGCATTC
1 ATAATAGCATTC
20421540 ATAATAGCATTC
1 ATAATAGCATTC
20421552 AT
1 AT
20421554 CATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:20440868 original size:139 final size:139
Alignment explanation
Indices: 20440610--20440878 Score: 396
Period size: 139 Copynumber: 1.9 Consensus size: 139
20440600 TTCGCTGCTA
* *
20440610 TATTGTGATGAAATCGATCGAATTAAACTATTAGGAAACACATGGTTTAGTTTGTTACGTTCGTG
1 TATTGTGATGAAATCGATCGAATTAAACTACTAGGAAACACATGGTTAAGTTTGTTACGTTCGTG
* * ** ** *
20440675 CCACTTAGGTCGTTAATGTAGTCGCTTCGAGTCGGGCCTACCATCCAGGTCGGGTTGGGGTGGTT
66 CCACTTAGATCGTTAATGTAGTCGCTTCGACTCAAGCCTACCATCCAGCCCGGGTTGGGATGGTT
20440740 CCGCTACTG
131 CCGCTACTG
* * *
20440749 TATTGTGATGAAATC-AGTCGATTTAAACTACTAGGAAACACTTGGTTAAGTTTGTTACGTTTGT
1 TATTGTGATGAAATCGA-TCGAATTAAACTACTAGGAAACACATGGTTAAGTTTGTTACGTTCGT
* *
20440813 GCCACTTCGATCGTTAATGTAGTCGCTTCGACTCAAGCCTACCATCTAGCCCGGGTTGGGATGGT
65 GCCACTTAGATCGTTAATGTAGTCGCTTCGACTCAAGCCTACCATCCAGCCCGGGTTGGGATGGT
20440878 T
130 T
20440879 ACATTAATAA
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
138 1 0.01
139 114 0.99
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (139 bp):
TATTGTGATGAAATCGATCGAATTAAACTACTAGGAAACACATGGTTAAGTTTGTTACGTTCGTG
CCACTTAGATCGTTAATGTAGTCGCTTCGACTCAAGCCTACCATCCAGCCCGGGTTGGGATGGTT
CCGCTACTG
Found at i:20440962 original size:21 final size:23
Alignment explanation
Indices: 20440919--20440963 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
20440909 GTTTATAACA
20440919 AATTATTAATATAAAATAATTTT
1 AATTATTAATATAAAATAATTTT
* *
20440942 AATT-TTAAT-TACAATTATTTT
1 AATTATTAATATAAAATAATTTT
20440963 A
1 A
20440964 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 5 0.25
23 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTATTAATATAAAATAATTTT
Found at i:20441310 original size:26 final size:26
Alignment explanation
Indices: 20441260--20441311 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
20441250 GTTTAGCTAT
*
20441260 TATTATTTAATATTAAATAGTTTTAC
1 TATTATTTAATATTAAATAATTTTAC
*
20441286 TATTATTTAAT-TTTAATAATGTTTAC
1 TATTATTTAATATTAAATAAT-TTTAC
20441312 ATAATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TATTATTTAATATTAAATAATTTTAC
Found at i:20441590 original size:19 final size:21
Alignment explanation
Indices: 20441565--20441614 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
20441555 TAATCAATTT
**
20441565 TTATTTAATTA-GGAAATATA
1 TTATTTAATTATAAAAATATA
20441585 -TATTTAAATTATAAAAATATA
1 TTATTT-AATTATAAAAATATA
20441606 TTATTTAAT
1 TTATTTAAT
20441615 CATGGGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 10 0.40
22 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TTATTTAATTATAAAAATATA
Found at i:20445262 original size:11 final size:11
Alignment explanation
Indices: 20445246--20445278 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
20445236 TCCAAACGTT
20445246 TAATAAATAAA
1 TAATAAATAAA
*
20445257 TAATAAATATA
1 TAATAAATAAA
20445268 TAATAAATAAA
1 TAATAAATAAA
20445279 AAGGAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:20446283 original size:30 final size:28
Alignment explanation
Indices: 20446208--20446371 Score: 98
Period size: 30 Copynumber: 5.6 Consensus size: 28
20446198 CCCTATTTTA
*
20446208 TTTAAAAATTACATTTTGACCTCAAACT
1 TTTAAAAATTACATTTTGACCCCAAACT
** *
20446236 TCTCT-AAAATTGTATTTTGACACCCGAACAT
1 T-T-TAAAAATTACATTTTGAC-CCCAAAC-T
*
20446267 TTTAAAAATTACATTTTGATCCCTAAACT
1 TTTAAAAATTACATTTTGA-CCCCAAACT
* * *
20446296 TCTT-AAAATCATATTTCGACCCCTAAACT
1 T-TTAAAAATTACATTTTGACCCC-AAACT
** * *
20446325 TTCCCAAAATCACATTGTGACCCCTAAACT
1 TT-TAAAAATTACATTTTGACCCC-AAACT
* *
20446355 TTTCTAAAATCACATTT
1 TTT-AAAAATTACATTT
20446372 GTACCTCTAA
Statistics
Matches: 106, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
28 5 0.05
29 36 0.34
30 62 0.58
31 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (28 bp):
TTTAAAAATTACATTTTGACCCCAAACT
Found at i:20446319 original size:29 final size:29
Alignment explanation
Indices: 20446271--20446394 Score: 126
Period size: 30 Copynumber: 4.2 Consensus size: 29
20446261 GAACATTTTA
* *
20446271 AAAATTACATTTTGATCCCTAAACTTCT-T
1 AAAATCACA-TTTGACCCCTAAACTTCTCT
* *
20446300 AAAATCATATTTCGACCCCTAAACTT-TCCC
1 AAAATCACATTT-GACCCCTAAACTTCT-CT
*
20446330 AAAATCACATTGTGACCCCTAAACTTTTCT
1 AAAATCACATT-TGACCCCTAAACTTCTCT
* *
20446360 AAAATCACATTTGTACCTCTAAACTTTTCT
1 AAAATCACATTTG-ACCCCTAAACTTCTCT
20446390 AAAAT
1 AAAAT
20446395 TATATTTAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.05
29 21 0.26
30 55 0.67
31 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATCACATTTGACCCCTAAACTTCTCT
Found at i:20446334 original size:59 final size:57
Alignment explanation
Indices: 20446211--20446414 Score: 166
Period size: 59 Copynumber: 3.5 Consensus size: 57
20446201 TATTTTATTT
** * *
20446211 AAAAATTACATTTTGA-CCTCAAACTTCTCTAAAATTGTATTTTGACACCC-GAACATTTT
1 AAAAATTACATTTTGACCCT-AAACTTCTCTAAAATCATA-TTTGAC-CCCTAAAC-TTTC
20446270 AAAAATTACATTTTGATCCCTAAACTTCT-TAAAATCATATTTCGACCCCTAAACTTTCC
1 AAAAATTACATTTTGA-CCCTAAACTTCTCTAAAATCATATTT-GACCCCTAAACTTT-C
* * * * * *
20446329 CAAAATCACATTGTGACCCCTAAACTTTTCTAAAATCACATTTGTACCTCTAAACTTTTC
1 AAAAATTACATTTTGA-CCCTAAACTTCTCTAAAATCATATTTG-ACCCCTAAAC-TTTC
* * *
20446389 TAAAATTATA-TTTAACCCTAAA-TTCT
1 AAAAATTACATTTTGACCCTAAACTTCT
20446415 TCAAAACTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
57 3 0.03
58 16 0.13
59 58 0.48
60 37 0.31
61 6 0.05
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (57 bp):
AAAAATTACATTTTGACCCTAAACTTCTCTAAAATCATATTTGACCCCTAAACTTTC
Found at i:20446382 original size:30 final size:30
Alignment explanation
Indices: 20446287--20446394 Score: 132
Period size: 30 Copynumber: 3.6 Consensus size: 30
20446277 ACATTTTGAT
* *
20446287 CCCTAAACTTCT-TAAAATCATATTTCG-AC
1 CCCTAAACTTTTCTAAAATCACATTT-GTAC
* *
20446316 CCCTAAACTTTCCCAAAATCACA-TTGTGAC
1 CCCTAAACTTTTCTAAAATCACATTTGT-AC
20446346 CCCTAAACTTTTCTAAAATCACATTTGTAC
1 CCCTAAACTTTTCTAAAATCACATTTGTAC
*
20446376 CTCTAAACTTTTCTAAAAT
1 CCCTAAACTTTTCTAAAAT
20446395 TATATTTAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.01
29 12 0.18
30 51 0.75
31 4 0.06
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (30 bp):
CCCTAAACTTTTCTAAAATCACATTTGTAC
Found at i:20457303 original size:84 final size:85
Alignment explanation
Indices: 20457157--20457313 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 85
20457147 TAAAACTTCA
* * * *
20457157 TCTTCTTGATAAGATACAGAGAAGTCGGTCAAAGCAATAAAGTGGTCATCTTCCTGACGAGATGC
1 TCTTCCTGATAAGATACAGAGAAGTCGGTCAAAACAATAAAGCGGTCATCTTCCTGACGAGATAC
20457222 AGA-AAGTGAACCAAATCCG
66 AGAGAAGTGAACCAAATCCG
* * * * *
20457241 TCTTCCTGATGAGATACAGAGAAGT-GGATTAAAATAATGAAGCGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATAAGATACAGAGAAGTCGG-TCAAAACAATAAAGCGGTCATCTTCCTGACGAGATA
20457305 CAGAGAAGT
65 CAGAGAAGT
20457314 AGACCAATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 2 0.03
84 56 0.90
85 4 0.06
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAGAGAAGTCGGTCAAAACAATAAAGCGGTCATCTTCCTGACGAGATAC
AGAGAAGTGAACCAAATCCG
Found at i:20457327 original size:48 final size:48
Alignment explanation
Indices: 20457241--20457332 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
20457231 ACCAAATCCG
* **
20457241 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAATAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGGTCA
**
20457289 TCTTCCTGATGAGATACAGAGAAGTAGACCAATTTAATGAAGCG
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCG
20457333 AAGCTCAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGGTCA
Found at i:20459473 original size:29 final size:30
Alignment explanation
Indices: 20459391--20459558 Score: 171
Period size: 30 Copynumber: 5.6 Consensus size: 30
20459381 TGTTTAATTT
* ** * *
20459391 AAAATTGCATTTCGACCCCTAAACTTCTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
20459421 AAAATTATATTTTAA-CCCTCAAACTTTTCA
1 AAAATTACATTTTAACCCCT-AAACTTTTCC
* *
20459451 AAAATTACATTTTGATCCC-AAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
20459480 AAAATCACATTTTGACCCCTAAAATTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
*
20459510 AAAGTTACATTTTAACCCCTAAAC-TTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
*
20459539 TAAATTTACATTTTAACCCC
1 -AAAATTACATTTTAACCCC
20459559 AAATGCTTAA
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
29 35 0.30
30 79 0.68
31 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTTCC
Found at i:20459548 original size:89 final size:89
Alignment explanation
Indices: 20459398--20459561 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
20459388 TTTAAAATTG
* * * *
20459398 CATTTCGACCCCTAAACTTCTCTAAAATTATATTTTAACCCTCAAACTTTTCAAAAATTACATTT
1 CATTTCGACCCCTAAAATTCTCCAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTT
* *
20459463 TGATCCCAAACTTTTCCAAAATCA
66 TAACCCCAAACTTTTCCAAAATCA
* * * * *
20459487 CATTTTGACCCCTAAAATTTTCCAAAGTTACATTTTAACCC-CTAAACTTTCCTAAATTTACATT
1 CATTTCGACCCCTAAAATTCTCCAAAATTACATTTTAACCCTC-AAACTTTCCAAAAATTACATT
20459551 TTAACCCCAAA
65 TTAACCCCAAA
20459562 TGCTTAAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
88 1 0.02
89 62 0.98
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.36
Consensus pattern (89 bp):
CATTTCGACCCCTAAAATTCTCCAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTT
TAACCCCAAACTTTTCCAAAATCA
Found at i:20464429 original size:27 final size:29
Alignment explanation
Indices: 20464399--20464463 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
20464389 AACAAAATTC
*
20464399 TTAAATTAT-AAT-TTTTTAAATTA-ATCT
1 TTAAATTATAAATCATTTT-AATTATATCT
* *
20464426 TTAAATTTTAAATCATTTTAATTATATTT
1 TTAAATTATAAATCATTTTAATTATATCT
20464455 TTAAATTAT
1 TTAAATTAT
20464464 TGAAGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 8 0.26
28 8 0.26
29 15 0.48
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
TTAAATTATAAATCATTTTAATTATATCT
Found at i:20464702 original size:15 final size:15
Alignment explanation
Indices: 20464678--20464707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20464668 TATTTTTAAC
20464678 TTTTACTTTAAATTT
1 TTTTACTTTAAATTT
*
20464693 TTTTATTTTAAATTT
1 TTTTACTTTAAATTT
20464708 ATCTACATAA
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTACTTTAAATTT
Found at i:20465903 original size:11 final size:11
Alignment explanation
Indices: 20465887--20465919 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
20465877 AGTTCACAAA
20465887 ATTATTTTTCC
1 ATTATTTTTCC
*
20465898 ATTATTTTTCA
1 ATTATTTTTCC
20465909 ATTATTTTTCC
1 ATTATTTTTCC
20465920 CTCAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTTCC
Found at i:20467656 original size:26 final size:26
Alignment explanation
Indices: 20467627--20467682 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
20467617 TAAACTGCAC
*
20467627 AAGAGGAAGATGTAAAGGATAGGCCT
1 AAGAGCAAGATGTAAAGGATAGGCCT
* *
20467653 AAGATCCAGATGTAAAGGATAGGCCT
1 AAGAGCAAGATGTAAAGGATAGGCCT
20467679 AAGA
1 AAGA
20467683 TCCAGATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (26 bp):
AAGAGCAAGATGTAAAGGATAGGCCT
Found at i:20467683 original size:26 final size:26
Alignment explanation
Indices: 20467634--20467689 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
20467624 CACAAGAGGA
