Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 121 of 213
Found at i:34812365 original size:78 final size:78
Alignment explanation
Indices: 34812188--34812404 Score: 198
Period size: 78 Copynumber: 2.8 Consensus size: 78
34812178 CTCGTTCAAG
* * * * * * * *
34812188 TGCCTTC-GGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT-ACCCGGA-TA
*
34812251 TAAAACTCGCACGAA
64 TAAAACTCGCACAAA
*
34812266 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTACCCGGA-
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTACCCGGAT
34812327 ATAATAACTCGCACAAA
63 ATAA-AACTCGCACAAA
**
34812344 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTC-GGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA-CCCGGA
34812405 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
77 14 0.12
78 52 0.45
79 36 0.31
80 14 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTACCCGGATATA
AAACTCGCACAAA
Found at i:34833202 original size:16 final size:15
Alignment explanation
Indices: 34833172--34833206 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34833162 TTCTATTGTC
34833172 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
34833187 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
34833203 TATA
1 TATA
34833207 CAAGATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:34839463 original size:21 final size:21
Alignment explanation
Indices: 34839421--34839463 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
34839411 TTGGACTCTC
*
34839421 TAAAAATTCAGTTGATCCAAT
1 TAAAAATTCAGTTGATCAAAT
** *
34839442 TAAAAATTGGGTTGATGAAAT
1 TAAAAATTCAGTTGATCAAAT
34839463 T
1 T
34839464 GTACAACCTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (21 bp):
TAAAAATTCAGTTGATCAAAT
Found at i:34847697 original size:19 final size:19
Alignment explanation
Indices: 34847673--34847710 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34847663 AAACACCAGT
*
34847673 AAGAATTTTTCTACTATCA
1 AAGAATTTCTCTACTATCA
34847692 AAGAATTTCTCTACTATCA
1 AAGAATTTCTCTACTATCA
34847711 CTACTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (19 bp):
AAGAATTTCTCTACTATCA
Found at i:34854072 original size:42 final size:42
Alignment explanation
Indices: 34854025--34854191 Score: 196
Period size: 42 Copynumber: 4.0 Consensus size: 42
34854015 AAGGAAAAAA
*
34854025 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
34854067 TTCATTGCAATTAGAGACCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * **
34854109 TTCATTGCATCTAGAGACCTAGGTGTGGAGGTCTGTTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
34854151 TTC--TA-GTTTAGAGGCTCAGGTGTGGAGGTCCGTTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
34854190 TT
1 TT
34854192 TTAGTTTACT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
39 30 0.28
40 1 0.01
42 77 0.71
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (42 bp):
TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
Found at i:34855095 original size:20 final size:20
Alignment explanation
Indices: 34855057--34855095 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34855047 GCTTTAATAT
***
34855057 TTAAAAAAAAAGTGTTTTTC
1 TTAAAAAAAAAGAAATTTTC
34855077 TTAAAAAAAAAGAAATTTT
1 TTAAAAAAAAAGAAATTTT
34855096 AGTTTTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (20 bp):
TTAAAAAAAAAGAAATTTTC
Found at i:34855159 original size:142 final size:145
Alignment explanation
Indices: 34854994--34855260 Score: 371
Period size: 144 Copynumber: 1.9 Consensus size: 145
34854984 TTAAGGAAAT
* * * *
34854994 TTTAAATTTTTAAAACAAGGTTTTGA-ATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATATT
1 TTTAAAATTTTAAAACAAGGTTTTGATATTTTTTTCAACTACTCCAAAATAAAAGCTTTAATATT
* *
34855058 TAA-AAAAAAAGTGTTTTTCTTAAAAAAA-AAGAAATTTTAGTTTTTGAAAATTAAAAAAAAAAA
66 TAAGAAAAAAAGTGTTTTTCTTAAAAAAAGAAGAAATTTTAGATTTTGAAAAATAAAAAAAAAAA
34855121 TTAGTCATTTCTAAG
131 TTAGTCATTTCTAAG
* * *
34855136 TTTAAAATTTTAAAAC-AGAGTTTTGATTTTTTTTTTCAACTACTCCAAAATAACAGCTTTAATC
1 TTTAAAATTTTAAAACAAG-GTTTTGA-TATTTTTTTCAACTACTCCAAAATAAAAGCTTTAATA
* * * *
34855200 TTTAAGAAAAATAGTTTTTTTTTTAAAAAAAGGAGAAATTTTAGATTTTGAAAAATAAAAA
64 TTTAAGAAAAAAAGTGTTTTTCTTAAAAAAAGAAGAAATTTTAGATTTTGAAAAATAAAAA
34855261 TTTGTTTTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
141 2 0.02
142 22 0.21
144 35 0.33
145 22 0.21
146 26 0.24
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (145 bp):
TTTAAAATTTTAAAACAAGGTTTTGATATTTTTTTCAACTACTCCAAAATAAAAGCTTTAATATT
TAAGAAAAAAAGTGTTTTTCTTAAAAAAAGAAGAAATTTTAGATTTTGAAAAATAAAAAAAAAAA
TTAGTCATTTCTAAG
Found at i:34855281 original size:27 final size:27
Alignment explanation
Indices: 34855247--34855302 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
34855237 ATTTTAGATT
* *
34855247 TTGAAAAATAAAAATTTGTTTTTTTAAG
1 TTGAAAAACAAAAA-TTGATTTTTTAAG
34855275 TTGAAAAACAAAAATTGATTTTTTAAG
1 TTGAAAAACAAAAATTGATTTTTTAAG
34855302 T
1 T
34855303 CATTTTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (27 bp):
TTGAAAAACAAAAATTGATTTTTTAAG
Found at i:34855971 original size:10 final size:9
Alignment explanation
Indices: 34855953--34856021 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 9
34855943 CACTTGTATA
34855953 ATTTTATTT
1 ATTTTATTT
34855962 ATTCTTATTT
1 ATT-TTATTT
34855972 CATTTTATTT
1 -ATTTTATTT
34855982 ATTTTCATGTTT
1 ATTTT-A--TTT
34855994 ATTTATATTT
1 ATTT-TATTT
*
34856004 -TTATTTTTT
1 ATT-TTATTT
34856013 ATTTT-TTT
1 ATTTTATTT
34856021 A
1 A
34856022 AACATTCCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
8 4 0.08
9 16 0.31
10 19 0.37
11 3 0.06
12 8 0.16
13 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:34855987 original size:15 final size:16
Alignment explanation
Indices: 34855969--34855999 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34855959 TTTATTCTTA
34855969 TTTCAT-TTTATTTAT
1 TTTCATGTTTATTTAT
34855984 TTTCATGTTTATTTAT
1 TTTCATGTTTATTTAT
34856000 ATTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCATGTTTATTTAT
Found at i:34871805 original size:5 final size:5
Alignment explanation
Indices: 34871795--34871819 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34871785 ACTATTTATA
34871795 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
34871820 CATTTGTATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:34876694 original size:86 final size:86
Alignment explanation
Indices: 34876409--34876818 Score: 381
Period size: 86 Copynumber: 4.8 Consensus size: 86
34876399 TTATGTCTTT
* * * * * ** * *
34876409 GTTTGGAAACAAAAT-CAAGATCGAATAAAATCAGTTAAACATCGGGAATAAATCCCG-AAACAG
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAAA
* *
34876472 A-TTATTCAA--TT--TTCTA
66 ATTTATTTAACTTTAATTCTC
* * * * * ** * * * *
34876488 ATTTGGAAACAAAAT-CAAAATCGAATAAAATTTGTTAAACGATGTGAATAAATCCAGAAATAGA
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAAA
* *
34876552 TTTTATTTAATTTTAATTTCTC
66 ATTTATTTAACTTTAA-TTCTC
* *
34876574 GTTTTGGAAACAAAATCAAAATTGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAA
1 G-TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAA
34876639 AATTTATTTAACTTTAATTCTC
65 AATTTATTTAACTTTAATTCTC
* * * * *
34876661 GTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGAGAATAAATCTCGAAACAGA
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAAA
*
34876726 TTTTATTTAACTTTAATTCTC
66 ATTTATTTAACTTTAATTCTC
* * * * *
34876747 ATTTGGAAATAAAATCAAAAAAT-GAATAAAATCCGTTGAACGGCAGGAATAAATCCC-AAAACA
1 GTTTGGAAACAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAA
34876810 AATCTTATT
65 AAT-TTATT
34876819 CAATTTTTAT
Statistics
Matches: 273, Mismatches: 47, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
79 48 0.18
80 2 0.01
81 7 0.03
83 2 0.01
85 5 0.02
86 130 0.48
87 27 0.10
88 52 0.19
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (86 bp):
GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAAAAAA
ATTTATTTAACTTTAATTCTC
Found at i:34876790 original size:172 final size:173
Alignment explanation
Indices: 34876489--34876818 Score: 445
Period size: 174 Copynumber: 1.9 Consensus size: 173
34876479 AATTTTCTAA
* * * * *
34876489 TTTGGAAACAAAATCAAAATCGAATAAAATTTGTTAAACGATGTGAATAAATCCAGAAATAGATT
1 TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAACGACGAGAATAAATCCAGAAACAGATT
* * * *
34876554 TTATTTAATTTTAATTTCTCGTTTTGGAAACAAAATCAAAATTGGAATAAAATCTGTTGAACGGC
66 TTATTTAACTTTAATTTCTCGATTTGGAAACAAAATCAAAAATGGAATAAAATCCGTTGAACGGC
*
34876619 GGGAATAAATCCCGAAAAAAAAT-TTATTTAACTTTAATTCTCG