20467634 AGATGTAAAGGATAGGCCTAAGATCC
1 AGATGTAAAGGATAGGCCTAAGATCC
20467660 AGATGTAAAGGATAGGCCTAAGATCC
1 AGATGTAAAGGATAGGCCTAAGATCC
20467686 AGAT
1 AGAT
20467690 ATAGTTAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATGTAAAGGATAGGCCTAAGATCC
Found at i:20472070 original size:58 final size:58
Alignment explanation
Indices: 20471982--20472127 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 58
20471972 ATATATTATA
* *
20471982 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
20472039 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
*
20472099 ATTTTTATTCAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
20472128 CATTAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 47 0.61
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:20472266 original size:39 final size:44
Alignment explanation
Indices: 20472211--20472315 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
20472201 TTTCTTATGC
*
20472211 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
20472250 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
20472296 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
20472316 ACAGCTATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:20472314 original size:46 final size:44
Alignment explanation
Indices: 20472222--20472315 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
20472212 ATTACAGCAT
* *
20472222 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
20472266 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
20472312 CATT
1 CATT
20472316 ACAGCTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:20472318 original size:16 final size:16
Alignment explanation
Indices: 20472297--20472368 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
20472287 TGAATTACTG
20472297 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
20472313 ATTACAGCTATATTCC
1 ATTACAGCTCTATTCC
*
20472329 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
20472345 ATTACACCTCTATTCT
1 ATTACAGCTCTATTCC
20472361 ATTACAGC
1 ATTACAGC
20472369 GAACCAAACG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:20473110 original size:20 final size:20
Alignment explanation
Indices: 20473074--20473162 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 20
20473064 TCAACAAAAA
*
20473074 TTAAAAAAAT-AAAATAATT
1 TTAAAAAATTCAAAATAATT
*
20473093 TTAAAAAATTCAACATAA-T
1 TTAAAAAATTCAAAATAATT
*
20473112 TTACAAAAATTTCAAAATTTATAT
1 TTA-AAAAA-TTCAAAA-TAAT-T
20473136 TTAAAAAATT-ATAAA-AATT
1 TTAAAAAATTCA-AAATAATT
*
20473155 CTAAAAAA
1 TTAAAAAA
20473163 AAGTAAATAG
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 21 0.37
20 13 0.23
21 7 0.12
22 7 0.12
23 5 0.09
24 4 0.07
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAAAAATTCAAAATAATT
Found at i:20473119 original size:21 final size:20
Alignment explanation
Indices: 20473087--20473126 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20473077 AAAAAATAAA
*
20473087 ATAATTTTAAAAAATTCAAC
1 ATAATTTCAAAAAATTCAAC
*
20473107 ATAATTTACAAAAATTTCAA
1 ATAATTT-CAAAAAATTCAA
20473127 AATTTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTTCAAAAAATTCAAC
Found at i:20475984 original size:24 final size:24
Alignment explanation
Indices: 20475952--20476008 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
20475942 TTTAAGTTTG
*
20475952 TGGGCTAGGG-TTGTAATGGATAAT
1 TGGGTTAGGGTTTGTAATGGAT-AT
* *
20475976 TGGGTTAGGGTTTGTATTGGGTAT
1 TGGGTTAGGGTTTGTAATGGATAT
20476000 TGGGTTAGG
1 TGGGTTAGG
20476009 ATTGGGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.18, C:0.02, G:0.42, T:0.39
Consensus pattern (24 bp):
TGGGTTAGGGTTTGTAATGGATAT
Found at i:20476845 original size:21 final size:21
Alignment explanation
Indices: 20476802--20476859 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
20476792 TAAGAAAATG
* * * *
20476802 AAAAATATATAAAATGATTAT
1 AAAAATAAATAATATTATCAT
20476823 AAAAATAAATAATATTATCAT
1 AAAAATAAATAATATTATCAT
* *
20476844 AAATATAAATATTATT
1 AAAAATAAATAATATT
20476860 TAATTATCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATAAATAATATTATCAT
Found at i:20476867 original size:26 final size:26
Alignment explanation
Indices: 20476836--20476887 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
20476826 AATAAATAAT
*
20476836 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
* *
20476862 ATTATCATTAAGATAAATATTGTTTA
1 ATTATCATAAAGATAAATATTATTTA
20476888 TTTTTATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTATCATAAAGATAAATATTATTTA
Found at i:20476901 original size:21 final size:22
Alignment explanation
Indices: 20476877--20476929 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
20476867 CATTAAGATA
*
20476877 AATATTGTTTATTT-TTATC-TT
1 AATATT-TTAATTTGTTATCATT
20476898 AATATTTTAATTTGTTATCATT
1 AATATTTTAATTTGTTATCATT
*
20476920 AATAATTTAA
1 AATATTTTAA
20476930 ATTTAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 11 0.39
22 11 0.39
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
AATATTTTAATTTGTTATCATT
Found at i:20476928 original size:22 final size:20
Alignment explanation
Indices: 20476887--20476929 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
20476877 AATATTGTTT
*
20476887 ATTTTTATCTTAATATTTTA
1 ATTTTTATCTTAATAATTTA
20476907 ATTTGTTATCATTAATAATTTA
1 ATTT-TTATC-TTAATAATTTA
20476929 A
1 A
20476930 ATTTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTATCTTAATAATTTA
Found at i:20479511 original size:51 final size:51
Alignment explanation
Indices: 20479450--20479664 Score: 322
Period size: 51 Copynumber: 4.2 Consensus size: 51
20479440 ATTTAGTACT
* * *
20479450 GTCATCGGACCTTTAATTCGTCATGGATTCATTTACTCACGATGACACTTA
1 GTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTA
* *
20479501 GTCATTGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACATTTA
1 GTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTA
**
20479552 GTCATTAGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTA
1 GTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTA
* * * *
20479603 GTCACCGGACCTTTAATCTGTAAAGAATTCATTTGCTCACGATGACACTTA
1 GTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTA
*
20479654 GTCACCGGACC
1 GTCATCGGACC
20479665 CTTTCGTTTA
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 151 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (51 bp):
GTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTA
Found at i:20485013 original size:21 final size:21
Alignment explanation
Indices: 20484987--20485037 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
20484977 CTTGGGATAG
20484987 TTCTACCGAAACAAGT-ATAAC
1 TTCTACCGAAACAAGTCAT-AC
* *
20485008 TTCTACTGAAACAAGTCATGC
1 TTCTACCGAAACAAGTCATAC
20485029 TTCTACCGA
1 TTCTACCGA
20485038 TACTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (21 bp):
TTCTACCGAAACAAGTCATAC
Found at i:20489829 original size:13 final size:13
Alignment explanation
Indices: 20489807--20489861 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
20489797 TCGTGAAATA
*
20489807 ATTCCCTATAACC
1 ATTCCTTATAACC
20489820 ATTCCTTATAACC
1 ATTCCTTATAACC
20489833 ATTCCTTATAACC
1 ATTCCTTATAACC
* *
20489846 ATTTCATATAACC
1 ATTCCTTATAACC
20489859 ATT
1 ATT
20489862 TCATTTACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTCCTTATAACC
Found at i:20499173 original size:17 final size:17
Alignment explanation
Indices: 20499151--20499183 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20499141 TCCGAATTTT
20499151 TGTTTTTGTGTTATATG
1 TGTTTTTGTGTTATATG
*
20499168 TGTTTTTGTTTTATAT
1 TGTTTTTGTGTTATAT
20499184 TTGTCATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (17 bp):
TGTTTTTGTGTTATATG
Found at i:20511993 original size:5 final size:5
Alignment explanation
Indices: 20511983--20512007 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20511973 AACTAAATTA
20511983 GTTTC GTTTC GTTTC GTTTC GTTTC
1 GTTTC GTTTC GTTTC GTTTC GTTTC
20512008 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
GTTTC
Found at i:20517570 original size:15 final size:17
Alignment explanation
Indices: 20517550--20517583 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
20517540 AAAAGTTACA
20517550 TATATTATT-A-ATATT
1 TATATTATTCATATATT
20517565 TATATTATTCATATATT
1 TATATTATTCATATATT
20517582 TA
1 TA
20517584 AAATTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTATTCATATATT
Found at i:20521683 original size:29 final size:29
Alignment explanation
Indices: 20521600--20521799 Score: 174
Period size: 29 Copynumber: 7.0 Consensus size: 29
20521590 GCGATAGAGG
* * * * *
20521600 CGTCCTTGAATAATAGATAGCCATAGAGG
1 CGTCCTTAAACAATAGATAGCCACAAAGA
* * * * *
20521629 CATCCTTGAATAAGAGAGAGCCACAAAGA
1 CGTCCTTAAACAATAGATAGCCACAAAGA
* * *
20521658 CGTCCTTAAACAATAAATAGCTACAAAGG
1 CGTCCTTAAACAATAGATAGCCACAAAGA
* * *
20521687 TGTCCATAAGA-AA-AGATAGCCACAAAGG
1 CGTCCTTAA-ACAATAGATAGCCACAAAGA
* *
20521715 CATCCTTAAACAATAGATAGCTACAAAGA
1 CGTCCTTAAACAATAGATAGCCACAAAGA
*
20521744 CGTCCATAAGA-AA-AGATAGCCACAAAGA
1 CGTCCTTAA-ACAATAGATAGCCACAAAGA
*
20521772 CGTCCTCAAACAATAGATAGCCACAAAG
1 CGTCCTTAAACAATAGATAGCCACAAAG
20521800 GCATCCATTC
Statistics
Matches: 137, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
27 2 0.01
28 44 0.32
29 89 0.65
30 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (29 bp):
CGTCCTTAAACAATAGATAGCCACAAAGA
Found at i:20521712 original size:28 final size:29
Alignment explanation
Indices: 20521583--20521807 Score: 163
Period size: 29 Copynumber: 7.8 Consensus size: 29
20521573 CACTTTTTAC
* * * * * *
20521583 ATAGATAGCGATAGAGGCGTCCTTGAATA
1 ATAGATAGCCACAAAGGCGTCCATAAACA
* * * * * *
20521612 ATAGATAGCCATAGAGGCATCCTTGAATA
1 ATAGATAGCCACAAAGGCGTCCATAAACA
* * * *
20521641 AGAGAGAGCCACAAAGACGTCCTTAAACA
1 ATAGATAGCCACAAAGGCGTCCATAAACA
* * *
20521670 ATAAATAGCTACAAAGGTGTCCATAAGA-A
1 ATAGATAGCCACAAAGGCGTCCATAA-ACA
* *
20521699 A-AGATAGCCACAAAGGCATCCTTAAACA
1 ATAGATAGCCACAAAGGCGTCCATAAACA
* *
20521727 ATAGATAGCTACAAAGACGTCCATAAGA-A
1 ATAGATAGCCACAAAGGCGTCCATAA-ACA
*
20521756 A-AGATAGCCACAAAGACGTCC-TCAAACA
1 ATAGATAGCCACAAAGGCGTCCAT-AAACA
*
20521784 ATAGATAGCCACAAAGGCATCCAT
1 ATAGATAGCCACAAAGGCGTCCAT
20521808 TCTTAAAGAA
Statistics
Matches: 159, Mismatches: 29, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
27 3 0.02
28 44 0.28
29 109 0.69
30 3 0.02
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (29 bp):
ATAGATAGCCACAAAGGCGTCCATAAACA
Found at i:20521790 original size:86 final size:87
Alignment explanation
Indices: 20521611--20521805 Score: 220
Period size: 86 Copynumber: 2.3 Consensus size: 87
20521601 GTCCTTGAAT
* * * * *
20521611 AATAGATAGCCATAGAGGCATCCTTGAATAAGAGAGAGCCACAAAGACGTCCTTAAACAATAAAT
1 AATAGATAGCCACAAAGGCATCCTTAAACAAGAGAGAGCCACAAAGACGTCCATAAACAATAAAT
* **
20521676 AGCTACAAAGGTGTCCATAAGA
66 AGCCACAAAGACGTCCATAAGA
* * * *
20521698 AA-AGATAGCCACAAAGGCATCCTTAAACAATAGATAGCTACAAAGACGTCCATAAGA-AA-AGA
1 AATAGATAGCCACAAAGGCATCCTTAAACAAGAGAGAGCCACAAAGACGTCCATAA-ACAATAAA
20521760 TAGCCACAAAGACGTCC-TCAA-A
65 TAGCCACAAAGACGTCCAT-AAGA
20521782 CAATAGATAGCCACAAAGGCATCC
1 -AATAGATAGCCACAAAGGCATCC
20521806 ATTCTTAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
84 2 0.02
85 20 0.22
86 67 0.73
87 3 0.03
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (87 bp):
AATAGATAGCCACAAAGGCATCCTTAAACAAGAGAGAGCCACAAAGACGTCCATAAACAATAAAT