131 AGGAATAAATCCC-AAAAAAAATCTTATTTAACTTTAATTCTCG
* * * *
34876662 TTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGAGAATAAATCTC-GAAACAGA
1 TTTGGAAACAAAAT-AAAAATCGAATAAAATCTGTTAAACGACGAGAATAAATC-CAGAAACAGA
*
34876726 TTTTATTTAACTTTAA-TTCTC-ATTTGGAAATAAAATCAAAAAAT-GAATAAAATCCGTTGAAC
64 TTTTATTTAACTTTAATTTCTCGATTTGGAAACAAAATC-AAAAATGGAATAAAATCCGTTGAAC
*
34876788 GGCAGGAATAAATCCCAAAACAAATCTTATT
128 GGCAGGAATAAATCCCAAAAAAAATCTTATT
34876819 CAATTTTTAT
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
171 8 0.06
172 51 0.37
173 23 0.17
174 54 0.39
175 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (173 bp):
TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAACGACGAGAATAAATCCAGAAACAGATT
TTATTTAACTTTAATTTCTCGATTTGGAAACAAAATCAAAAATGGAATAAAATCCGTTGAACGGC
AGGAATAAATCCCAAAAAAAATCTTATTTAACTTTAATTCTCG
Found at i:34878068 original size:22 final size:20
Alignment explanation
Indices: 34878040--34878080 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
34878030 TGCCTGCATA
*
34878040 AAAGTTTCATTTGTTTAATTTC
1 AAAGTTT-ATTT-TATAATTTC
34878062 AAAGTTTATTTTATAATTT
1 AAAGTTTATTTTATAATTT
34878081 AAGATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
AAAGTTTATTTTATAATTTC
Found at i:34883541 original size:28 final size:28
Alignment explanation
Indices: 34883469--34883543 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
34883459 TAGTCCTTAC
*
34883469 AAACTTTCCACATTAACATATTCATGGA
1 AAACTTTCCACATTAAGATATTCATGGA
* *
34883497 AAACTTTCCATATTAAGATATTCATGGC
1 AAACTTTCCACATTAAGATATTCATGGA
**
34883525 GGACTTTCCACATTAAGAT
1 AAACTTTCCACATTAAGAT
34883544 CATCCTAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (28 bp):
AAACTTTCCACATTAAGATATTCATGGA
Found at i:34883557 original size:28 final size:28
Alignment explanation
Indices: 34883530--34883623 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 28
34883520 ATGGCGGACT
34883530 TTCCACA-TTAAGATCATCCTAACAGAC
1 TTCCACATTTAAGATCATCCTAACAGAC
* ** * * *
34883557 TTCCACATTTAAAATGGTACTGACGGAC
1 TTCCACATTTAAGATCATCCTAACAGAC
* **
34883585 TTCCACATTTAAGATCATCCTGAGGGAC
1 TTCCACATTTAAGATCATCCTAACAGAC
34883613 TTCCACATTTA
1 TTCCACATTTA
34883624 TGATAATGCC
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 7 0.13
28 48 0.87
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (28 bp):
TTCCACATTTAAGATCATCCTAACAGAC
Found at i:34883877 original size:57 final size:56
Alignment explanation
Indices: 34883777--34883926 Score: 219
Period size: 57 Copynumber: 2.6 Consensus size: 56
34883767 CTTAGTCCAA
*
34883777 CCGAACCTCCCTCAAAGCCACATAAATATATGCAAATGCAATCCCATGTATGACAAT
1 CCGAACCT-CCTCAAAGCCACATAAATATATGCATATGCAATCCCATGTATGACAAT
* * *
34883834 CTGAACCTCTTCAAAGCCACATAAATATAATGCATATTCAATCCCATGTATGACAAT
1 CCGAACCTCCTCAAAGCCACATAAATAT-ATGCATATGCAATCCCATGTATGACAAT
* *
34883891 CCGAACCTCCTCTAAGCCACATACATATCATGCATA
1 CCGAACCTCCTCAAAGCCACATAAATAT-ATGCATA
34883927 CATATGCAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 19 0.23
57 64 0.77
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.24
Consensus pattern (56 bp):
CCGAACCTCCTCAAAGCCACATAAATATATGCATATGCAATCCCATGTATGACAAT
Found at i:34890177 original size:51 final size:49
Alignment explanation
Indices: 34890032--34890213 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 49
34890022 GAAAGTGATG
* * * *
34890032 GTCACGTGTGTAGTACTATGTGTA-GCTACTACGTGTACCAGAAAGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * *
34890080 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCA
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TT-A
* * * * *
34890132 ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGATAGTGATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT--TA
*
34890183 GTCACATGTGTAGTACTATGTGTAGGCTACT
1 GTCACATGTGTAGTACTATGTGCAGGCTACT
34890214 GTGTAAACCG
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 21 0.19
50 18 0.17
51 68 0.62
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTA
Found at i:34890224 original size:102 final size:100
Alignment explanation
Indices: 34890033--34890224 Score: 260
Period size: 102 Copynumber: 1.9 Consensus size: 100
34890023 AAAGTGATGG
* *
34890033 TCACGTGTGTAGTACTATGTGTAGCTACTACGTGTACCAGAAAGATAGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTATGTGCAGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTACT
**
34890098 ATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
66 ATGTGCAGGCTACTATGCAAACCGGATAGCTTCAA
* * *
34890133 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGATAG-TGATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCA-GCTACTACGTGTACCAGAAAGAT-A-GGTCACATGTGTAGT
* * *
34890197 ACTATGTGTAGGCTACTGTGTAAACCGG
63 ACTATGTGCAGGCTACTATGCAAACCGG
34890225 TATCATTAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 23 0.29
101 19 0.24
102 37 0.47
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGCAGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGCAAACCGGATAGCTTCAA
Found at i:34892279 original size:37 final size:37
Alignment explanation
Indices: 34892229--34892305 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
34892219 TTCAGTTTGT
34892229 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
34892266 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
34892303 CTA
1 CTA
34892306 CTCAAAACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (37 bp):
CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
Found at i:34894977 original size:61 final size:61
Alignment explanation
Indices: 34894882--34895006 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
34894872 CATATGATGC
34894882 AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
1 AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
*
34894943 AGTCGTGGTGGACTATTATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
1 AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
34895004 AGT
1 AGT
34895007 AATGGATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (61 bp):
AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
Found at i:34895476 original size:28 final size:28
Alignment explanation
Indices: 34895374--34895523 Score: 133
Period size: 28 Copynumber: 5.4 Consensus size: 28
34895364 TTGGTGAACT
* * *
34895374 TTCCACA-TTAAGATCATCTTGATAGG-C
1 TTCCACATTTAAGATCGTCCTAAT-GGAC
* *
34895401 TTCCACATTTAAGATCGTCCTGACGGAC
1 TTCCACATTTAAGATCGTCCTAATGGAC
* *
34895429 TACCACATTTAAGATCGTCCTAATGGAT
1 TTCCACATTTAAGATCGTCCTAATGGAC
* * *
34895457 TTTCACATTTAAGATTGTCCTAATAGAC
1 TTCCACATTTAAGATCGTCCTAATGGAC
* * * * *
34895485 TTCCAGATTTACGATTGTCCTAACGGGC
1 TTCCACATTTAAGATCGTCCTAATGGAC
*
34895513 TTCCATATTTA
1 TTCCACATTTA
34895524 TAGTAATGCC
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
27 9 0.09
28 93 0.91
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTAATGGAC
Found at i:34902019 original size:18 final size:21
Alignment explanation
Indices: 34901973--34902019 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
34901963 CTCAATCCCT
34901973 TTCTCTCTTCTCTCTTTGTTAC
1 TTCT-TCTTCTCTCTTTGTTAC
*
34901995 TTTTTCTTC-CTCTTT-TTA-
1 TTCTTCTTCTCTCTTTGTTAC
34902013 TTCTTCT
1 TTCTTCT
34902020 ATTCTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 6 0.26
21 5 0.22
22 3 0.13
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.66
Consensus pattern (21 bp):
TTCTTCTTCTCTCTTTGTTAC
Found at i:34908462 original size:32 final size:32
Alignment explanation
Indices: 34908426--34908487 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
34908416 ATATCAATCC
* **
34908426 TTAAGGTTGGCATTTATTATACAAATTGGTCA
1 TTAAGGTTAGCATCCATTATACAAATTGGTCA
* *
34908458 TTAAGTTTAGCATCCGTTATACAAATTGGT
1 TTAAGGTTAGCATCCATTATACAAATTGGT
34908488 TACTCAAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (32 bp):
TTAAGGTTAGCATCCATTATACAAATTGGTCA
Found at i:34908641 original size:20 final size:17
Alignment explanation
Indices: 34908593--34908643 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
34908583 CTCATTAATT
34908593 ATTCTAAAAAAAATTAAA
1 ATTC-AAAAAAAATTAAA
*
34908611 ATTCAATAAAATATGTATAA
1 ATTCAA-AAAAAAT-TA-AA
34908631 ATTCAAAAAAAAT
1 ATTCAAAAAAAAT
34908644 AAGAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 8 0.29
20 8 0.29
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (17 bp):
ATTCAAAAAAAATTAAA
Found at i:34908753 original size:28 final size:28
Alignment explanation
Indices: 34908712--34908780 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
34908702 AAAATAGTTA
*
34908712 AAATTTCAAAAATAAAAAAAATATTATG
1 AAATTTTAAAAATAAAAAAAATATTATG
* * * *
34908740 AAATTTTAATAATAATAAAAATATTCTT
1 AAATTTTAAAAATAAAAAAAATATTATG
34908768 AAATTTTTAAAAA
1 AAA-TTTTAAAAA
34908781 ATTACAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (28 bp):
AAATTTTAAAAATAAAAAAAATATTATG
Found at i:34909096 original size:75 final size:75
Alignment explanation
Indices: 34908858--34909085 Score: 449
Period size: 75 Copynumber: 3.1 Consensus size: 75
34908848 GATCAACATC
34908858 CAATCAACATCAATCAATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
1 CAATCAACATCAATCAATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
34908923 AGCACCGGAT
66 AGCACCGGAT
34908933 CAATCAACATCAATC-ATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
1 CAATCAACATCAATCAATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
34908997 AGCACCGGAT
66 AGCACCGGAT
34909007 CAATCAACATCAATCAATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
1 CAATCAACATCAATCAATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
34909072 AGCACCGGAT
66 AGCACCGGAT
34909082 CAAT
1 CAAT
34909086 GTATGTCAAT
Statistics
Matches: 152, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
74 74 0.49
75 78 0.51
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (75 bp):
CAATCAACATCAATCAATGTTGATCAACATCTAGTCAACGTCTGGTCATCGATCAACATTGGGTC
AGCACCGGAT
Found at i:34912350 original size:27 final size:27
Alignment explanation
Indices: 34912275--34912351 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
34912265 ACATGATTGA
* * *
34912275 GATATATTTGCATGTATATATAA-TAT
1 GATATATTTTCCTATATATATAATTAT
* *
34912301 GTTTATATTTT-C-ATATATCTAATTAT
1 G-ATATATTTTCCTATATATATAATTAT
*
34912327 GATATATTTTCCTCTATATATAATT
1 GATATATTTTCCTATATATATAATT
34912352 TTTTTAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
25 16 0.41
26 6 0.15
27 17 0.44
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (27 bp):
GATATATTTTCCTATATATATAATTAT
Found at i:34913004 original size:22 final size:22
Alignment explanation
Indices: 34912979--34913024 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
34912969 TTTTGTTGTC
* *
34912979 ATTTCTCTATTATTTTGCTATT
1 ATTTCGCTATTATATTGCTATT
*
34913001 ATTTCGCTATTATATTGTTATT
1 ATTTCGCTATTATATTGCTATT
34913023 AT
1 AT
34913025 ATTGTTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTCGCTATTATATTGCTATT
Found at i:34913030 original size:11 final size:11
Alignment explanation
Indices: 34912985--34913028 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
34912975 TGTCATTTCT
*
34912985 CTATTATTTTG
1 CTATTATATTG
34912996 CTATTAT-TTCG
1 CTATTATATT-G
34913007 CTATTATATTG
1 CTATTATATTG
*
34913018 TTATTATATTG
1 CTATTATATTG
34913029 TTGTTATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (11 bp):
CTATTATATTG
Found at i:34913234 original size:10 final size:11
Alignment explanation
Indices: 34913211--34913247 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
34913201 TGATGTATTA
34913211 TATTTTAAATT
1 TATTTTAAATT
*
34913222 TATTTT-TATT
1 TATTTTAAATT
34913232 TATTTTAAATT
1 TATTTTAAATT
34913243 TATTT
1 TATTT
34913248 AATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:34916872 original size:21 final size:21
Alignment explanation
Indices: 34916834--34916892 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
34916824 ATAGCAATTG
* **
34916834 TAATGCAAACCCAAAGAAATAT
1 TAATGCGAACCCTTAGAAA-AT
34916856 T-ATGCGAACCCTTAGAAAAT
1 TAATGCGAACCCTTAGAAAAT
*
34916876 TACATGTGAACCCTTAG
1 TA-ATGCGAACCCTTAG
34916893 GTAGATGCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.10
21 14 0.45
22 14 0.45
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (21 bp):
TAATGCGAACCCTTAGAAAAT
Found at i:34917219 original size:26 final size:26
Alignment explanation
Indices: 34917168--34917244 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
34917158 ATGAGAACTG
* * *
34917168 TATGTGCGAGCCCCTA-TGAGCAAGCC
1 TATGTGCGA-ACCCTAGTGTGCGAGCC
34917194 TATGTGCGAACCCTAGTGTGCGAGCC
1 TATGTGCGAACCCTAGTGTGCGAGCC
* * * *
34917220 TGTGTGTGAA-GCTTGTGTGCGAGCC
1 TATGTGCGAACCCTAGTGTGCGAGCC
34917245 CCAATGTACG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 18 0.42
26 25 0.58
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (26 bp):
TATGTGCGAACCCTAGTGTGCGAGCC
Found at i:34918800 original size:40 final size:40
Alignment explanation
Indices: 34918657--34918840 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
34918647 TAACTCATAC
* * *
34918657 AATGCCTTCGGGACTTAACCCAGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
34918697 AATGCCTTCGGGACTTAACCCAGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
34918737 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
34918777 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
34918818 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34918841 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.07
40 104 0.85
41 11 0.09
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:34918824 original size:80 final size:79
Alignment explanation
Indices: 34918655--34918840 Score: 209
Period size: 80 Copynumber: 2.3 Consensus size: 79
34918645 AGTAACTCAT
* * * *
34918655 ACAATGCCTTCGGGACTTAACCCAGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCAG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCAG
*
34918720 AATTAGTATCTCGC
66 AATTAGTATCTAGC
**
34918734 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACC
*
34918797 C-GGATATAGTCA-CTTAGC
63 CAGAAT-TAGT-ATC-TAGC
*
34918815 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
34918841 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
79 14 0.15
80 69 0.75
81 9 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCAG
AATTAGTATCTAGC
Found at i:34920504 original size:29 final size:29
Alignment explanation
Indices: 34920445--34920505 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
34920435 CTACGTGAAC
* *
34920445 CCCTAGGTGTGTGAACACTAGTGTGCCAA
1 CCCTAGGTGTGTGAACACTAATGTGACAA
* * *
34920474 CCCTAGGTGTGTGCACCCTAATGTGAGAA
1 CCCTAGGTGTGTGAACACTAATGTGACAA
34920503 CCC
1 CCC
34920506 CTTAGGTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (29 bp):
CCCTAGGTGTGTGAACACTAATGTGACAA
Found at i:34920561 original size:14 final size:14
Alignment explanation
Indices: 34920489--34920561 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
34920479 GGTGTGTGCA
*
34920489 CCCTAATGTGAGAAC
1 CCCTAA-GTGTGAAC
* *
34920504 CCCTTAG-GTGCAAT
1 CCCTAAGTGTG-AAC
*
34920518 CCCTAATGAGTGAAC
1 CCCTAA-GTGTGAAC
* *
34920533 CACTAGGTGTG-AC
1 CCCTAAGTGTGAAC
34920546 CCCTAAGTGTGAAC
1 CCCTAAGTGTGAAC
34920560 CC
1 CC
34920562 ACATGTGAGA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
13 13 0.30
14 16 0.36
15 12 0.27
16 3 0.07
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (14 bp):
CCCTAAGTGTGAAC
Found at i:34920651 original size:14 final size:15
Alignment explanation
Indices: 34920613--34920698 Score: 63
Period size: 14 Copynumber: 5.9 Consensus size: 15
34920603 GAACCCATCC
*
34920613 GTGCGAACCCTTAGGT
1 GTGCGAACCC-TAGAT
*
34920629 GTGCAAACCCT-GAT
1 GTGCGAACCCTAGAT
*
34920643 GTGCGAACCCTAGGT
1 GTGCGAACCCTAGAT
* *
34920658 GAGTGAACCCTA-AT
1 GTGCGAACCCTAGAT
*
34920672 GTGTG-ACCCTTA-AT
1 GTGCGAACCC-TAGAT
*
34920686 GAGCGAACCCTAG
1 GTGCGAACCCTAG
34920699 GCGTAAACCC
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
13 4 0.07
14 26 0.46
15 17 0.30
16 9 0.16
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.22
Consensus pattern (15 bp):
GTGCGAACCCTAGAT
Found at i:34920666 original size:29 final size:30
Alignment explanation
Indices: 34920613--34920697 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 30
34920603 GAACCCATCC
* *
34920613 GTGCGAACCCTTAGGTGTGCAAACCCTGAT
1 GTGCGAACCCTTAGGTGAGCAAACCCTAAT
**
34920643 GTGCGAACCC-TAGGTGAGTGAACCCTAAT
1 GTGCGAACCCTTAGGTGAGCAAACCCTAAT
* * *
34920672 GTGTG-ACCCTTA-ATGAGCGAACCCTA
1 GTGCGAACCCTTAGGTGAGCAAACCCTA
34920698 GGCGTAAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 16 0.34
29 21 0.45
30 10 0.21
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (30 bp):
GTGCGAACCCTTAGGTGAGCAAACCCTAAT
Found at i:34920775 original size:44 final size:42
Alignment explanation
Indices: 34920693--34920776 Score: 96
Period size: 44 Copynumber: 2.0 Consensus size: 42
34920683 AATGAGCGAA
* * *
34920693 CCCTAGGCGTAAACCCTGAAGTGCGAACTCACATGTGCAAAC