AGCCACAAAGACGTCCATAAGA
Found at i:20521816 original size:57 final size:57
Alignment explanation
Indices: 20521600--20521807 Score: 245
Period size: 57 Copynumber: 3.6 Consensus size: 57
20521590 GCGATAGAGG
* * * * * * * *
20521600 CGTCCTTGAATAATAGATAGCCATAGAGGCATCCTTGAATAAGAGAGAGCCACAAAGA
1 CGTCCTTAAACAATAGATAGCCACAAAGGCATCCAT-AAGAAAAGATAGCCACAAAGA
* * ** *
20521658 CGTCCTTAAACAATAAATAGCTACAAAGGTGTCCATAAGAAAAGATAGCCACAAAGG
1 CGTCCTTAAACAATAGATAGCCACAAAGGCATCCATAAGAAAAGATAGCCACAAAGA
* * * *
20521715 CATCCTTAAACAATAGATAGCTACAAAGACGTCCATAAGAAAAGATAGCCACAAAGA
1 CGTCCTTAAACAATAGATAGCCACAAAGGCATCCATAAGAAAAGATAGCCACAAAGA
*
20521772 CGTCCTCAAACAATAGATAGCCACAAAGGCATCCAT
1 CGTCCTTAAACAATAGATAGCCACAAAGGCATCCAT
20521808 TCTTAAAGAA
Statistics
Matches: 127, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 100 0.79
58 27 0.21
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (57 bp):
CGTCCTTAAACAATAGATAGCCACAAAGGCATCCATAAGAAAAGATAGCCACAAAGA
Found at i:20521827 original size:57 final size:57
Alignment explanation
Indices: 20521647--20521807 Score: 250
Period size: 57 Copynumber: 2.8 Consensus size: 57
20521637 AATAAGAGAG
* *
20521647 AGCCACAAAGACGTCCTTAAACAATAAATAGCTACAAAGGTGTCCATAAGAAAAGAT
1 AGCCACAAAGACGTCCTTAAACAATAGATAGCTACAAAGGCGTCCATAAGAAAAGAT
* * *
20521704 AGCCACAAAGGCATCCTTAAACAATAGATAGCTACAAAGACGTCCATAAGAAAAGAT
1 AGCCACAAAGACGTCCTTAAACAATAGATAGCTACAAAGGCGTCCATAAGAAAAGAT
* * *
20521761 AGCCACAAAGACGTCCTCAAACAATAGATAGCCACAAAGGCATCCAT
1 AGCCACAAAGACGTCCTTAAACAATAGATAGCTACAAAGGCGTCCAT
20521808 TCTTAAAGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 93 1.00
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.16
Consensus pattern (57 bp):
AGCCACAAAGACGTCCTTAAACAATAGATAGCTACAAAGGCGTCCATAAGAAAAGAT
Found at i:20521914 original size:29 final size:29
Alignment explanation
Indices: 20521869--20522108 Score: 257
Period size: 29 Copynumber: 8.3 Consensus size: 29
20521859 TTTAACATAT
*
20521869 ACAAAGGCTC-CATATAATAGAATCAACC
1 ACAAAGGCTCTCATATAACAGAATCAACC
* * * *
20521897 ACAGAGGCTCTTATATAATAGAATCAGCC
1 ACAAAGGCTCTCATATAACAGAATCAACC
* *
20521926 ATAAAGGCTCTTATATAACAGAATCAACC
1 ACAAAGGCTCTCATATAACAGAATCAACC
* *
20521955 ACAAAGGCTCTCATATAACAAAATCAACA
1 ACAAAGGCTCTCATATAACAGAATCAACC
* * * * *
20521984 AAAAATGCTCTCATATAATAGAAACAACA
1 ACAAAGGCTCTCATATAACAGAATCAACC
* * *
20522013 ACAAAGGTTCTCATATAACAAAATCAGCC
1 ACAAAGGCTCTCATATAACAGAATCAACC
* * **
20522042 ACAAAGGCTCTCACATAACATAATCAGTC
1 ACAAAGGCTCTCATATAACAGAATCAACC
* * *
20522071 ATAAAGACTCTCATATAATAGAATCAACC
1 ACAAAGGCTCTCATATAACAGAATCAACC
20522100 ACAAAGGCT
1 ACAAAGGCT
20522109 TTTTTCAGTA
Statistics
Matches: 174, Mismatches: 37, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
28 9 0.05
29 165 0.95
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (29 bp):
ACAAAGGCTCTCATATAACAGAATCAACC
Found at i:20529871 original size:18 final size:18
Alignment explanation
Indices: 20529844--20529885 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20529834 ATGTACTAAT
*
20529844 AACT-AAAATGCAGTGAC
1 AACTAAAAATGCAATGAC
* *
20529861 AATTAAAAATGTAATGAC
1 AACTAAAAATGCAATGAC
20529879 AACTAAA
1 AACTAAA
20529886 TGTTATGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (18 bp):
AACTAAAAATGCAATGAC
Found at i:20531079 original size:10 final size:11
Alignment explanation
Indices: 20531054--20531084 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
20531044 AAATAGAGAT
20531054 TTTTCTTTTTC
1 TTTTCTTTTTC
20531065 TTTTCTTTTTC
1 TTTTCTTTTTC
20531076 -TTTCTTTTT
1 TTTTCTTTTT
20531085 TGGGTTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:20533910 original size:21 final size:21
Alignment explanation
Indices: 20533862--20533913 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
20533852 AGAGTTTTTG
*
20533862 GTATCGGTAGTTGTATGAATT
1 GTATCGGTAGTTGTATCAATT
* *
20533883 GTTTCGGTAGTTGTGTCACA-T
1 GTATCGGTAGTTGTATCA-ATT
20533904 GTATCGGTAG
1 GTATCGGTAG
20533914 AACTTTGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (21 bp):
GTATCGGTAGTTGTATCAATT
Found at i:20534479 original size:99 final size:99
Alignment explanation
Indices: 20534308--20534506 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
20534298 TCGGTCCTTT
20534308 GCCCCTAGGAGCCCCAAAAATCCCATTTTCCTTTCCTTTCCATTTGCTAAAATAAAAGTTTTTTT
1 GCCCCTAGGAGCCCCAAAAATCCCATTTTCCTTTCCTTTCCATTTGCTAAAATAAAAGTTTTTTT
20534373 TAAAGAAAATAGCTTGATTTTGAGAAATGTTTTG
66 TAAAGAAAATAGCTTGATTTTGAGAAATGTTTTG
20534407 GCCCCTAGGAGCCCCAAAAATCCCATTTTCCTTTCCTTTCCATTTGCTAAAATAAAAGTTTTTTT
1 GCCCCTAGGAGCCCCAAAAATCCCATTTTCCTTTCCTTTCCATTTGCTAAAATAAAAGTTTTTTT
20534472 TAAAGAAAATAGCTTGATTTTGAGAAATGTTTTG
66 TAAAGAAAATAGCTTGATTTTGAGAAATGTTTTG
20534506 G
1 G
20534507 TTTTTTTAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (99 bp):
GCCCCTAGGAGCCCCAAAAATCCCATTTTCCTTTCCTTTCCATTTGCTAAAATAAAAGTTTTTTT
TAAAGAAAATAGCTTGATTTTGAGAAATGTTTTG
Found at i:20534718 original size:147 final size:147
Alignment explanation
Indices: 20534500--20535306 Score: 1141
Period size: 148 Copynumber: 5.4 Consensus size: 147
20534490 TTTGAGAAAT
* * * * *
20534500 GTTTTGGTTTTTTTAAACAATTTCGGAATAAAAGCTTTGATTTTTTTAAGCAAAATAATGATTTT
1 GTTTTGATTTTTTT-AACTATTTCGAAATAAAAG-TTTGA-ATTTTTAAGCAAAATAGTGATTTT
*
20534565 CTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAA
63 CTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAA
*
20534630 AAGTTTAAATTTTTAACAAA
128 AAATTTAAATTTTTAACAAA
* * *
20534650 GTTTTAATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAGGTAAAATAGTGATTTTCTT
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGCAAAATAGTGATTTTCTT
* * *
20534715 TAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAT
66 TAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAA
*
20534780 TTTAAATGTTTAACAAA
131 TTTAAATTTTTAACAAA
* * *
20534797 GTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTGGATTTTTAAGCAAAATAATGATTTTCTT
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGCAAAATAGTGATTTTCTT
* * *
20534862 TAAAAAAAGATAAAGTTTAGATCTTTAAAAATAAAAATTTGTTTTTTAGTTATTTTAAAGAAAAA
66 T-AAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAA
*
20534927 ATTTAAATTTTTAATAAA
130 ATTTAAATTTTTAACAAA
* * *
20534945 GTTTTTATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTT-TT
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGCAAAATAGTGATTTTCTT
* * *
20535009 AAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATATGTTTTTTTTAGTTATTTTAAAGAAAA
66 TAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTG--TTTTTTAGTTATTTTAAAGAAAA
20535074 AATTTAAATTTTTAACAAA
129 AATTTAAATTTTTAACAAA
* * *
20535093 CTTTTGATTTTTTCTAATTATTTCGAAATAAAAGTTT-AGATTTTTAAGCAAAATAGAGATTTTC
1 GTTTTGATTTTTT-TAACTATTTCGAAATAAAAGTTTGA-ATTTTTAAGCAAAATAGTGATTTTC
* **
20535157 TTTAAAAAAAATAGAAAGTTTAGATTTAAAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGA
64 TTT--AAAAAAGAGAAAGTTTAGATTT-TTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGA
*
20535222 AAAAGTTTAAATTTTTAACAAA
126 AAAAATTTAAATTTTTAACAAA
** * * *
20535244 GTTTTGATTTTTTTAAACTATTAAGAAATAAAAATTTGAATTTTTAAGTAAAGTAGTGATTTT
1 GTTTTGATTTTTTT-AACTATTTCGAAATAAAAGTTTGAATTTTTAAGCAAAATAGTGATTTT
20535307 TGTTTAATCA
Statistics
Matches: 588, Mismatches: 58, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
146 35 0.06
147 162 0.28
148 188 0.32
149 61 0.10
150 15 0.03
151 92 0.16
152 21 0.04
153 14 0.02
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (147 bp):
GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGCAAAATAGTGATTTTCTT
TAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAA
TTTAAATTTTTAACAAA
Found at i:20536774 original size:240 final size:238
Alignment explanation
Indices: 20536350--20536823 Score: 745
Period size: 240 Copynumber: 2.0 Consensus size: 238
20536340 AATCATAATA
*
20536350 ATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTTTT
1 ATGATAAAAGATCGAATAAGTTGTACATGAATTTTAATATTTCTCTTAATTCATTAGTAACTTTT
* * * *
20536415 AGGCTTTGTTTTTTAGGATTCTAAGATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAAT
66 AGG---TGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAACTGAAAGTATTTTACCAGAAT
20536480 TATTTAGGTATCCTTTAGTGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
128 TATTTAGGTATCCTTTAGTGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
* * *
20536545 AAGTTTGGTGAACACGTTTTAGTCAAGTTACAAGTAAATCGAACTT
193 AAGTTTGGTGAACACGTCTTAGTCAAATTACAAATAAATCGAACTT
* *
20536591 ATGATAAAAGATCGAATAAGTTGTACATGAATTTTAATATTTCTCTTAATTTATTAGTAAATTTT
1 ATGATAAAAGATCGAATAAGTTGTACATGAATTTTAATATTTCTCTTAATTCATTAGT-AA--CT
20536656 TTTAGG-GTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAACTGAAAGTATTTTACCAGAAT
63 TTTAGGTGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAACTGAAAGTATTTTACCAGAAT
* * * *
20536720 TATTTAGGTATTCTTTACG-GTTTTTATTAGGAGTAAAAATCTTTAATTTAAGTTTTAAATTATA
128 TATTTAGGTATCCTTTA-GTGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGA
20536784 TAAGTTTGGTGAACACGTCTTAGTCAAATTACAAATAAAT
192 TAAGTTTGGTGAACACGTCTTAGTCAAATTACAAATAAAT
20536824 TGGAGGTATT
Statistics
Matches: 215, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
240 149 0.69
241 57 0.27
242 2 0.01
244 7 0.03
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (238 bp):
ATGATAAAAGATCGAATAAGTTGTACATGAATTTTAATATTTCTCTTAATTCATTAGTAACTTTT
AGGTGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAACTGAAAGTATTTTACCAGAATTAT
TTAGGTATCCTTTAGTGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAAG
TTTGGTGAACACGTCTTAGTCAAATTACAAATAAATCGAACTT
Found at i:20540130 original size:4 final size:4
Alignment explanation
Indices: 20540121--20540150 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
20540111 GTGCCCCAAT
*
20540121 TTCA TTCA TTCA CTCA TTCA TTCA TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
20540151 TGTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:20547428 original size:38 final size:38
Alignment explanation
Indices: 20547377--20547451 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
20547367 GGACGAATGA
*
20547377 CATTTTTTAAATATCCTTCACTTGAATAAAATTTCATG
1 CATTTTTTAAATATCCTTCACTTGAAGAAAATTTCATG
20547415 CATTTTTTAAATATCCTTCACTTGAAGAAAATTTCAT
1 CATTTTTTAAATATCCTTCACTTGAAGAAAATTTCAT
20547452 TCTTTGTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (38 bp):
CATTTTTTAAATATCCTTCACTTGAAGAAAATTTCATG
Found at i:20548435 original size:10 final size:10
Alignment explanation
Indices: 20548380--20548446 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
20548370 GTTTAAATCA
20548380 AGAACAAAAAT
1 AGAA-AAAAAT
* *
20548391 ACAAAAAAAA
1 AGAAAAAAAT
* *
20548401 AGAAAGACAAG
1 AGAAA-AAAAT
*
20548412 AGAGGAAAAA-
1 AGA-AAAAAAT
20548422 AGAAAAAAAT
1 AGAAAAAAAT
20548432 AGAAAAAAAT
1 AGAAAAAAAT
20548442 AGAAA
1 AGAAA
20548447 GAGAGAGCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
9 5 0.11
10 27 0.60
11 12 0.27
12 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.04
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:20548464 original size:40 final size:39
Alignment explanation
Indices: 20548379--20548466 Score: 97
Period size: 41 Copynumber: 2.2 Consensus size: 39
20548369 TGTTTAAATC
*
20548379 AAGAACAAAAATACAAAAAAAAAGAAAGACAAGAGAGGAAAA
1 AAGAA-AAAAATACAAAAAAAAAGAAAG--AAGAGAGCAAAA
* *
20548421 AAGAAAAAAATAGAAAAAAATAGAAAG-AGAGAGCAAGATA
1 AAGAAAAAAATACAAAAAAAAAGAAAGAAGAGAGCAA-A-A
20548461 AAGAAA
1 AAGAAA
20548467 CTAAATTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 8 0.20
39 1 0.02
40 7 0.17
41 20 0.49
42 5 0.12
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.05
Consensus pattern (39 bp):
AAGAAAAAAATACAAAAAAAAAGAAAGAAGAGAGCAAAA
Found at i:20549070 original size:125 final size:126
Alignment explanation
Indices: 20548848--20549242 Score: 598
Period size: 125 Copynumber: 3.2 Consensus size: 126
20548838 AAAGAAAGCA
* * * * *
20548848 TTCATTGCATTTAGAGGCCTAGGTGT-AGAGGTCCATTTACTTTTCATTGCATTCAGAGGCTTAA
1 TTCATTGCATTTAGAGGCCCAGGTGTGA-AGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAG
20548912 GTGTGGAGGTCCA-TTACTTTTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
65 GTGTGGAGGTCCATTTACTTTTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
20548973 TTCATTGCATTTAGAGGCCCAAGTGTGAAGGCCCATTTACTTTTCATCGCATTTAGAGGCCTAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGAAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
*
20549038 TGTGGAGGTCCATTTA-TTTTCATCGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
66 TGTGGAGGTCCATTTACTTTTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
20549098 TTCATTGCACTTACAGGCCCAGGTGTGGAGGCCCATTTACTTTTTATTGCATTTAGAGGCCTAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGAAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * * *
20549163 TGTGGAGGTCCATTTATTTTTCATTGCATTCAGAGGCCTAGGTGTGGAGGTCCATTTACTT
66 TGTGGAGGTCCATTTACTTTTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
20549224 TTCATTACAATTAGAGGCC
1 TTCATTGCATTTAGAGGCC
20549243 TAAGCATAGA
Statistics
Matches: 246, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
125 186 0.76
126 60 0.24
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (126 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGAAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
TGTGGAGGTCCATTTACTTTTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:20549136 original size:167 final size:167
Alignment explanation
Indices: 20548848--20549256 Score: 586
Period size: 167 Copynumber: 2.4 Consensus size: 167
20548838 AAAGAAAGCA
* * **
20548848 TTCATTGCATTTAGAGGCCTAGGTGTAGAGGTCCATTTACTTTTCATTGCATTCAGAGGCTTAAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAAG
* * * *
20548913 TGTGGAGGTCCATTACTTTTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCAT
66 TGTAGAGGTCCATTACTTTTCATCGCACTTACAGGCCCAGGTGTGGAGGCCCATTTACTTTTCAT
20548978 TGCATTTAGAGGCCCAAGTGTGAAGGCCCATTTACTT
131 TGCATTTAGAGGCCCAAGTGTGAAGGCCCATTTACTT
* * *
20549015 TTCATCGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTA-TTTTCATCGCATTTAGAGGCCCAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAAG
* *
20549079 TGTAGAGGTCCATTTACTTTTCATTGCACTTACAGGCCCAGGTGTGGAGGCCCATTTACTTTTTA
66 TGTAGAGGTCCA-TTACTTTTCATCGCACTTACAGGCCCAGGTGTGGAGGCCCATTTACTTTTCA
* * * * *
20549144 TTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTATTT
130 TTGCATTTAGAGGCCCAAGTGTGAAGGCCCATTTACTT
* * * *
20549182 TTCATTGCATTCAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTACAATTAGAGGCCTAAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAAG
**
20549247 CATAGAGGTC
66 TGTAGAGGTC
20549257 GATTTATTTA
Statistics
Matches: 213, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
166 31 0.15
167 154 0.72
168 28 0.13
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (167 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAAG
TGTAGAGGTCCATTACTTTTCATCGCACTTACAGGCCCAGGTGTGGAGGCCCATTTACTTTTCAT
TGCATTTAGAGGCCCAAGTGTGAAGGCCCATTTACTT
Found at i:20549262 original size:42 final size:42
Alignment explanation
Indices: 20548848--20549244 Score: 573
Period size: 42 Copynumber: 9.5 Consensus size: 42
20548838 AAAGAAAGCA
*
20548848 TTCATTGCATTTAGAGGCCTAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
20548890 TTCATTGCATTCAGAGGCTTAAGTGTGGAGGTCCA-TTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
20548931 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
20548973 TTCATTGCATTTAGAGGCCCAAGTGTGAAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
*
20549015 TTCATCGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTA-TT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
20549056 TTCATCGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
20549098 TTCATTGCACTTACAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
20549140 TTTATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTATTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
*
20549182 TTCATTGCATTCAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
20549224 TTCATTACAATTAGAGGCCTA
1 TTCATTGCATTTAGAGGCCTA
20549245 AGCATAGAGG
Statistics
Matches: 316, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
41 75 0.24
42 241 0.76
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
Found at i:20549625 original size:3 final size:3
Alignment explanation
Indices: 20549617--20549694 Score: 120
Period size: 3 Copynumber: 26.0 Consensus size: 3
20549607 CAAGGGCCCA
* * *
20549617 ATT ATT ATT ATC ATC ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
20549665 ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20549695 TTAATTTTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:20550561 original size:51 final size:49
Alignment explanation
Indices: 20550505--20550720 Score: 131
Period size: 51 Copynumber: 4.3 Consensus size: 49
20550495 AAAAAAATAG
*
20550505 AAAATTTAGATTTTTGAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
1 AAAATTTAAATTTTT--AAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
** * ** *
20550556 AAAATTTAAAATTTTT-AATAAAGTTTTGATTTTTTTAACTATTTTGAAA-TA
1 AAAATTT-AAATTTTTAAATAAAAATCT-A-TTTTTTAGTTATTTT-AAAGAA
* ** * * * ** *
20550607 AAAGTTTGGATTTTTAAGTAAAATAGT-GATTTTCT--TTA--AAAAAGAG
1 AAAATTTAAATTTTTAAATAAAA-A-TCTATTTTTTAGTTATTTTAAAGAA
* *
20550653 AAAATATATATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
1 AAAATTTAAATTTTT--AAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
20550704 AAAATTTAAATTTTTAA
1 AAAATTTAAATTTTTAA
20550721 CAAATTTTTA
Statistics
Matches: 118, Mismatches: 32, Indels: 32
0.65 0.18 0.18
Matches are distributed among these distances:
45 3 0.03
46 12 0.10
47 7 0.06
48 9 0.08
49 13 0.11
50 12 0.10
51 51 0.43
52 10 0.08
53 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (49 bp):
AAAATTTAAATTTTTAAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
Found at i:20550588 original size:149 final size:149
Alignment explanation
Indices: 20550127--20550935 Score: 1123
Period size: 149 Copynumber: 5.4 Consensus size: 149
20550117 TTTAGGGAAT
* *
20550127 GTTTTGGTTTTTTTAAACAATTTCGAAATAAAAGCTTT-GATTTTTTTTAAGCAAAATAGTGATT
1 GTTTTGATTTTTTT-AACTATTTCGAAATAAAAG-TTTGGA---TTTTTAAGCAAAATAGTGATT
* *
20550191 TTC-TT--AAAAAAGAGAAAGTTTAGGTTTTTAAAAATAAAAATCTATTTTTTAGCTATTTTAAA
61 TTCTTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAA
*
20550253 GAAAAAGTTTAAATTTTTAACAAA
126 GAAAAAATTTAAATTTTTAACAAA
* * * *
20550277 GTTTTAATTTTTTTAACTATTTCAAAATAAAAGTTTGGATTTTTAGGTAAAATAGTGATTTTTTC
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGA--TTTTC
* *
20550342 TTTAAAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
64 TTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAA
*
20550407 AAATTTTAAATTTTTAACAAA
129 AAAATTTAAATTTTTAACAAA
* * * * *
20550428 ATTTTGAATTTTTTAACTATTTCAAAATAAAAGTTTGGGTTTTTAAGCAAAATAATGATTTTCTT
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCTT
* * *
20550493 TAAAAAAAATAGAAAATTTAGATTTTTGAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAA
66 TAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAA
*
20550558 AATTTAAAATTTTTAATAAA
131 AATTT-AAATTTTTAACAAA
* *
20550578 GTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTT
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCTT
* * *
20550643 T--AAAAAAGAGAAAATATATATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAA
66 TAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAA
20550706 AATTTAAATTTTTAACAAA
131 AATTTAAATTTTTAACAAA
* **
20550725 -TTTTTATTTTTTCTAACTATTTCGAAATAAAAGTTTAAATTTTTAAGC-AAATAGTGATTTTC-
1 GTTTTGATTTTTT-TAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCT
* *
20550787 TTAAAAAAAAGAGAAAGTTTAGATTTTTTAAAAAATAAAAATCTGTTTTTTAATTATTTTAAAGA
65 TTAAAAAAAAGAGAAAGTTTAGA-TTTTT-AAAAATAAAAATCTATTTTTTAGTTATTTTAAAGA
* *
20550852 AAAAGTTTAAATTTTTAACAAC
128 AAAAATTTAAATTTTTAACAAA
* ** *
20550874 GTTTTGATTTTTTAAACTATTTCGAAATAAAAGTTTGGATTTTTAAATAAAGTAGTGATTTT
1 GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGATTTT
20550936 TGTTTAATCA
Statistics
Matches: 590, Mismatches: 55, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
145 2 0.00
146 42 0.07
147 60 0.10
148 76 0.13
149 176 0.30
150 107 0.18
151 127 0.22
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (149 bp):
GTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCTT
TAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAA
AATTTAAATTTTTAACAAA
Found at i:20550714 original size:297 final size:296
Alignment explanation
Indices: 20550170--20550935 Score: 1173
Period size: 297 Copynumber: 2.6 Consensus size: 296
20550160 GCTTTGATTT
*
20550170 TTTTTAAGCAAAATAGTGATTTTCTT--AAAAAAGAGAAAGTTTAGGTTTTTAAAAATAAAAATC
1 TTTTTAAGCAAAATAGTGATTTTCTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATC
* *
20550233 TATTTTTTAGCTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTAATTTTTTTAACTATT
66 TATTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAACTATT
* * * *
20550298 TCAAAATAAAAGTTTGGATTTTTAGGTAAAATAGTGATTTTTTCTTTAAAAAAAAAAGAAAGTTT
131 TCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGA--TTTTCTTT-AAAAAAAAAGAAAATAT
*
20550363 ATATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTTAACAAA
193 ATATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAATTTAAATTTTTAAC-AA
***
20550428 ATTTTGAATTTTT-TAACTATTTCAAAATAAAAGTTTGGG
257 ATTTTGAATTTTTCTAACTATTTCAAAATAAAAGTTTAAA
* * * *
20550467 TTTTTAAGCAAAATAATGATTTTCTTTAAAAAAAATAGAAAATTTAGATTTTTGAAAATAAAAAT
1 TTTTTAAGCAAAATAGTGATTTTC-TTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAAT
* *
20550532 CTATTTTTTAGTTATTTTAAAGAAAAAATTTAAAATTTTTAATAAAGTTTTGATTTTTTTAACTA
65 CTATTTTTTAGTTATTTTAAAGAAAAAGTTT-AAATTTTTAACAAAGTTTTGATTTTTTTAACTA
* *
20550597 TTTTGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTT-AAAAAAGAGAAAATATA
129 TTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAAAAAGAAAATATA
20550661 TATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAATTTAAATTTTTAACAAAT
194 TATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAATTTAAATTTTTAACAAAT
* * *
20550726 TTTTATTTTTTCTAACTATTTCGAAATAAAAGTTTAAA
259 TTTGAATTTTTCTAACTATTTCAAAATAAAAGTTTAAA
20550764 TTTTTAAGC-AAATAGTGATTTTCTTAAAAAAAAGAGAAAGTTTAGATTTTTTAAAAAATAAAAA
1 TTTTTAAGCAAAATAGTGATTTTCTTAAAAAAAAGAGAAAGTTTAGA-TTTTT-AAAAATAAAAA
* * * *
20550828 TCTGTTTTTTAATTATTTTAAAGAAAAAGTTTAAATTTTTAACAACGTTTTGATTTTTTAAACTA
64 TCTATTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAACTA
* *
20550893 TTTCGAAATAAAAGTTTGGATTTTTAAATAAAGTAGTGATTTT
129 TTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTT
20550936 TGTTTAATCA
Statistics