1 CCCTAGGCGTAAACCCTGAAGTGCGAACCCAAACGTGCAAAC
* **
34920735 CCCTAAGGTGTAAACCCTTCAGCTGCGAACCCAAACGTGCAA
1 CCCT-AGGCGTAAACCCTGAAG-TGCGAACCCAAACGTGCAA
34920777 CCTTATATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.12
43 14 0.41
44 16 0.47
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (42 bp):
CCCTAGGCGTAAACCCTGAAGTGCGAACCCAAACGTGCAAAC
Found at i:34930862 original size:10 final size:10
Alignment explanation
Indices: 34930849--34930873 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34930839 AATTATTTAG
34930849 AATTTATTAT
1 AATTTATTAT
34930859 AATTTATTAT
1 AATTTATTAT
34930869 AATTT
1 AATTT
34930874 CTTAGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTTATTAT
Found at i:34932074 original size:17 final size:17
Alignment explanation
Indices: 34932052--34932084 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34932042 AAAATCAAAT
*
34932052 TAGAAGATATCTTATTG
1 TAGAAGATATCCTATTG
34932069 TAGAAGATATCCTATT
1 TAGAAGATATCCTATT
34932085 AGGCCCCCTC
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:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
TAGAAGATATCCTATTG
Found at i:34945287 original size:14 final size:14
Alignment explanation
Indices: 34945268--34945297 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34945258 CCATTTTACT
34945268 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
34945282 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
34945296 CT
1 CT
34945298 ACGATATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
CTTAAACCCTAAAC
Found at i:34951424 original size:50 final size:50
Alignment explanation
Indices: 34951316--34951464 Score: 237
Period size: 50 Copynumber: 3.0 Consensus size: 50
34951306 ATTGCAAAAT
*
34951316 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAACTG-AAAACAATTTAATTAATTAAACTAAG
*
34951367 TATTTAAGCAACTAAAGAAAACTGAAAATAATTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAACTGAAAACAATTTAATTAATTAAACTAAG
* * *
34951417 TATTTAAGCAACCAAAGAAAA-TTAAAACAATTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAACTGAAAACAATTTAATTAATTAAACTAA
34951465 ACATATTAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 24 0.26
50 44 0.48
51 24 0.26
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (50 bp):
TATTTAAGCAACTAAAGAAAACTGAAAACAATTTAATTAATTAAACTAAG
Found at i:34954921 original size:27 final size:27
Alignment explanation
Indices: 34954883--34954941 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
34954873 TAAAAACATC
*
34954883 GATACTTACTTCAATTTCACTATCTTT
1 GATACTTACTTCAATTTCACTATCTCT
34954910 GATACTTACTTCAATTTCACTATCTCT
1 GATACTTACTTCAATTTCACTATCTCT
34954937 GATAC
1 GATAC
34954942 CAAATGATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (27 bp):
GATACTTACTTCAATTTCACTATCTCT
Found at i:34956259 original size:22 final size:22
Alignment explanation
Indices: 34956208--34956273 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
34956198 GGTATTTGGG
* *
34956208 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
34956229 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
34956251 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
34956274 TGAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:34957607 original size:51 final size:51
Alignment explanation
Indices: 34957519--34957667 Score: 232
Period size: 51 Copynumber: 3.0 Consensus size: 51
34957509 ATGCCGGAAT
*
34957519 TATTTAAGCAACTAAA-AAAACTGAAAAGCAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
*
34957569 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAT
1 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
* * *
34957620 TATTTAAGCAACGAAAGAAAA-T-TAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAA
34957668 ACATATTACA
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 24 0.26
50 17 0.18
51 52 0.56
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.26
Consensus pattern (51 bp):
TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
Found at i:34961779 original size:12 final size:12
Alignment explanation
Indices: 34961738--34961780 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
34961728 CTCTTCTAAA
34961738 AGAAAACTCAAG
1 AGAAAACTCAAG
* *
34961750 AGAAATTCTTCAAA
1 AGAAA-AC-TCAAG
34961764 AGAAAACTCAAG
1 AGAAAACTCAAG
34961776 AGAAA
1 AGAAA
34961781 TTCTTCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 14 0.56
13 2 0.08
14 9 0.36
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (12 bp):
AGAAAACTCAAG
Found at i:34961809 original size:27 final size:26
Alignment explanation
Indices: 34961723--34961807 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
34961713 AAAGATTTTT
*
34961723 AGAAACTCTTCTAAAAGAAAACTCAAG
1 AGAAATTCTTC-AAAAGAAAACTCAAG
34961750 AGAAATTCTTCAAAAGAAAACTCAAG
1 AGAAATTCTTCAAAAGAAAACTCAAG
34961776 AGAAATTCTTCAAAAGAAAAACTCAAAG
1 AGAAATTCTTCAAAAG-AAAACTC-AAG
34961804 AGAA
1 AGAA
34961808 TTTATTAACT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
26 31 0.56
27 17 0.31
28 7 0.13
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (26 bp):
AGAAATTCTTCAAAAGAAAACTCAAG
Found at i:34968194 original size:21 final size:20
Alignment explanation
Indices: 34968137--34968194 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
34968127 TCCAGTGCGA
**
34968137 GTATCGATACTAATCAAGTAG
1 GTATCGATACTAAT-GTGTAG
* * *
34968158 GTATCGGTATTTATGTGTTAG
1 GTATCGATACTAATGTG-TAG
34968179 GTATCGATACTAATGT
1 GTATCGATACTAATGT
34968195 AAATATCGAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (20 bp):
GTATCGATACTAATGTGTAG
Found at i:34970367 original size:21 final size:21
Alignment explanation
Indices: 34970340--34970413 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
34970330 CAGCTGTATA
*
34970340 CCTCAGTTACATGGGCGTGTC
1 CCTCAGTCACATGGGCGTGTC
* * *
34970361 TCTCAGTCACACGGCCGTGTC
1 CCTCAGTCACATGGGCGTGTC
*
34970382 CCTCAGTCACATGGGCATGTGC
1 CCTCAGTCACATGGGCGTGT-C
34970404 CC-CAGTCACA
1 CCTCAGTCACA
34970414 CGGTCTAGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 41 0.93
22 3 0.07
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.23
Consensus pattern (21 bp):
CCTCAGTCACATGGGCGTGTC
Found at i:34970410 original size:42 final size:42
Alignment explanation
Indices: 34970340--34970434 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
34970330 CAGCTGTATA
* * * *
34970340 CCTCAGTTACATGGGCGTGTCTCTCAGTCACACGGCCGT-GTC
1 CCTCAGTCACATGGGCATGTCTCCCAGTCACACGGCC-TAGAC
*
34970382 CCTCAGTCACATGGGCATGTGC-CCCAGTCACACGGTCTAGAC
1 CCTCAGTCACATGGGCATGT-CTCCCAGTCACACGGCCTAGAC
34970424 CCTCAGTCACA
1 CCTCAGTCACA
34970435 CAGGAGTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.23, T:0.22
Consensus pattern (42 bp):
CCTCAGTCACATGGGCATGTCTCCCAGTCACACGGCCTAGAC
Found at i:34970449 original size:42 final size:42
Alignment explanation
Indices: 34970364--34970469 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
34970354 GCGTGTCTCT
* * ** *
34970364 CAGTCACACGGCCGT-GTCCCTCAGTCACATGGGCATGTGCCC
1 CAGTCACACGGTC-TAGACCCTCAGTCACACAGGCATGTACCC
34970406 CAGTCACACGGTCTAGACCCTCAGTCACACAGG-AGTGTACCC
1 CAGTCACACGGTCTAGACCCTCAGTCACACAGGCA-TGTACCC
* * *
34970448 CAGTCGCACGATCAAGACCCTC
1 CAGTCACACGGTCTAGACCCTC
34970470 CCACACGGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.96
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.17
Consensus pattern (42 bp):
CAGTCACACGGTCTAGACCCTCAGTCACACAGGCATGTACCC
Found at i:34971436 original size:23 final size:23
Alignment explanation
Indices: 34971410--34971470 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
34971400 TTCATTTAAC
*
34971410 TTAATCAAACATGTGCACGAACA
1 TTAATCGAACATGTGCACGAACA
* * *
34971433 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTGCACGAACA
*
34971456 TATAATTGAACATGT
1 T-TAATCGAACATGT
34971471 TAACGAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAATCGAACATGTGCACGAACA
Found at i:34971469 original size:24 final size:23
Alignment explanation
Indices: 34971417--34971477 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
34971407 AACTTAATCA
*
34971417 AACATGTGCACGAACATTAAACG
1 AACATGTTCACGAACATTAAACG
* **
34971440 AACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACAT-TAAACG
*
34971464 AACATGTTAACGAA
1 AACATGTTCACGAA
34971478 GAATGTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (23 bp):
AACATGTTCACGAACATTAAACG
Found at i:34977473 original size:39 final size:40
Alignment explanation