Matches: 427, Mismatches: 35, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
295 21 0.05
296 101 0.24
297 167 0.39
298 2 0.00
299 8 0.02
300 61 0.14
301 67 0.16
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (296 bp):
TTTTTAAGCAAAATAGTGATTTTCTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATC
TATTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAACTATT
TCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAAAAAGAAAATATATA
TTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAATTTAAATTTTTAACAAATTT
TGAATTTTTCTAACTATTTCAAAATAAAAGTTTAAA
Found at i:20552396 original size:241 final size:239
Alignment explanation
Indices: 20551974--20552449 Score: 792
Period size: 241 Copynumber: 2.0 Consensus size: 239
20551964 AAAATCATAA
* *
20551974 TAATGATAAAAGATTGAATAAGTTGTAGATGAATTTTAATATTTCTGTTAATTCATTAGTAACTT
1 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
* *
20552039 TTAGGCTTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAAATTGAATGTATTTTACTAGAA
66 TTAGGC-GTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAAATTGAAAGTATTTTACTAGAA
20552104 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTCTAATTTAAGTTTTAAATTAGA
130 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTCTAATTTAAGTTTTAAATTAGA
* *
20552169 TAAGTTTGGTGAACACGTTTTAGTCAAGTTACAAGTAAATCGCAC
195 TAAGTTTGGTGAACACGTTTTACTCAAATTACAAGTAAATCGCAC
*
20552214 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTTATTAGTAAATT
1 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGT-AA--
* * *
20552279 TTTTTAGG-GTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTAGTAG
63 CTTTTAGGCGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAAATTGAAAGTATTTTACTAG
* * *
20552343 AATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATTTTTAATTTAAGTTTTAAATTA
128 AATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTCTAATTTAAGTTTTAAATTA
20552408 GATAAGTTTGGTGAACACGTTTTACTCAAATTACAAGTAAAT
193 GATAAGTTTGGTGAACACGTTTTACTCAAATTACAAGTAAAT
20552450 TGGAGGCATT
Statistics
Matches: 220, Mismatches: 13, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
240 57 0.26
241 156 0.71
243 7 0.03
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (239 bp):
TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
TTAGGCGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAAATTGAAAGTATTTTACTAGAAT
TATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTCTAATTTAAGTTTTAAATTAGAT
AAGTTTGGTGAACACGTTTTACTCAAATTACAAGTAAATCGCAC
Found at i:20554087 original size:20 final size:21
Alignment explanation
Indices: 20554062--20554101 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
20554052 TTATTCTTGC
* *
20554062 ATAAGATTAACAAGA-AAAAA
1 ATAAGAGTAAAAAGATAAAAA
20554082 ATAAGAGTAAAAAGATAAAA
1 ATAAGAGTAAAAAGATAAAA
20554102 GTAAATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.70, C:0.03, G:0.12, T:0.15
Consensus pattern (21 bp):
ATAAGAGTAAAAAGATAAAAA
Found at i:20563204 original size:26 final size:26
Alignment explanation
Indices: 20563168--20563296 Score: 125
Period size: 26 Copynumber: 5.0 Consensus size: 26
20563158 AGAAAAGAAT
*
20563168 TGATTATATAGTAGGCCTTGAGCCGG
1 TGATTATATAGCAGGCCTTGAGCCGG
** * *
20563194 TGATTATATAGCA-AACTTCGAGCTGA
1 TGATTATATAGCAGGCCTT-GAGCCGG
* * *
20563220 TGATTAAATAGCAGGCCTTGAGTCAG
1 TGATTATATAGCAGGCCTTGAGCCGG
* * * *
20563246 TGAATATTTAGCAAGCTTTGAGCCGG
1 TGATTATATAGCAGGCCTTGAGCCGG
*
20563272 TGATTAAATAGCAGGCCTTGAGCCG
1 TGATTATATAGCAGGCCTTGAGCCG
20563297 ATGACATTTA
Statistics
Matches: 77, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
25 3 0.04
26 71 0.92
27 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (26 bp):
TGATTATATAGCAGGCCTTGAGCCGG
Found at i:20563258 original size:52 final size:52
Alignment explanation
Indices: 20563168--20563295 Score: 166
Period size: 52 Copynumber: 2.5 Consensus size: 52
20563158 AGAAAAGAAT
* * * * *
20563168 TGATTATATAGTAGGCCTTGAGCCGGTGATTATATAGCAAACTTCGAGCTGA
1 TGATTAAATAGCAGGCCTTGAGCCAGTGAATATATAGCAAACTTCGAGCCGA
* * * * *
20563220 TGATTAAATAGCAGGCCTTGAGTCAGTGAATATTTAGCAAGCTTTGAGCCGG
1 TGATTAAATAGCAGGCCTTGAGCCAGTGAATATATAGCAAACTTCGAGCCGA
20563272 TGATTAAATAGCAGGCCTTGAGCC
1 TGATTAAATAGCAGGCCTTGAGCC
20563296 GATGACATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (52 bp):
TGATTAAATAGCAGGCCTTGAGCCAGTGAATATATAGCAAACTTCGAGCCGA
Found at i:20567380 original size:6 final size:6
Alignment explanation
Indices: 20567369--20567416 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
20567359 AATAATTATA
20567369 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
20567417 AAATCACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:20567984 original size:30 final size:31
Alignment explanation
Indices: 20567925--20568000 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
20567915 TTAATATAAT
* * * *
20567925 ATTTGGAACCTGAACTTGATACTTTTTTTTA
1 ATTTGGTACCTAAACATGACACTTTTTTTTA
20567956 ATTTGGTACCTAAACATGACACTTTTTTTTA
1 ATTTGGTACCTAAACATGACACTTTTTTTTA
* *
20567987 AGTTGGTACTTAAA
1 ATTTGGTACCTAAA
20568001 TTTTTTGGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (31 bp):
ATTTGGTACCTAAACATGACACTTTTTTTTA
Found at i:20568312 original size:57 final size:59
Alignment explanation
Indices: 20568230--20568339 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 59
20568220 AATTTTTTAA
*
20568230 AAAAATTAGATACCAAATT-AGAAAA-ATATCAAGTTCAGATACTAAATTAAGTCCAAT
1 AAAAATTAGATACCAAATTAAAAAAAGATATCAAGTTCAGATACTAAATTAAGTCCAAT
* * * *
20568287 AAAATTTAGGTACCAAATTAAAAAAAGATGTCAAGTTCAGATATTAAATTAAG
1 AAAAATTAGATACCAAATTAAAAAAAGATATCAAGTTCAGATACTAAATTAAG
20568340 AAAAAATATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 17 0.37
58 5 0.11
59 24 0.52
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (59 bp):
AAAAATTAGATACCAAATTAAAAAAAGATATCAAGTTCAGATACTAAATTAAGTCCAAT
Found at i:20569747 original size:31 final size:31
Alignment explanation
Indices: 20569689--20569747 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
20569679 ATTTAATGAA
**
20569689 GAGTGACCAAAATAGAAACGATTTAAAATGT
1 GAGTGACCAAAATAGAAACGACCTAAAATGT
* **
20569720 GAGTGATCAAAATAGAAATTACCTAAAA
1 GAGTGACCAAAATAGAAACGACCTAAAA
20569748 CATCAGTGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.22
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAACGACCTAAAATGT
Found at i:20573525 original size:18 final size:18
Alignment explanation
Indices: 20573504--20573541 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
20573494 TAAATTTTTG
20573504 AATTCGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
*
20573522 AATTTGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
20573540 AA
1 AA
20573542 AACTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:20576375 original size:18 final size:18
Alignment explanation
Indices: 20576352--20576388 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20576342 ATAATTCATA
20576352 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
20576370 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
20576388 T
1 T
20576389 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:20582295 original size:118 final size:117
Alignment explanation
Indices: 20581991--20582337 Score: 508
Period size: 114 Copynumber: 3.0 Consensus size: 117
20581981 GAAAGAAAAC
* * *
20581991 AAAACAGATGCACAATATTGGTATATACAAAAAATCTAACATAAGAAAGAAAACAAAGTCTTGGT
1 AAAACAGAT-CACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAATCTTGGT
* * * *
20582056 ATACATAATATTAGAATTTAACATGCCCTACAATCCTTCCATTCGATCGTGAG
65 ATACACAATATTAGAATTTAACATGCCCTACAATCCTTCCATTCTAACATGAG
* * *
20582109 AAAGA-A-ATCA-AA-ATAGATATATACCAAAAATCTGAAATAAGAAAGAAAACAAAATCTTGGT
1 AAA-ACAGATCACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAATCTTGGT
20582170 ATACACAATATTAGAATTTAACATGCCCTACAATCCTTCCATTCTAACATGAG
65 ATACACAATATTAGAATTTAACATGCCCTACAATCCTTCCATTCTAACATGAG
*
20582223 AAAACAGATACACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAATATTGGT
1 AAAACAGAT-CACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAATCTTGGT
20582288 ATACACAATATTAGAATTTAACATG-CCTA-ATAGTCCTTCCATTCTAACAT
65 ATACACAATATTAGAATTTAACATGCCCTACA-A-TCCTTCCATTCTAACAT
20582338 AAGCAAGCAA
Statistics
Matches: 207, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
113 1 0.00
114 96 0.46
115 4 0.02
116 5 0.02
117 9 0.04
118 91 0.44
119 1 0.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.26
Consensus pattern (117 bp):
AAAACAGATCACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAATCTTGGTA
TACACAATATTAGAATTTAACATGCCCTACAATCCTTCCATTCTAACATGAG
Found at i:20589889 original size:18 final size:19
Alignment explanation
Indices: 20589839--20589890 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
20589829 AAAAGAGTAG
*
20589839 ATAAAGAGCAACAAAAGAACA
1 ATAAA-AGC-ACACAAGAACA
*
20589860 AAAAAAGC-CACAAGAA-A
1 ATAAAAGCACACAAGAACA
20589877 ATAAAAGCACACAA
1 ATAAAAGCACACAA
20589891 AGTAGGGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 8 0.30
18 12 0.44
20 3 0.11
21 4 0.15
ACGTcount: A:0.67, C:0.17, G:0.12, T:0.04
Consensus pattern (19 bp):
ATAAAAGCACACAAGAACA
Found at i:20590657 original size:28 final size:27
Alignment explanation
Indices: 20590616--20590678 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
20590606 GGTTGGATGG
*
20590616 GAGAGGAGTGAAAGTTTTAAGAGAAAAGT
1 GAGA-GAGTAAAAGTTTTAAGAGAAAA-T
**
20590645 GAGAGAGTAAAAGTTTTGGGAGAAAAT
1 GAGAGAGTAAAAGTTTTAAGAGAAAAT
20590672 G-GAGAGT
1 GAGAGAGT
20590679 TTTGAGAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.19
27 2 0.06
28 19 0.61
29 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.21
Consensus pattern (27 bp):
GAGAGAGTAAAAGTTTTAAGAGAAAAT
Found at i:20594267 original size:13 final size:13
Alignment explanation
Indices: 20594235--20594295 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
20594225 TGAGTAGTAA
20594235 AAAT-AAATAAAT
1 AAATAAAATAAAT
*
20594247 AAACAAAATAAAT
1 AAATAAAATAAAT
*
20594260 AAGTAAAA-AAAT
1 AAATAAAATAAAT
20594272 GAAATAAAAATAAAT
1 -AAAT-AAAATAAAT
20594287 AGAATAAAA
1 A-AATAAAA
20594296 AAGTATGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 7 0.17
13 17 0.43
14 9 0.22
15 7 0.17
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:20594292 original size:5 final size:4
Alignment explanation
Indices: 20594235--20594294 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
20594225 TGAGTAGTAA
* * *
20594235 AAAT AAAT AAAT AAACA AAAT AAAT AAGT AAAA AAAT GAAAT -AA- AAAT
1 AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
20594283 AAAT AGAAT AAA
1 AAAT A-AAT AAA
20594295 AAAGTATGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 4 0.09
4 30 0.67
5 11 0.24
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:20594297 original size:17 final size:16
Alignment explanation
Indices: 20594233--20594279 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
20594223 TATGAGTAGT
20594233 AAAAATAAATAAATAA
1 AAAAATAAATAAATAA
*
20594249 ACAAAATAAATAAGTAA
1 A-AAAATAAATAAATAA
20594266 AAAAATGAAATAAA
1 AAAAAT-AAATAAA
20594280 AATAAATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (16 bp):
AAAAATAAATAAATAA
Found at i:20596496 original size:28 final size:27
Alignment explanation
Indices: 20596465--20596524 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
20596455 TTTAAATTGT
20596465 TTTTTAAATT-ATTATTTTTATTATTCAG
1 TTTTT-AATTGATTA-TTTTATTATTCAG
** *
20596493 TTTTTGTTTGATTATTTTATTATTCAT
1 TTTTTAATTGATTATTTTATTATTCAG
20596520 TTTTT
1 TTTTT
20596525 TTAAGTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (27 bp):
TTTTTAATTGATTATTTTATTATTCAG
Found at i:20620462 original size:10 final size:11
Alignment explanation
Indices: 20620449--20620494 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
20620439 AAAAATTCAC
20620449 AAAAAG-AAAG
1 AAAAAGAAAAG
20620459 AAAAAG-AAAG
1 AAAAAGAAAAG
*
20620469 AAGAAGAAAAG
1 AAAAAGAAAAG
20620480 AGAAAAGAAAAG
1 A-AAAAGAAAAG
20620492 AAA
1 AAA
20620495 TTTATTGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 15 0.47
11 7 0.22
12 10 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:20626788 original size:7 final size:7
Alignment explanation
Indices: 20626770--20626829 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
20626760 TTTCAAAAAA
*
20626770 GTCAATG
1 GTCAACG
20626777 GTCAACG
1 GTCAACG
*
20626784 ATCAACG
1 GTCAACG
*
20626791 GTCAA-A
1 GTCAACG
20626797 GTCAACG
1 GTCAACG
*
20626804 GTCAACA
1 GTCAACG
*
20626811 GTCAATG
1 GTCAACG
* *
20626818 CTCAAAG
1 GTCAACG
20626825 GTCAA
1 GTCAA
20626830 TGCCCGGTCA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 5 0.12
7 36 0.88
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:20626802 original size:20 final size:20
Alignment explanation
Indices: 20626777--20626815 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20626767 AAAGTCAATG
*
20626777 GTCAACGATCAACGGTCAAA
1 GTCAACGATCAACAGTCAAA
*
20626797 GTCAACGGTCAACAGTCAA
1 GTCAACGATCAACAGTCAA
20626816 TGCTCAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
GTCAACGATCAACAGTCAAA
Found at i:20626815 original size:27 final size:27
Alignment explanation
Indices: 20626767--20626829 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
20626757 GTTTTTCAAA
* *
20626767 AAAGTCAATGGTCAACGATCAACGGTC
1 AAAGTCAACGGTCAACGATCAACGCTC
*
20626794 AAAGTCAACGGTCAAC-AGTCAATGCTC
1 AAAGTCAACGGTCAACGA-TCAACGCTC
20626821 AAAGGTCAA
1 AAA-GTCAA
20626830 TGCCCGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 25 0.81
28 5 0.16
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (27 bp):
AAAGTCAACGGTCAACGATCAACGCTC
Found at i:20626822 original size:14 final size:13
Alignment explanation
Indices: 20626767--20626831 Score: 67
Period size: 14 Copynumber: 4.8 Consensus size: 13
20626757 GTTTTTCAAA
20626767 AAAGTCAATGGTC
1 AAAGTCAATGGTC
* *
20626780 AACGATCAACGGTC
1 AAAG-TCAATGGTC
*
20626794 AAAGTCAACGGTC
1 AAAGTCAATGGTC
*
20626807 AACAGTCAATGCTC
1 AA-AGTCAATGGTC
20626821 AAAGGTCAATG
1 AAA-GTCAATG
20626832 CCCGGTCAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
13 15 0.34
14 29 0.66
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (13 bp):
AAAGTCAATGGTC
Found at i:20626877 original size:11 final size:11
Alignment explanation
Indices: 20626848--20626877 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
20626838 CAATAGTCAA
*
20626848 TCAACGGCCGG
1 TCAACGGTCGG
20626859 TCAACGGTCGG
1 TCAACGGTCGG
20626870 TCAACGGT
1 TCAACGGT
20626878 TTGACTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (11 bp):
TCAACGGTCGG
Found at i:20628585 original size:38 final size:37
Alignment explanation
Indices: 20628534--20628608 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
20628524 AGTCAGCTCC
20628534 TATATCAATTTTAGCCTTACTTTCAAGCTTGGATGGCG
1 TATATCAATTTTAGCCTTACTTTCAAGCTTGGA-GGCG
*
20628572 TATATCAATTTTAGCCTTACTTTTAAGCTTGGAGGCG
1 TATATCAATTTTAGCCTTACTTTCAAGCTTGGAGGCG
20628609 CATCACAACG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (37 bp):
TATATCAATTTTAGCCTTACTTTCAAGCTTGGAGGCG
Found at i:20634332 original size:46 final size:46
Alignment explanation
Indices: 20634276--20634393 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 46
20634266 TACATCACCA
* * * *
20634276 CATCTAATCTTATACCCCTAAATCTAGAGCGACAGGTTGAAGCCAC
1 CATCAAATCTTATACCCCTAAATCCAGAGCGACAGATTAAAGCCAC
* * * *
20634322 CATCCAATCTTATACCCCTAAATCCAGAGGGGCAGATTAAAGTCAC
1 CATCAAATCTTATACCCCTAAATCCAGAGCGACAGATTAAAGCCAC
*
20634368 CATCAAATCTTATATCCCTAAATCCA
1 CATCAAATCTTATACCCCTAAATCCA
20634394 AAAGGGCAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.25
Consensus pattern (46 bp):
CATCAAATCTTATACCCCTAAATCCAGAGCGACAGATTAAAGCCAC
Found at i:20634409 original size:46 final size:46
Alignment explanation
Indices: 20634319--20634438 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
20634309 AGGTTGAAGC
* * * * *
20634319 CACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAGATTAAAGT
1 CACCATCAAATCTTATACCCCTAAATCCAAAAGGGCAAAATAAAGT
*
20634365 CACCATCAAATCTTATATCCCTAAATCCAAAAGGGCAAAATAAAG-
1 CACCATCAAATCTTATACCCCTAAATCCAAAAGGGCAAAATAAAGT
* *
20634410 CTACCAGATCAAATCGTATACTCCTAAAT
1 C-ACC--ATCAAATCTTATACCCCTAAAT
20634439 TTGGAGAGGC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 1 0.02
46 42 0.68
48 19 0.31
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.23
Consensus pattern (46 bp):
CACCATCAAATCTTATACCCCTAAATCCAAAAGGGCAAAATAAAGT
Found at i:20637910 original size:90 final size:90
Alignment explanation
Indices: 20637757--20637936 Score: 281
Period size: 90 Copynumber: 2.0 Consensus size: 90
20637747 TTTAAAGGGT
* * * * *
20637757 TTGGACAAAATTATTAGGCTCGAGAATGAGTTCGGGTAAAAAATTAGGCTCGTTTAAAATATGAA
1 TTGGACAAAAATATTAGGCTCGAAAATGAGTTCGGGCAAAAAATTAAGCTCATTTAAAATATGAA
*
20637822 TCAGGTTTGAGCTTGAATATTCAAG
66 TCAGGCTTGAGCTTGAATATTCAAG
*
20637847 TTGGACAAAAATATTAGGCTCGAAAAT-AGGTTTGGGCAAAAAATTAAGCTCATTTAAAATATGA
1 TTGGACAAAAATATTAGGCTCGAAAATGA-GTTCGGGCAAAAAATTAAGCTCATTTAAAATATGA
20637911 ATCAGGCTTGAGCTTGAATATTCAAG
65 ATCAGGCTTGAGCTTGAATATTCAAG
20637937 GCCTCAAGCC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 1 0.01
90 81 0.99
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (90 bp):
TTGGACAAAAATATTAGGCTCGAAAATGAGTTCGGGCAAAAAATTAAGCTCATTTAAAATATGAA
TCAGGCTTGAGCTTGAATATTCAAG
Found at i:20641700 original size:53 final size:53
Alignment explanation
Indices: 20641571--20641871 Score: 340
Period size: 53 Copynumber: 5.7 Consensus size: 53
20641561 TTCATATTTG
* * * * * *
20641571 ATAACTCATGGTGACACAAAGTCATCTA-ACCTTTAATCCGTGAT-GAATTCGT
1 ATAACTCACGATGACACAAAGTCATC-AGACCCTTAATCCGTAATAGGATTCAT
*
20641623 ATATCTCACGATGACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
* ** * * * **
20641676 ATAACTCACGATGACACATAGTCATTGGACCTTTAATCCATGAT-GGATTTGT
1 ATAACTCACGATGACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
* * * *
20641728 ATATCTTACGATGACACAAAGTCATCAGACTCTTAGTCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
* *
20641781 ATAACTCACGATGACACATAA-TCATCGGACCCTTAATCCATAATAGGATTCAT
1 ATAACTCACGATGACACA-AAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
* * *
20641834 ATAACTCACGATGACACATAGTCATTAGACCTTTAATC
1 ATAACTCACGATGACACAAAGTCATCAGACCCTTAATC
20641872 TTTGGCACAA
Statistics
Matches: 206, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
51 1 0.00
52 78 0.38
53 125 0.61
54 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
Found at i:20641753 original size:105 final size:105
Alignment explanation
Indices: 20641571--20641871 Score: 406
Period size: 105 Copynumber: 2.9 Consensus size: 105
20641561 TTCATATTTG
* * * * * *
20641571 ATAACTCATGGTGACACAAAGTCATCT-AACCTTTAATCCGTGATGAATTCGTATATCTCACGAT
1 ATAACTCACGATGACACATAGTCAT-TGGACCTTTAATCCATGATGGATTCGTATATCTCACGAT
20641635 GACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
65 GACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
* *
20641676 ATAACTCACGATGACACATAGTCATTGGACCTTTAATCCATGATGGATTTGTATATCTTACGATG
1 ATAACTCACGATGACACATAGTCATTGGACCTTTAATCCATGATGGATTCGTATATCTCACGATG
* *
20641741 ACACAAAGTCATCAGACTCTTAGTCCGTAATAGGATTCAT
66 ACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
* * * * * *
20641781 ATAACTCACGATGACACATAATCATCGGACCCTTAATCCATAATAGGATTCATATAACTCACGAT
1 ATAACTCACGATGACACATAGTCATTGGACCTTTAATCCATGAT-GGATTCGTATATCTCACGAT
* * *
20641846 GACACATAGTCATTAGACCTTTAATC
65 GACACAAAGTCATCAGACCCTTAATC
20641872 TTTGGCACAA
Statistics
Matches: 171, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
104 1 0.01
105 133 0.78
106 37 0.22
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (105 bp):
ATAACTCACGATGACACATAGTCATTGGACCTTTAATCCATGATGGATTCGTATATCTCACGATG
ACACAAAGTCATCAGACCCTTAATCCGTAATAGGATTCAT
Found at i:20641838 original size:158 final size:157
Alignment explanation
Indices: 20641582--20641871 Score: 451
Period size: 158 Copynumber: 1.8 Consensus size: 157
20641572 TAACTCATGG
* * *
20641582 TGACACAAAGTCATCTAACCTTTAATCCGTGATGAATTCGTATATCTCACGATGACACAAAGTCA
1 TGACACAAAGTCATCTAACCTTTAATCCGTAATGAATTCATATAACTCACGATGACACAAAGTCA
* *
20641647 TCAGACCCTTAATCCGTAATAGGATTCATATAACTCACGATGACACATAGTCATTGGACCTTTAA
66 TCAGACCCTTAATCCATAATAGGATTCATATAACTCACGATGACACATAGTCATTAGACCTTTAA
20641712 TCCATGATGGATTTGTATATCTTACGA
131 TCCATGATGGATTTGTATATCTTACGA
* *
20641739 TGACACAAAGTCATC-AGA-CTCTTAGTCCGTAATAGGATTCATATAACTCACGATGACACATAA
1 TGACACAAAGTCATCTA-ACCT-TTAATCCGTAAT-GAATTCATATAACTCACGATGACACA-AA
*
20641802 -TCATCGGACCCTTAATCCATAATAGGATTCATATAACTCACGATGACACATAGTCATTAGACCT
62 GTCATCAGACCCTTAATCCATAATAGGATTCATATAACTCACGATGACACATAGTCATTAGACCT
20641866 TTAATC
127 TTAATC
20641872 TTTGGCACAA
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
156 3 0.02
157 26 0.21
158 90 0.74
159 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (157 bp):
TGACACAAAGTCATCTAACCTTTAATCCGTAATGAATTCATATAACTCACGATGACACAAAGTCA
TCAGACCCTTAATCCATAATAGGATTCATATAACTCACGATGACACATAGTCATTAGACCTTTAA
TCCATGATGGATTTGTATATCTTACGA
Found at i:20648158 original size:30 final size:30
Alignment explanation
Indices: 20648122--20648184 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
20648112 GAATCATATT
*
20648122 TTCAATCTTTGGCACAAGGCCGGGTACTTC
1 TTCAATCTTTGGCACAAGGCCGAGTACTTC
*
20648152 TTCAATCTTTGGCACAAGGCTGAGTACTTC
1 TTCAATCTTTGGCACAAGGCCGAGTACTTC
20648182 TTC
1 TTC
20648185 TATCATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (30 bp):
TTCAATCTTTGGCACAAGGCCGAGTACTTC
Found at i:20655674 original size:36 final size:35
Alignment explanation
Indices: 20655457--20656311 Score: 915
Period size: 35 Copynumber: 23.8 Consensus size: 35
20655447 TCGACCTTTA
20655457 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC--TT
* * * *
20655495 AAAAAGGTTGTGATAGACTCGTTTAAGACAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* * *
20655530 AAAAAGGTTGGGGTATACATTTTCTAAGGCAACCTTT
1 AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC-TT
* *
20655567 AAAAAAGGTTGGGGTATACATTGTCTAAGGCAACCTTT
1 -AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC-TT
** ** *
20655605 AAAAAAGGTTATGATAGACCCGTTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* *
20655641 AAAAAGGTTAGGATAGATCTTGTCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC-TT
* * ** *
20655678 AAAAAAGATTGGGGTAGACCCGTCGAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
** *
20655714 AAAAAGGTTGCAATAGGTA-TTGTCTAAGGCAACATTT
1 AAAAAGGTTGGGATA-G-ACTTGTCTAAGGCAAC-CTT
* * *
20655751 AAAAAGGGTTGGGATAAACTCGTCTAAGACAACCTT
1 AAAAA-GGTTGGGATAGACTTGTCTAAGGCAACCTT
* * * *
20655787 AAAAAGGTTGGGATAGACCTTTTCTATGACACCCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