Indices: 34977365--34977589 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
34977355 TTGAATGATG
* * * *
34977365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
34977405 TCCGGATTAAGAT-CCGAAGGCGTTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34977445 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34977484 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34977524 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34977565 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34977590 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34977603 original size:40 final size:40
Alignment explanation
Indices: 34977446--34977608 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
34977436 GATACTAATT
* ** *
34977446 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** * *
34977484 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
34977524 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
34977565 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
34977605 CCGG
1 CCGG
34977609 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
39 11 0.10
40 97 0.87
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:34977611 original size:119 final size:119
Alignment explanation
Indices: 34977365--34977622 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
34977355 TTGAATGATG
* * * *
34977365 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCGTTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTT
* ** *
34977430 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * *
34977484 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAAAATCCGGATTAAGAT-CCGAAGGCAT
* * * *
34977547 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
34977604 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34977623 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:34982503 original size:16 final size:17
Alignment explanation
Indices: 34982477--34982509 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
34982467 ACATTTAAAC
34982477 AAAGAAAAGAAAGAAAA
1 AAAGAAAAGAAAGAAAA
34982494 AAAG-AAAGAAAGAAAA
1 AAAGAAAAGAAAGAAAA
34982510 GGAGAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAGAAAA
Found at i:34982515 original size:12 final size:13
Alignment explanation
Indices: 34982477--34982510 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
34982467 ACATTTAAAC
34982477 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
34982490 AAA-AAAAGAAAG
1 AAAGAAAAGAAAG
34982502 AAAGAAAAG
1 AAAGAAAAG
34982511 GAGAAGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:34986866 original size:190 final size:190
Alignment explanation
Indices: 34986533--34986906 Score: 622
Period size: 190 Copynumber: 2.0 Consensus size: 190
34986523 TATTTTCTAC
** *
34986533 ATTATTGATTATTCAGTGGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGA
1 ATTATTGATTATTCAGTCATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
* *
34986598 CGAAATCTAAGGAACTCGTGGTGTGTAGCGGATGGTATGGGTGGGAACCTTTTTCCATTGCATCA
66 CGAAATCTAAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCATTGCATCA
* * *
34986663 TGTGCATGACATATTCGAATGTTATTGATTTATGCTATGCATTGTATTTTTTTTGTACGT
131 TGTACAGGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTTTTTGTACGT
*
34986723 ATTATTGATTATTTAGTCATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
1 ATTATTGATTATTCAGTCATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
* * * *
34986788 CGAAATCTGAGTAACTCGTGGTGTGTAGCGAATGTTATGGGTAGGAACCTTTTTGCATTGCATCA
66 CGAAATCTAAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCATTGCATCA
*
34986853 TGTACAGGACATATTCGAATGTTATTGGTTTATGCTACGCATTGTATTTTTTTT
131 TGTACAGGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTTTTT
34986907 TGTATTGAAT
Statistics
Matches: 170, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 170 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (190 bp):
ATTATTGATTATTCAGTCATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
CGAAATCTAAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCATTGCATCA
TGTACAGGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTTTTTGTACGT
Found at i:34988395 original size:49 final size:49
Alignment explanation
Indices: 34988318--34988411 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
34988308 TCAAGAAGGG
* *
34988318 ATAAATAGTGATAAGAGTGTAGACAGTGGAATACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
*
34988367 ATAAATAGTGATAAGAGTGTAGATAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
34988412 TTGCATAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
Found at i:34989211 original size:14 final size:15
Alignment explanation
Indices: 34989194--34989229 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
34989184 TAAATTTAGC
34989194 AAAATAAGAAAA-TA
1 AAAATAAGAAAATTA
*
34989208 AAAAAAAGAAAATTA
1 AAAATAAGAAAATTA
34989223 AAAATAA
1 AAAATAA
34989230 ATAATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (15 bp):
AAAATAAGAAAATTA
Found at i:34989268 original size:21 final size:21
Alignment explanation
Indices: 34989222--34989268 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
34989212 AAAGAAAATT
**
34989222 AAAAATAAATAATAAATATTG
1 AAAAATAAATAATAAATAGAG
*
34989243 GAAAAT-AATAACTAAATAGAG
1 AAAAATAAATAA-TAAATAGAG
34989264 AAAAA
1 AAAAA
34989269 ATAGATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (21 bp):
AAAAATAAATAATAAATAGAG
Found at i:34994286 original size:18 final size:18
Alignment explanation
Indices: 34994265--34994303 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34994255 GATTGAGAGT
* *
34994265 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
34994283 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
34994301 GAA
1 GAA
34994304 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:34997147 original size:27 final size:27
Alignment explanation
Indices: 34997116--34997167 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34997106 AACAGAATAG
*
34997116 AACAATATGGGCCATAGCCCAATACAA
1 AACAAGATGGGCCATAGCCCAATACAA
* *
34997143 AACAAGGTGGGCCTTAGCCCAATAC
1 AACAAGATGGGCCATAGCCCAATAC
34997168 CATATCAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.15
Consensus pattern (27 bp):
AACAAGATGGGCCATAGCCCAATACAA
Found at i:34997665 original size:27 final size:27
Alignment explanation
Indices: 34997635--34997759 Score: 105
Period size: 27 Copynumber: 4.6 Consensus size: 27
34997625 ACCCTATAAA
34997635 GGTATTTCAGTAATTTTCCAAACTGAG
1 GGTATTTCAGTAATTTTCCAAACTGAG
* *
34997662 GGTATTTC-GATAATATTCCAAA-TTAGG
1 GGTATTTCAG-TAATTTTCCAAACTGA-G
* * * *
34997689 GGTACTTT-GGTAA-TTTCAAAAATTAAG
1 GGTA-TTTCAGTAATTTTC-CAAACTGAG
* * *
34997716 GGTATTTCGGTAATTTTACAAACCGAG
1 GGTATTTCAGTAATTTTCCAAACTGAG
34997743 GGTATTTCAGTAATTTT
1 GGTATTTCAGTAATTTT
34997760 GTAAACAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
26 9 0.11
27 61 0.77
28 9 0.11
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTCCAAACTGAG
Found at i:35007644 original size:20 final size:20
Alignment explanation
Indices: 35007615--35007655 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35007605 ATCGTGATTT
* * *
35007615 AAAAATTTATTCCCTTTAAA
1 AAAAAGTTATTACCTTCAAA
35007635 AAAAAGTTATTACCTTCAAA
1 AAAAAGTTATTACCTTCAAA
35007655 A
1 A
35007656 CTTTGTTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAGTTATTACCTTCAAA
Found at i:35013468 original size:25 final size:24
Alignment explanation
Indices: 35013423--35013494 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
35013413 AGCTCATGTA
* *
35013423 AGCATACCGATTTATAACTCGTGAG
1 AGCATACCGA-TTACAGCTCGTGAG
* *
35013448 AGCATACCGATCTACAGCTCGAGTG
1 AGCATACCGAT-TACAGCTCGTGAG
*
35013473 AGTATACCGATTCACAGCTCGT
1 AGCATACCGATT-ACAGCTCGT
35013495 ATGAGAATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
AGCATACCGATTACAGCTCGTGAG
Found at i:35013499 original size:25 final size:25
Alignment explanation
Indices: 35013451--35013504 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
35013441 TCGTGAGAGC
*
35013451 ATACCGATCTACAGCTCGAGTGAGT
1 ATACCGATCTACAGCTCGAGTGAGA
35013476 ATACCGAT-TCACAGCTCGTA-TGAGA
1 ATACCGATCT-ACAGCTCG-AGTGAGA
35013501 ATAC
1 ATAC
35013505 ATGTACATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
ATACCGATCTACAGCTCGAGTGAGA
Found at i:35019071 original size:2 final size:2
Alignment explanation
Indices: 35019064--35019094 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35019054 GTTGTTATGT
35019064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35019095 CTTCGAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35019770 original size:21 final size:21
Alignment explanation
Indices: 35019737--35019776 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35019727 ATATTTTAAT
* *
35019737 TATAATGTATTTATATATTAG
1 TATAATCTATTTAAATATTAG
*
35019758 TATAATCTTTTTAAATATT
1 TATAATCTATTTAAATATT
35019777 TCATAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
TATAATCTATTTAAATATTAG
Found at i:35023358 original size:23 final size:24
Alignment explanation
Indices: 35023331--35023377 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35023321 ACTTTAAAAA
35023331 TTGTTT-ATTTAATTT-TAATTTTT
1 TTGTTTAATTT-ATTTATAATTTTT
*
35023354 TTGTTTAATTTCTTTATAATTTTT
1 TTGTTTAATTTATTTATAATTTTT
35023378 CAGGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (24 bp):
TTGTTTAATTTATTTATAATTTTT
Found at i:35034360 original size:20 final size:18
Alignment explanation
Indices: 35034305--35034361 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
35034295 TTTTATTTCT
35034305 TTTATTTTTAATTCTTGTTTA
1 TTTA-TTTTAA-T-TTGTTTA
* *
35034326 TCTATTTTTATTTGTTTAA
1 TTTATTTTAATTTGTTT-A
35034345 TTTATTTTGAATTTGTT
1 TTTATTTT-AATTTGTT
35034362 GGTTGCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.20
19 9 0.30
20 12 0.40
21 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTTGTTTA
Found at i:35041323 original size:28 final size:28
Alignment explanation
Indices: 35041274--35041332 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
35041264 GTAATAGTAT
* ** *
35041274 AGTGTAGGCCTTAGCCTGATACTGTAAC
1 AGTGTAGGCCTCAGCCCAATACAGTAAC
* *
35041302 AGTGTGGGCCTCAGCCCAATACAGTATC
1 AGTGTAGGCCTCAGCCCAATACAGTAAC
35041330 AGT
1 AGT
35041333 ACAGTGCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (28 bp):
AGTGTAGGCCTCAGCCCAATACAGTAAC
Found at i:35041467 original size:26 final size:26
Alignment explanation
Indices: 35041436--35041506 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
35041426 GTACACCTAT
35041436 ATCGCAGCAAAGCTGCCAGTAGT-AGC
1 ATCGCAGCAAAGCTGCCAGTA-TCAGC
* *
35041462 ATCGCAGCAAAGCTACCAGTATCAGT
1 ATCGCAGCAAAGCTGCCAGTATCAGC
* *
35041488 ATCGAAGTAAAGCTGCCAG
1 ATCGCAGCAAAGCTGCCAG
35041507 AAACAGTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTATCAGC
Found at i:35041711 original size:27 final size:27
Alignment explanation
Indices: 35041681--35041768 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
35041671 GTATAACAAC
*
35041681 CATTTTACCCTTTAGGGGTATTTCGGT
1 CATTTTACCCTTTAGGGGTATTTTGGT
*
35041708 CATTTTA-CCTTTCGGGAGTATTTTGGT
1 CATTTTACCCTTTAGGG-GTATTTTGGT
* *
35041735 CATTTTACCATTTGGGGGTATTTTGGT
1 CATTTTACCCTTTAGGGGTATTTTGGT
35041762 CATTTTA
1 CATTTTA
35041769 TTGACCCCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 8 0.15
27 40 0.73
28 7 0.13
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.48
Consensus pattern (27 bp):
CATTTTACCCTTTAGGGGTATTTTGGT
Found at i:35042855 original size:13 final size:13
Alignment explanation
Indices: 35042818--35042855 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
35042808 TAGCAAGCAG
*
35042818 AGAGAAAAGGGAA
1 AGAGAAAAGTGAA
35042831 AGAGAAAA-TGAA
1 AGAGAAAAGTGAA
*
35042843 ATAGAAAAGTGAA
1 AGAGAAAAGTGAA
35042856 CAAACCTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.08
Consensus pattern (13 bp):
AGAGAAAAGTGAA
Found at i:35049226 original size:26 final size:26
Alignment explanation
Indices: 35049158--35049229 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
35049148 CAACACACCT
* *
35049158 GTATTGCAGCAAAGCTACCAGTAGTA
1 GTATCGCAGCAAAGCTGCCAGTAGTA
* * *
35049184 GTATCACAGTAGAGCTGCCAGTA-TCA
1 GTATCGCAGCAAAGCTGCCAGTAGT-A
35049210 GTATCGCAGCAAAGCTGCCA
1 GTATCGCAGCAAAGCTGCCA
35049230 AAAATAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 1 0.03
26 36 0.97
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTGCCAGTAGTA
Found at i:35049421 original size:27 final size:28
Alignment explanation
Indices: 35049391--35049450 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
35049381 CCCTACTCCT
*
35049391 AGGGTTATAGCATTCATTTTACCCTTC-
1 AGGGTTATAGCAGTCATTTTACCCTTCG
* ***
35049418 AGGGGTATTTTAGTCATTTTACCCTTCG
1 AGGGTTATAGCAGTCATTTTACCCTTCG
35049446 AGGGT
1 AGGGT
35049451 ATTTTGGTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (28 bp):
AGGGTTATAGCAGTCATTTTACCCTTCG
Found at i:35049451 original size:27 final size:26
Alignment explanation
Indices: 35049404--35049520 Score: 137
Period size: 27 Copynumber: 4.3 Consensus size: 26
35049394 GTTATAGCAT
35049404 TCATTTTACCCTTCAGGGGTATTTTAG
1 TCATTTTACCCTTCA-GGGTATTTTAG
*
35049431 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTC-AGGGTATTTTAG
**
35049458 TCATTTTACCCTTTGGGGGTATTTT-G
1 TCATTTTACCC-TTCAGGGTATTTTAG
*
35049484 ATCATTTTATCCTTTCAGGGTATTTTAG
1 -TCATTTTA-CCCTTCAGGGTATTTTAG
*
35049512 TTATTTTAC
1 TCATTTTAC
35049521 TAACCCCACG
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
26 2 0.03
27 70 0.90
28 6 0.08
ACGTcount: A:0.17, C:0.16, G:0.18, T:0.49
Consensus pattern (26 bp):
TCATTTTACCCTTCAGGGTATTTTAG
Found at i:35049462 original size:54 final size:54
Alignment explanation
Indices: 35049404--35049520 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
35049394 GTTATAGCAT
*
35049404 TCATTTTACCCTTCAGGGGTATTTT-AGTCATTTTA-CCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCAGGGGTATTTTGA-TCATTTTATCCCTTC-AGGGTATTTTAG
** *
35049458 TCATTTTACCCTTTGGGGGTATTTTGATCATTTTATCCTTTCAGGGTATTTTAG
1 TCATTTTACCCTTCAGGGGTATTTTGATCATTTTATCCCTTCAGGGTATTTTAG
*
35049512 TTATTTTAC
1 TCATTTTAC
35049521 TAACCCCACG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 50 0.89
55 6 0.11
ACGTcount: A:0.17, C:0.16, G:0.18, T:0.49
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTTGATCATTTTATCCCTTCAGGGTATTTTAG
Found at i:35050549 original size:23 final size:23
Alignment explanation
Indices: 35050523--35050570 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
35050513 TGGATTCAAT
35050523 AGCAAAATGAGAGGGGAGAAAGG
1 AGCAAAATGAGAGGGGAGAAAGG
35050546 AGCAAAATGAGAGGGGAGAAAGG
1 AGCAAAATGAGAGGGGAGAAAGG
35050569 AG
1 AG
35050571 GAATATTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.44, T:0.04
Consensus pattern (23 bp):
AGCAAAATGAGAGGGGAGAAAGG
Found at i:35056031 original size:22 final size:23
Alignment explanation
Indices: 35056006--35056054 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
35055996 ATCTGCTTCT
35056006 TTAATAC-ACCTATTAAGACACA
1 TTAATACTACCTATTAAGACACA
* *
35056028 TTAA-ACTACTTATTAGGACACA
1 TTAATACTACCTATTAAGACACA
35056050 TTAAT
1 TTAAT
35056055 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (23 bp):
TTAATACTACCTATTAAGACACA
Found at i:35067723 original size:122 final size:125
Alignment explanation
Indices: 35067431--35067780 Score: 492
Period size: 122 Copynumber: 2.8 Consensus size: 125
35067421 TAATTTCGAG
** *
35067431 TTGACGTTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGCATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
35067496 AAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCACGCACTCGTAGATGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAA-TATTTTT
*
35067557 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
35067622 AAATCACG-ACTCGTCAGCT-CGCTTTTGCTACAGTAGGTCATGTAAGAAAT-A-ATTTTT
66 AAATCACGCACTCGT-AGATGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATATTTTT
* * *
35067679 TTGACGTTTCTAAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTAAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * *
35067744 AAATCGCGCCCTCGTGGACGCACTTTTGCTACAGTAG
66 AAATCACGCACTCGTAGATGCGCTTTTGCTACAGTAG
35067781 CATGTTTGGG
Statistics
Matches: 201, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
122 75 0.37
123 21 0.10
124 1 0.00
125 34 0.17
126 70 0.35
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCACGCACTCGTAGATGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATATTTTT
Found at i:35071006 original size:23 final size:23
Alignment explanation
Indices: 35070977--35071353 Score: 314
Period size: 23 Copynumber: 15.9 Consensus size: 23
35070967 AAATTATGTA
35070977 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
35071000 AAATTAGGTTAGGG-TTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
*
35071023 -AA--GGGTTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATT
*
35071044 AAATTAGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