*
20655823 AAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
20655858 AAAAAGGTTGGGATAGACCTT-TACTAAGGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGT-CTAAGGCAACCTT
*
20655894 AAAAAGGTTGGGATAGACCTTGCCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
* ** *
20655930 AAAAATGTTGGGATAGACCCGTCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
20655965 AAAAAGGTTGGGATAGACCTTG-CTAAGGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
* * *** * *
20656000 AAAAAGTTTAGGATAGACCCATCAAAGGCAACTTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* *
20656035 AGAAAGGTTGGGATAGACTTTGTCTAAGGCAACCAT
1 AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTT
* ** *
20656071 AAAAAAGTTGGGATAGACCCGTCTTAGGCAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
*
20656106 AAAAAGGTTGGGATAGATTTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
* * *
20656142 AAAAAGGTTGGGATAGACCTGTCTAAGACATCCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* * *
20656177 AAAAAGGTTGGGATAGACCTGTCTAAGGAAACTTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* *
20656212 AAAATGGTTGGGATAGACTTTGTCTAAGCCAACCTT
1 AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTT
20656248 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
* *
20656284 AAAAAGGTTGGGATAGACCTGTTTAAGG
1 AAAAAGGTTGGGATAGACTTGTCTAAGG
20656312 TTGGGATACA
Statistics
Matches: 686, Mismatches: 110, Indels: 45
0.82 0.13 0.05
Matches are distributed among these distances:
34 1 0.00
35 269 0.39
36 265 0.39
37 62 0.09
38 89 0.13
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
Found at i:20655845 original size:71 final size:71
Alignment explanation
Indices: 20655457--20656303 Score: 900
Period size: 71 Copynumber: 11.8 Consensus size: 71
20655447 TCGACCTTTA
* * * *
20655457 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTTAAAAAGGTTGTGATAGA-CTCGTTTAA
1 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACC--TTAAAAAGGTTGGGATAGACCTTGTCTAA
20655521 GACAACCTT
63 GACAACCTT
* * ** * * *
20655530 AAAAAGGTTGGGGTATACATTTTCTAAGGCAACCTTTAAAAAAGGTTGGGGTATACATTGTCTAA
1 AAAAAGGTTGGGATAGAC-TCGTCTAAGGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAA
*
20655595 GGCAACCTTT
63 GACAACC-TT
** * * * *
20655605 AAAAAAGGTTATGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTAGGATAGATCTTGTCTAAGA
1 -AAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
20655670 CAACCTTT
65 CAACC-TT
* * * * ** *** *
20655678 AAAAAAGATTGGGGTAGACCCGTCGAAGGCAACCTTAAAAAGGTTGCAATAGGTATTGTCTAAGG
1 -AAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
*
20655743 CAACATTT
65 CAAC-CTT
* * * *
20655751 AAAAAGGGTTGGGATAAACTCGTCTAAGACAACCTTAAAAAGGTTGGGATAGACCTTTTCTATGA
1 AAAAA-GGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
*
20655816 CACCCTT
65 CAACCTT
*
20655823 AAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTT-TACTAAGG
1 AAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGT-CTAAGA
20655887 CAACCTT
65 CAACCTT
* * * *
20655894 AAAAAGGTTGGGATAGACCTTGCCTAAGGCAACCTTAAAAATGTTGGGATAGACC-CGTCTAAGA
1 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
20655958 CAACCTT
65 CAACCTT
* * * ** * *
20655965 AAAAAGGTTGGGATAGAC-CTTGCTAAGGCAACCTTAAAAAGTTTAGGATAGACC-CATCAAAGG
1 AAAAAGGTTGGGATAGACTCGT-CTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
*
20656028 CAACTTT
65 CAACCTT
* * * * * * *
20656035 AGAAAGGTTGGGATAGACTTTGTCTAAGGCAACCATAAAAAAGTTGGGATAGACC-CGTCTTAGG
1 AAAAAGGTTGGGATAGAC-TCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
20656099 CAACCTT
65 CAACCTT
* *
20656106 AAAAAGGTTGGGATAGATTTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACC-TGTCTAAGA
1 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
*
20656170 CATCCTT
65 CAACCTT
* * * * *
20656177 AAAAAGGTTGGGATAGAC-CTGTCTAAGGAAACTTTAAAATGGTTGGGATAGACTTTGTCTAAGC
1 AAAAAGGTTGGGATAGACTC-GTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGA
20656241 CAACCTT
65 CAACCTT
*
20656248 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCT
1 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCT
20656304 GTTTAAGGTT
Statistics
Matches: 651, Mismatches: 105, Indels: 37
0.82 0.13 0.05
Matches are distributed among these distances:
70 90 0.14
71 255 0.39
72 84 0.13
73 181 0.28
74 14 0.02
75 13 0.02
76 14 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (71 bp):
AAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGAC
AACCTT
Found at i:20664134 original size:29 final size:29
Alignment explanation
Indices: 20664101--20664167 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
20664091 ACATAGCACT
20664101 TGCTAAATAAAACACCGAC-AC-AGAGTGTC
1 TGCTAAATAAAACACCGACAACTA-A-TGTC
*
20664130 TGCT-ATTGAAAACACCGACAACTAATGTC
1 TGCTAAAT-AAAACACCGACAACTAATGTC
20664159 TGCTAAATA
1 TGCTAAATA
20664168 TACACTGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
28 2 0.06
29 24 0.75
30 5 0.16
31 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.22
Consensus pattern (29 bp):
TGCTAAATAAAACACCGACAACTAATGTC
Found at i:20664193 original size:26 final size:26
Alignment explanation
Indices: 20664159--20664267 Score: 132
Period size: 26 Copynumber: 4.2 Consensus size: 26
20664149 AACTAATGTC
*
20664159 TGCTAAATATACACTGACATAAAGCT
1 TGCTAAATATACACTGACACAAAGCT
* * * *
20664185 TGCTTAATATACATTGGCACAAAGCC
1 TGCTAAATATACACTGACACAAAGCT
20664211 TGCTAAATATACACT-AGCACAAAGCT
1 TGCTAAATATACACTGA-CACAAAGCT
*
20664237 TGCTAAATATACACT-AGCACAAAGCC
1 TGCTAAATATACACTGA-CACAAAGCT
20664263 TGCTA
1 TGCTA
20664268 CGCCCTAGTG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TGCTAAATATACACTGACACAAAGCT
Found at i:20664236 original size:52 final size:52
Alignment explanation
Indices: 20664158--20664267 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 52
20664148 CAACTAATGT
* * * *
20664158 CTGCTAAATATACACTGACATAAAGCTTGCTTAATATACATTGGCACAAAGC
1 CTGCTAAATATACACTGACACAAAGCTTGCTAAATATACACTAGCACAAAGC
20664210 CTGCTAAATATACACT-AGCACAAAGCTTGCTAAATATACACTAGCACAAAGC
1 CTGCTAAATATACACTGA-CACAAAGCTTGCTAAATATACACTAGCACAAAGC
20664262 CTGCTA
1 CTGCTA
20664268 CGCCCTAGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 1 0.02
52 52 0.98
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.25
Consensus pattern (52 bp):
CTGCTAAATATACACTGACACAAAGCTTGCTAAATATACACTAGCACAAAGC
Found at i:20665156 original size:53 final size:53
Alignment explanation
Indices: 20665071--20665176 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
20665061 CAAGCTCATG
* * *
20665071 GAAATGGTGTTTCTTTCTTTCAATTTCGGTGGTGATAGCTTTTAGAAGATGAC
1 GAAACGGTGTTTCTTTCGTTCAATTTCGGTGGTGATAGCTTCTAGAAGATGAC
*
20665124 GAAACGGTGTTTCTTTCGTTCAATTTCGGTGGTGATAGCTTCTGGAAGATGAC
1 GAAACGGTGTTTCTTTCGTTCAATTTCGGTGGTGATAGCTTCTAGAAGATGAC
20665177 TACATGTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (53 bp):
GAAACGGTGTTTCTTTCGTTCAATTTCGGTGGTGATAGCTTCTAGAAGATGAC
Found at i:20670954 original size:24 final size:24
Alignment explanation
Indices: 20670927--20670978 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
20670917 TTTTGAAATC
*
20670927 ATTTATTTTA-TAAAACAACACATT
1 ATTTATTTTATTAAAA-AAAACATT
20670951 ATTTATTTTATTAAAAAAAACATT
1 ATTTATTTTATTAAAAAAAACATT
20670975 -TTTA
1 ATTTA
20670979 GAAAGCTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 17 0.65
25 5 0.19
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTATTTTATTAAAAAAAACATT
Found at i:20671136 original size:29 final size:30
Alignment explanation
Indices: 20671090--20671172 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 30
20671080 AAATTTAAAT
*
20671090 TATAAA-AATAAAATTAAATAAATAAAT-AA
1 TATAAATAAGAAAA-TAAATAAATAAATGAA
* * *
20671119 TATAAATAGGAAAATAAATTAA-AATTGAA
1 TATAAATAAGAAAATAAATAAATAAATGAA
* * *
20671148 TATATATAATAAAATAATTAAATAA
1 TATAAATAAGAAAATAAATAAATAA
20671173 GAGAATTGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 3 0.07
29 32 0.76
30 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (30 bp):
TATAAATAAGAAAATAAATAAATAAATGAA
Found at i:20673230 original size:42 final size:42
Alignment explanation
Indices: 20673183--20673294 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
20673173 TAGGGACGTA
* *
20673183 AGATTCGCCTTTGCAGCTTTAATCTAGC-CCTTTACAG-CTTTG
1 AGATTCGCCTTTGCAGCTTCAATCT-GCTCCTCTACAGTC-TTG
* *
20673225 AGATTCGCCTTTACGGCTTCAATCTGCTCCTCTACAGTCTTG
1 AGATTCGCCTTTGCAGCTTCAATCTGCTCCTCTACAGTCTTG
*
20673267 AGAATT-GCCTTTGCAACTTCAATCTGCT
1 AG-ATTCGCCTTTGCAGCTTCAATCTGCT
20673295 TCTCCATATC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 54 0.90
43 4 0.07
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.37
Consensus pattern (42 bp):
AGATTCGCCTTTGCAGCTTCAATCTGCTCCTCTACAGTCTTG
Found at i:20673235 original size:21 final size:20
Alignment explanation
Indices: 20673183--20673243 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
20673173 TAGGGACGTA
*
20673183 AGATTCGCCTTTGCAGCTTT
1 AGATTCGCCTTTACAGCTTT
*
20673203 A-ATCTAGCCCTTTACAGCTTT
1 AGAT-TCG-CCTTTACAGCTTT
*
20673224 GAGATTCGCCTTTACGGCTT
1 -AGATTCGCCTTTACAGCTT
20673244 CAATCTGCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 23 0.70
22 3 0.09
23 2 0.06
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (20 bp):
AGATTCGCCTTTACAGCTTT
Found at i:20673355 original size:49 final size:49
Alignment explanation
Indices: 20673302--20673983 Score: 640
Period size: 49 Copynumber: 13.9 Consensus size: 49
20673292 GCTTCTCCAT
* * * * *
20673302 ATCTTTAGGGTATAAGATTTACCGTTACGGCTTCAATCTTTCCTTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * ** * * *
20673351 ATCTTTTAGGGTACAAGATTCGCTATTGCAGCTTCAATATTTCCCATCAC
1 ATC-TCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * * ** * *
20673401 ATCTCTAAGGTATAAGATTCGCCGTTGCGATTTCAATCATTCTCTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* **
20673450 ATCTCTAGGGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * * *
20673499 ATCTCTAGGGTATAAGATTCACCATTGTGGCTTCAATCTTTTCCTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * * * *
20673548 ATCTCTAGGGTACAAGATTCGCCATTACGGCTTCAATTTTTCCC-TCAAT
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTC-AC
* * * *
20673597 ATCTCTAGGATACAAGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * * * * * *
20673646 ATCCCTAGGGTACAAGATTCGCCATTGCGGCTTTAACCTTTCCCTCCAT
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * * * * *
20673695 ATCTCTAAGGTACAAGATTCATCGTTACGACTTTAATCTTTCCCATCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * ** *
20673744 ATCTCTAAGGTACAAAATTCGTCATTGCGGCTTCAAATCTTTCCCTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTC-AATCTTTCCCTTCAC
* * * *
20673794 ATCTCTA-GGTACAAGATTCATCATTGCGGCTTCAATCTTTCCCATCAT
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* *
20673842 ATCTCTAAGGTACAAGATTCACCGTTGCGACTTCAATCTTTCCCTTCAC
1 ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
* * * **
20673891 GTC-CTTA-TGTATAAGATTCACCGTTGCAACTTCAATCTTT-CCTATCAC
1 ATCTC-TAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCT-TCAC
* * * * *
20673939 GTC-CTTA-TGTATAAGATTCATCGTTGCGGTTTCAATCTTTCCCTT
1 ATCTC-TAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTT
20673984 TACGTCTTCA
Statistics
Matches: 535, Mismatches: 90, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
47 3 0.01
48 94 0.18
49 376 0.70
50 62 0.12