35071067 AAATTAGGTTAAGGTTAGGGTTTTTAAGTT
1 -AA--A--TT-AGGTTAGGGTTTTTAA-TT
**
35071097 -AA-GGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
35071118 AAATTAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
*
35071142 -AA--GGGTTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATT
35071163 AAATTAGGTTAAGGTTAGGGTTTTTAAGTT
1 -AA--A--TT-AGGTTAGGGTTTTTAA-TT
**
35071193 -AA-GGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
35071214 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTTTTAATT
35071243 AAATTAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
* * *
35071267 -AA-GAGTTTAAGG-TTTTACATT
1 AAATTAGGTTAGGGTTTTTA-ATT
* *
35071288 AAATTAGGTTGGGGTTGTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
35071311 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
35071334 AAATTAGGTTAGGGTTTTTA
1 AAATTAGGTTAGGGTTTTTA
35071354 TTACATCAAA
Statistics
Matches: 290, Mismatches: 24, Indels: 80
0.74 0.06 0.20
Matches are distributed among these distances:
20 2 0.01
21 23 0.08
22 71 0.24
23 116 0.40
24 15 0.05
25 2 0.01
26 4 0.01
28 6 0.02
29 45 0.16
30 6 0.02
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAATT
Found at i:35071083 original size:96 final size:96
Alignment explanation
Indices: 35070982--35071353 Score: 362
Period size: 96 Copynumber: 3.9 Consensus size: 96
35070972 ATGTAAAATT
* *
35070982 AGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGG-TTTTAAGTT-AA-GGGTTTAGGGTTTTTAAT
1 AGGTTAGGGTTTTTAAGTT-AA-GAGGTTAGGGTTTTTAA-TTAAATAGG-TTAGGGTTTTTAAT
*
35071043 TAAATTAGGTTAGGATTTTTAATTAAATTAGGTTA
62 TAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA
*
35071078 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-
1 AGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAATTAAA-TAGGTTAGGGTTTTTAA-TTA
*
35071142 AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTA
64 AATTAGG-TTAGGGTTTTTAATTAAATTAGGTTA
*
35071174 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAATT-AA--A---TA-GGTTAGGGTTTTT
* *
35071239 AATTAAATTAGGTTAGGGTTTTTAAGTT-AA-GAGTTTA
59 AATTAAATTAGGTTAGGGTTTTTAA-TTAAATTAGGTTA
* * * *
35071276 AGGTT----TTACATTAAATT---AGGTTGGGGTTGTTAATTAAATTAGGTTAGGGTTTTTAATT
1 AGGTTAGGGTT--TTTAAGTTAAGAGGTTAGGGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATT
35071334 AAATTAGGTTAGGGTTTTTA
63 AAATTAGGTTAGGGTTTTTA
35071354 TTACATCAAA
Statistics
Matches: 244, Mismatches: 13, Indels: 43
0.81 0.04 0.14
Matches are distributed among these distances:
91 37 0.15
92 3 0.01
94 1 0.00
95 12 0.05
96 93 0.38
97 34 0.14
98 6 0.02
99 1 0.00
100 6 0.02
101 5 0.02
102 27 0.11
103 15 0.06
104 4 0.02
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (96 bp):
AGGTTAGGGTTTTTAAGTTAAGAGGTTAGGGTTTTTAATTAAATAGGTTAGGGTTTTTAATTAAA
TTAGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:35071107 original size:74 final size:72
Alignment explanation
Indices: 35070977--35071353 Score: 308
Period size: 74 Copynumber: 5.3 Consensus size: 72
35070967 AAATTATGTA
35070977 AAATTAGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGG-TTTTAAGTTAAGGGTTTAGGG
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAA-GG-TTAGGG
35071035 TTTTTAATT
64 TTTTTAATT
* *
35071044 AAATTAGGTTAGGATTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGG
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAA--GGTTAGGG
35071109 TTTTTAATT
64 TTTTTAATT
* **** * *
35071118 AAATTAGGTTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTA
1 AAATTAGGTTAGGGTTTTTAA-TTAAATTAGG-TTAGGG-TTAGGGTT--TTTAAGTTAAGGTTA
35071180 GGGTTTTTAAGTT
61 GGGTTTTTAA-TT
**
35071193 -AA-GGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAATTAGGTTAG
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTT--A--AGGTTAG
35071255 GGTTTTTAAGTT
62 GGTTTTTAA-TT
* * * * * *
35071267 -AA-GAGTTTAAGG-TTTTACATTAAATTAGGTTGGGGTT---GTTAATTAAATT-AGGTTAGGG
1 AAATTAGGTTAGGGTTTTTA-ATTAAATTAGGTTAGGGTTAGGGTT-TTTAAGTTAAGGTTAGGG
35071325 TTTTTAATT
64 TTTTTAATT
35071334 AAATTAGGTTAGGGTTTTTA
1 AAATTAGGTTAGGGTTTTTA
35071354 TTACATCAAA
Statistics
Matches: 256, Mismatches: 27, Indels: 51
0.77 0.08 0.15
Matches are distributed among these distances:
67 24 0.09
68 20 0.08
69 7 0.03
70 8 0.03
71 6 0.02
72 12 0.05
73 41 0.16
74 121 0.47
75 9 0.04
76 8 0.03
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (72 bp):
AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAAGGTTAGGGTT
TTTAATT
Found at i:35071114 original size:51 final size:51
Alignment explanation
Indices: 35071050--35071268 Score: 317
Period size: 51 Copynumber: 4.4 Consensus size: 51
35071040 AATTAAATTA
*
35071050 GGTTAGGATTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
35071101 GGTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
*
35071146 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
* **
35071197 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAATTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTT-AA-GG
35071249 GGTTAGGGTTTTTAAGTTAA
1 GGTTAGGGTTTTTAA-TTAA
35071269 GAGTTTAAGG
Statistics
Matches: 153, Mismatches: 6, Indels: 16
0.87 0.03 0.09
Matches are distributed among these distances:
45 39 0.25
46 4 0.03
48 2 0.01
50 6 0.04
51 83 0.54
52 15 0.10
53 4 0.03
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (51 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
Found at i:35071133 original size:45 final size:45
Alignment explanation
Indices: 35071078--35071229 Score: 241
Period size: 45 Copynumber: 3.2 Consensus size: 45
35071068 AATTAGGTTA
35071078 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
*
35071123 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-AA--A--TT
35071173 AAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
1 -AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
35071219 AGGTTAGGGTT
1 AGGTTAGGGTT
35071230 AGGGTTTTTA
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
45 50 0.51
46 4 0.04
48 2 0.02
50 4 0.04
51 39 0.39
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (45 bp):
AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
Found at i:35071183 original size:29 final size:29
Alignment explanation
Indices: 35071139--35071258 Score: 139
Period size: 29 Copynumber: 4.3 Consensus size: 29
35071129 GGGTTTTTAA
35071139 GTTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAA-GG-TTAGGGTTTTTAATTAAATTAG
35071170 GTTAAGGTTAGGGTTTTTAAGTT--A--AG
1 GTTAAGGTTAGGGTTTTTAA-TTAAATTAG
35071196 G----GGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
*
35071221 GTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
*
35071250 GTTAGGGTT
1 GTTAAGGTT
35071259 TTTAAGTTAA
Statistics
Matches: 80, Mismatches: 0, Indels: 20
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.03
22 15 0.19
23 1 0.01
25 3 0.04
26 3 0.04
28 1 0.01
29 46 0.57
30 4 0.05
31 5 0.06
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (29 bp):
GTTAAGGTTAGGGTTTTTAATTAAATTAG
Found at i:35071891 original size:18 final size:18
Alignment explanation
Indices: 35071868--35071902 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35071858 CGGAAAAGGA
*
35071868 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
35071886 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
35071903 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:35072547 original size:7 final size:7
Alignment explanation
Indices: 35072537--35072561 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35072527 TTATATACAT
35072537 AATACTA
1 AATACTA
35072544 AATACTA
1 AATACTA
35072551 AATACTA
1 AATACTA
35072558 AATA
1 AATA
35072562 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:35073747 original size:22 final size:22
Alignment explanation
Indices: 35073722--35073795 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
35073712 AAATATGGAT
*
35073722 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
35073744 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
*
35073766 TTGAGAGGAA-TTGAG-AGGAAA
1 TTGAGA-GAATTTTAGAAGGAAA
35073787 TATGAGAGA
1 T-TGAGAGA
35073796 GGATTTGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.19
22 36 0.75
23 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:35073794 original size:12 final size:11
Alignment explanation
Indices: 35073738--35073794 Score: 64
Period size: 10 Copynumber: 5.2 Consensus size: 11
35073728 GAATTTTGGA
35073738 AGGAAATTGAG
1 AGGAAATTGAG
* *