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.36
Consensus pattern (49 bp):
ATCTCTAGGGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCTTCAC
Found at i:20674841 original size:18 final size:18
Alignment explanation
Indices: 20674818--20674870 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
20674808 TAACCTCTCT
20674818 CTTTTTTTCTTTTCTTTA
1 CTTTTTTTCTTTTCTTTA
*
20674836 CTTTTTTTC-TTTCTTTT
1 CTTTTTTTCTTTTCTTTA
*
20674853 TTCTTTTTTCTTTTCTTT
1 CT-TTTTTTCTTTTCTTT
20674871 GGTTTCAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 8 0.26
18 16 0.52
19 7 0.23
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
CTTTTTTTCTTTTCTTTA
Found at i:20679073 original size:16 final size:16
Alignment explanation
Indices: 20679052--20679082 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20679042 ATAATGTTAA
20679052 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
20679068 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
20679083 GGATCAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:20679916 original size:26 final size:26
Alignment explanation
Indices: 20679880--20679933 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
20679870 ATTTTGGGCG
20679880 CAATTCTGGACACGTTCATGCAACGA
1 CAATTCTGGACACGTTCATGCAACGA
* * *
20679906 CAATTTTGGACATGTTCATGCAGCGA
1 CAATTCTGGACACGTTCATGCAACGA
20679932 CA
1 CA
20679934 TTCCTGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (26 bp):
CAATTCTGGACACGTTCATGCAACGA
Found at i:20686293 original size:18 final size:18
Alignment explanation
Indices: 20686257--20686294 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20686247 TGAACTTTAC
*
20686257 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCAAAT
*
20686275 AATTTGAATAACTTAAAT
1 AATTTGAATAACTCAAAT
20686293 AA
1 AA
20686295 CATATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (18 bp):
AATTTGAATAACTCAAAT
Found at i:20686605 original size:16 final size:16
Alignment explanation
Indices: 20686586--20686616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20686576 TTGAGAGAGT
20686586 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
20686602 TTTCAAATTTATATG
1 TTTCAAATATATATG
20686617 TTCTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:20687433 original size:11 final size:11
Alignment explanation
Indices: 20687419--20687497 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 11
20687409 TTTCCCATTG
20687419 TTTTGTTATTA
1 TTTTGTTATTA
* *
20687430 TTTTCTTATTG
1 TTTTGTTATTA
* * *
20687441 TTTTCTGACTA
1 TTTTGTTATTA
*
20687452 TTTTGTTATCA
1 TTTTGTTATTA
**
20687463 TTTCATTATTA
1 TTTTGTTATTA
* *
20687474 TGTTGTTACTA
1 TTTTGTTATTA
*
20687485 CTTTGTTATTA
1 TTTTGTTATTA
20687496 TT
1 TT
20687498 ACTTGGATAT
Statistics
Matches: 48, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 48 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:20687456 original size:33 final size:34
Alignment explanation
Indices: 20687419--20687497 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
20687409 TTTCCCATTG
* *
20687419 TTTTGTTATTATTTTC-TTATTGTTTTCTGACTA
1 TTTTGTTATTATTTTCATTATTATGTTCTGACTA
* * *
20687452 TTTTGTTATCA-TTTCATTATTATGTTGTTACTA
1 TTTTGTTATTATTTTCATTATTATGTTCTGACTA
*
20687485 CTTTGTTATTATT
1 TTTTGTTATTATT
20687498 ACTTGGATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 4 0.11
33 32 0.86
34 1 0.03
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (34 bp):
TTTTGTTATTATTTTCATTATTATGTTCTGACTA
Found at i:20689872 original size:16 final size:16
Alignment explanation
Indices: 20689851--20689890 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
20689841 CCTCTCGATT
* *
20689851 TCTCTCTTCTTTTTCA
1 TCTCTCTTATTTATCA
*
20689867 TCTCTCTTATTTATCT
1 TCTCTCTTATTTATCA
20689883 TCTCTCTT
1 TCTCTCTT
20689891 TCTGTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.62
Consensus pattern (16 bp):
TCTCTCTTATTTATCA
Found at i:20690732 original size:40 final size:39
Alignment explanation
Indices: 20690660--20690742 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
20690650 GACACGTTGT
*
20690660 AGTGTTTACAGTATCACTGCCAGTTCAATTATAATCTTA
1 AGTGTTTACAGTATCACTGCCAATTCAATTATAATCTTA
* * * *
20690699 CAGTGTTTACAGTGTCACTGCCAATTTAGTTATAATTTTA
1 -AGTGTTTACAGTATCACTGCCAATTCAATTATAATCTTA
20690739 AGTG
1 AGTG
20690743 GGTTAACTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (39 bp):
AGTGTTTACAGTATCACTGCCAATTCAATTATAATCTTA
Found at i:20691238 original size:53 final size:54
Alignment explanation
Indices: 20691138--20691281 Score: 141
Period size: 53 Copynumber: 2.7 Consensus size: 54
20691128 TTATTACAGA
* * * * *
20691138 CCATGTGT-CTCAAAACAATATACACACGCCCTGACAC-TCGTCTATGTGCCAGC
1 CCATGTGTCCT-AGAACAATATACACACACCCTGACACATCGCCCATGTGCCAAC
* *
20691191 CCATGTGTCCTAGAACAATATACACACACCTTGACACAT-GCCCATGTGTCAAC
1 CCATGTGTCCTAGAACAATATACACACACCCTGACACATCGCCCATGTGCCAAC
* * * * * *
20691244 CTATATGCCCCAGAATAGTATACACACACCCTGACACA
1 CCATGTGTCCTAGAACAATATACACACACCCTGACACA
20691282 CGTCTGTGTG
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 72 0.96
54 3 0.04
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (54 bp):
CCATGTGTCCTAGAACAATATACACACACCCTGACACATCGCCCATGTGCCAAC
Found at i:20694708 original size:658 final size:658
Alignment explanation
Indices: 20693452--20694767 Score: 2605
Period size: 658 Copynumber: 2.0 Consensus size: 658
20693442 CTTAGAGTTC
20693452 CACTCAAACTACAATTTCGTCCGGTAAGTTCATAGTGTTAGTTTATATTCTTTGGATGATTCTTT
1 CACTCAAACTACAATTTCGTCCGGTAAGTTCATAGTGTTAGTTTATATTCTTTGGATGATTCTTT
20693517 ATGTATTCAATATTGATGTAGCAACTCAAGGAAGGTTAAATGTTCGTGAAGATGGGAAAAATGAA
66 ATGTATTCAATATTGATGTAGCAACTCAAGGAAGGTTAAATGTTCGTGAAGATGGGAAAAATGAA
*
20693582 TTAAGAAACGAGATGTCAAGCTTAGGGTCGATTATTTGAATCGACACGATGGTTAAGATCCTACA
131 TTAAGAAACGAGATGTCAAGCTTAGGGTCGATTATCTGAATCGACACGATGGTTAAGATCCTACA
20693647 TGTGTTCAATTTCCTAACATCTTGTGTGAGCAGCATTGCGAGTTGACAAATTCTGAATGAGTACT
196 TGTGTTCAATTTCCTAACATCTTGTGTGAGCAGCATTGCGAGTTGACAAATTCTGAATGAGTACT
*
20693712 GATTATATGAACCCCTACGATGGCTGAGTTTTTGCATACGTTGTGGATTCTCATCAGCTTGTGTG
261 GATTATATGAACCCCTACGATGGCTGAGTTTTTGCATACGTTGTGGATTCTCATCAGCTTGTGTA
20693777 AGCAGCATCGTGAGTAGGTAATTCTGGATCGTATCAATGGCTGAGTTTCTGCATATGTTACGATT
326 AGCAGCATCGTGAGTAGGTAATTCTGGATCGTATCAATGGCTGAGTTTCTGCATATGTTACGATT
20693842 TCTCATCAACTTGTGTAAGCAGTATCGTATACTGGTTAAACTCTGTCTAAGCTCATAAGAGCTAA
391 TCTCATCAACTTGTGTAAGCAGTATCGTATACTGGTTAAACTCTGTCTAAGCTCATAAGAGCTAA
20693907 CCTATCTAGGCTTATAAGAGCTAATTCTGTCTGGGATCGAAAGAGCTAAATATCTGGAAGACCTA
456 CCTATCTAGGCTTATAAGAGCTAATTCTGTCTGGGATCGAAAGAGCTAAATATCTGGAAGACCTA
20693972 AATAGATCAATCTGATATTGTTTCACAGGGTTATGAATAAATATTTACTATTATTTTTTATAACT
521 AATAGATCAATCTGATATTGTTTCACAGGGTTATGAATAAATATTTACTATTATTTTTTATAACT
20694037 GATTTGGTTATTCTGTAAGATGTTAATTTTGCGAACTTACTAAGCTCAATAAGCTTACCTATGTA
586 GATTTGGTTATTCTGTAAGATGTTAATTTTGCGAACTTACTAAGCTCAATAAGCTTACCTATGTA
20694102 TCTATTAT
651 TCTATTAT
20694110 CACTCAAACTACAATTTCGTCCGGTAAGTTCATAGTGTTAGTTTATATTCTTTGGATGATTCTTT
1 CACTCAAACTACAATTTCGTCCGGTAAGTTCATAGTGTTAGTTTATATTCTTTGGATGATTCTTT
20694175 ATGTATTCAATATTGATGTAGCAACTCAAGGAAGGTTAAATGTTCGTGAAGATGGGAAAAATGAA
66 ATGTATTCAATATTGATGTAGCAACTCAAGGAAGGTTAAATGTTCGTGAAGATGGGAAAAATGAA
*
20694240 TTAAGAAACGAGATGTCAAGCTTAGGGTCGGTTATCTGAATCGACACGATGGTTAAGATCCTACA
131 TTAAGAAACGAGATGTCAAGCTTAGGGTCGATTATCTGAATCGACACGATGGTTAAGATCCTACA
20694305 TGTGTTCAATTTCCTAACATCTTGTGTGAGCAGCATTGCGAGTTGACAAATTCTGAATGAGTACT
196 TGTGTTCAATTTCCTAACATCTTGTGTGAGCAGCATTGCGAGTTGACAAATTCTGAATGAGTACT
20694370 GATTATATGAACCCCTACGATGGCTGAGTTTTTGCATACGTTGTGGATTCTCATCAGCTTGTGTA
261 GATTATATGAACCCCTACGATGGCTGAGTTTTTGCATACGTTGTGGATTCTCATCAGCTTGTGTA
20694435 AGCAGCATCGTGAGTAGGTAATTCTGGATCGTATCAATGGCTGAGTTTCTGCATATGTTACGATT
326 AGCAGCATCGTGAGTAGGTAATTCTGGATCGTATCAATGGCTGAGTTTCTGCATATGTTACGATT
20694500 TCTCATCAACTTGTGTAAGCAGTATCGTATACTGGTTAAACTCTGTCTAAGCTCATAAGAGCTAA
391 TCTCATCAACTTGTGTAAGCAGTATCGTATACTGGTTAAACTCTGTCTAAGCTCATAAGAGCTAA
20694565 CCTATCTAGGCTTATAAGAGCTAATTCTGTCTGGGATCGAAAGAGCTAAATATCTGGAAGACCTA
456 CCTATCTAGGCTTATAAGAGCTAATTCTGTCTGGGATCGAAAGAGCTAAATATCTGGAAGACCTA
20694630 AATAGATCAATCTGATATTGTTTCACAGGGTTATGAATAAATATTTACTATTATTTTTTATAACT
521 AATAGATCAATCTGATATTGTTTCACAGGGTTATGAATAAATATTTACTATTATTTTTTATAACT
20694695 GATTTGGTTATTCTGTAAGATGTTAATTTTGCGAACTTACTAAGCTCAATAAGCTTACCTATGTA
586 GATTTGGTTATTCTGTAAGATGTTAATTTTGCGAACTTACTAAGCTCAATAAGCTTACCTATGTA
20694760 TCTATTAT
651 TCTATTAT
20694768 TATTTTGTAT
Statistics
Matches: 655, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
658 655 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (658 bp):
CACTCAAACTACAATTTCGTCCGGTAAGTTCATAGTGTTAGTTTATATTCTTTGGATGATTCTTT
ATGTATTCAATATTGATGTAGCAACTCAAGGAAGGTTAAATGTTCGTGAAGATGGGAAAAATGAA
TTAAGAAACGAGATGTCAAGCTTAGGGTCGATTATCTGAATCGACACGATGGTTAAGATCCTACA
TGTGTTCAATTTCCTAACATCTTGTGTGAGCAGCATTGCGAGTTGACAAATTCTGAATGAGTACT
GATTATATGAACCCCTACGATGGCTGAGTTTTTGCATACGTTGTGGATTCTCATCAGCTTGTGTA
AGCAGCATCGTGAGTAGGTAATTCTGGATCGTATCAATGGCTGAGTTTCTGCATATGTTACGATT
TCTCATCAACTTGTGTAAGCAGTATCGTATACTGGTTAAACTCTGTCTAAGCTCATAAGAGCTAA
CCTATCTAGGCTTATAAGAGCTAATTCTGTCTGGGATCGAAAGAGCTAAATATCTGGAAGACCTA
AATAGATCAATCTGATATTGTTTCACAGGGTTATGAATAAATATTTACTATTATTTTTTATAACT
GATTTGGTTATTCTGTAAGATGTTAATTTTGCGAACTTACTAAGCTCAATAAGCTTACCTATGTA
TCTATTAT
Found at i:20695256 original size:107 final size:107
Alignment explanation
Indices: 20695063--20695271 Score: 346
Period size: 107 Copynumber: 2.0 Consensus size: 107
20695053 TTTGGTGTTG
* *
20695063 TTGGTTACAAACTTAGAAGAATTAAAGGTATTTTTGGAAATCTGTATACTTATTTCGGTAGTACT
1 TTGGTTACAAACTTAGAAGAATTAAAGGTATTTTTGGAAATCTATATACTTATTTCAGTAGTACT
*
20695128 TTTGCATGTATCAGTAAAAGTACAGAGTAGGAGAGATTATTA
66 TTTGCATGTATCAGTAAAAGTACAGAGTAAGAGAGATTATTA
* * *
20695170 TTGGTTACAGACTTAGAAGAATTAAAGGTATTTTTGGAAATCTATATATTTGTTTCAGTAGTACT
1 TTGGTTACAAACTTAGAAGAATTAAAGGTATTTTTGGAAATCTATATACTTATTTCAGTAGTACT
* *
20695235 TTTGCATGTATCGGTAGAAGTACAGAGTAAGAGAGAT
66 TTTGCATGTATCAGTAAAAGTACAGAGTAAGAGAGAT
20695272 ATTGGTTACT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 94 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (107 bp):
TTGGTTACAAACTTAGAAGAATTAAAGGTATTTTTGGAAATCTATATACTTATTTCAGTAGTACT
TTTGCATGTATCAGTAAAAGTACAGAGTAAGAGAGATTATTA
Found at i:20695419 original size:21 final size:21
Alignment explanation
Indices: 20695393--20695433 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
20695383 GTTGTATCGG
20695393 TAGTTGTATGAATTATTTCGA
1 TAGTTGTATGAATTATTTCGA
*
20695414 TAGTTGTATGAATTGTTTCG
1 TAGTTGTATGAATTATTTCG
20695434 GTAGAAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (21 bp):
TAGTTGTATGAATTATTTCGA
Found at i:20696768 original size:29 final size:28
Alignment explanation
Indices: 20696689--20696779 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
20696679 ATCATACTGT
*
20696689 TACAGTTACAGATACAGTGATGTCATAGA
1 TACAGTTACAGATACAGTCATGTCATA-A
* * * * *
20696718 TATAGTAATAGATGCAGACATGATACAT-A
1 TACAGTTACAGATACAGTCATG-T-CATAA
20696747 TACAGTTACAGATACAGTCATGTCATAGA
1 TACAGTTACAGATACAGTCATGTCATA-A
20696776 TACA
1 TACA
20696780 ATTATGAATG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 39 0.83
30 1 0.02
31 3 0.06
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (28 bp):
TACAGTTACAGATACAGTCATGTCATAA
Done.