35073749 A-GAATTTTAG
1 AGGAAATTGAG
35073759 AAGGAAATTGAG
1 -AGGAAATTGAG
35073771 AGG-AATTGAG
1 AGGAAATTGAG
35073781 AGGAAATATGAG
1 AGGAAAT-TGAG
35073793 AG
1 AG
35073795 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 17 0.45
11 8 0.21
12 13 0.34
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:35075021 original size:26 final size:26
Alignment explanation
Indices: 35074992--35075062 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
35074982 AACATATCGA
*
35074992 TTCATAGCTTGTGTGAGCAGACCCAT
1 TTCACAGCTTGTGTGAGCAGACCCAT
*
35075018 TTCACAGCTTGTGTAAGCAGACCCAT
1 TTCACAGCTTGTGTGAGCAGACCCAT
35075044 TTCACAGCTTGTGTGAGCA
1 TTCACAGCTTGTGTGAGCA
35075063 CTATTGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (26 bp):
TTCACAGCTTGTGTGAGCAGACCCAT
Found at i:35077504 original size:42 final size:42
Alignment explanation
Indices: 35077441--35077520 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
35077431 ATAAGAGAAC
35077441 AGTTGCATTACAAATACATTCTGAAATTAGACACTTTGGCGG
1 AGTTGCATTACAAATACATTCTGAAATTAGACACTTTGGCGG
* * * *
35077483 AGTTGTATTACAAATAGATTCTGCAATTAGACATTTTG
1 AGTTGCATTACAAATACATTCTGAAATTAGACACTTTG
35077521 ATGGATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (42 bp):
AGTTGCATTACAAATACATTCTGAAATTAGACACTTTGGCGG
Found at i:35081082 original size:40 final size:40
Alignment explanation
Indices: 35081051--35081228 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
35081041 GGACTAAGAT
35081051 CCGAAGGCATTTGTACGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTATTAATTCCGGGTTAAGTC
* * * *
35081091 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTATTAATTCCGGGTTAAGTC
* * *
35081131 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTATT-AATTCCGGGTTAAGTC
* * *
35081171 CCGAAGGCA-TTGTATGAGTTACTATAA--CCGGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTA-T-TAATTCCGGGTTAAGTC
* *
35081210 CCGAAGGCACTTGAACGAG
1 CCGAAGGCATTTGTACGAG
35081229 GAGCTATATC
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 28 0.24
40 85 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTACGAGTTATTAATTCCGGGTTAAGTC
Found at i:35081135 original size:80 final size:81
Alignment explanation
Indices: 35080998--35081178 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
35080988 TTGAATGCTG
* *
35080998 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
35081062 TGTACGAGTTATT-AAT
66 CGTACGAGTT-TTAAAA
**
35081078 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
*
35081139 ATTCGTGCGAGTTTTAAAA
63 ATTCGTACGAGTTTTAAAA
35081158 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
35081179 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTACGAGTTTTAAAA
Found at i:35090697 original size:27 final size:27
Alignment explanation
Indices: 35090666--35090843 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35090656 TAAATTGTAC
35090666 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35090693 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35090719 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35090747 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35090775 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35090802 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35090829 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35090844 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35090780 original size:82 final size:81
Alignment explanation
Indices: 35090667--35090822 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35090657 AAATTGTACA
* *
35090667 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35090731 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35090748 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35090813 TGCGAGTTGA
65 TGCGAATTGA
35090823 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35090834 original size:82 final size:81
Alignment explanation
Indices: 35090663--35090843 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35090653 GATTAAATTG
* *
35090663 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35090728 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35090744 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35090808 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35090826 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35090844 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35092373 original size:40 final size:40
Alignment explanation
Indices: 35092289--35092472 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
35092279 TTGAATGCTG
* * * *
35092289 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
35092328 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
35092369 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
35092409 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
35092449 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35092473 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:35092426 original size:80 final size:81
Alignment explanation
Indices: 35092289--35092469 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
35092279 TTGAATGCTG
* *
35092289 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
35092353 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
35092369 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
35092430 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
35092449 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
35092470 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:35101751 original size:34 final size:34
Alignment explanation
Indices: 35101708--35101774 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
35101698 ACAGATACCA
* *
35101708 AAGTATGCAAAATTTTTAAATGAGCTGTTAACAG
1 AAGTATGCAAAATTTTTAAAGGAACTGTTAACAG
35101742 AAGTATGCAAAATTTTTAAAGGAACTGTTAACA
1 AAGTATGCAAAATTTTTAAAGGAACTGTTAACA
35101775 AATAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (34 bp):
AAGTATGCAAAATTTTTAAAGGAACTGTTAACAG
Found at i:35102878 original size:5 final size:6
Alignment explanation
Indices: 35102862--35102887 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35102852 CATGTTATTT
35102862 CAAAAA CAAAAA CAAAAA CAAAAA CA
1 CAAAAA CAAAAA CAAAAA CAAAAA CA
35102888 TTAGTACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:35113365 original size:26 final size:24
Alignment explanation
Indices: 35113300--35113369 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
35113290 AACACACCAT
35113300 TTGTGGACAAGCCACCACAT--AA
1 TTGTGGACAAGCCACCACATAAAA
* * *
35113322 TTTTTGACAA-ACAGCCACATAAGACA
1 TTGTGGACAAGCCA-CCACATAA-A-A
35113348 TTGTGGACAAGCCACCACATAA
1 TTGTGGACAAGCCACCACATAA
35113370 TTGACGATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.06
22 14 0.39
25 1 0.03
26 17 0.47
27 2 0.06
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.20
Consensus pattern (24 bp):
TTGTGGACAAGCCACCACATAAAA
Found at i:35116019 original size:40 final size:40
Alignment explanation
Indices: 35115935--35116118 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
35115925 TTGAATGCTG
* * * *
35115935 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
35115974 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
35116015 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
35116055 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
35116095 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35116119 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:35116072 original size:80 final size:81
Alignment explanation
Indices: 35115935--35116115 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
35115925 TTGAATGCTG
* *
35115935 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
35115999 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
35116015 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
35116076 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
35116095 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
35116116 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:35121367 original size:22 final size:22
Alignment explanation
Indices: 35121339--35121383 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
35121329 ACTATTTGTA
35121339 CTCAGTTTCTTATGTTCATGGT
1 CTCAGTTTCTTATGTTCATGGT
35121361 CTCAGTTTCTTATGTTCATGGT
1 CTCAGTTTCTTATGTTCATGGT
35121383 C
1 C
35121384 AATCATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.18, T:0.49
Consensus pattern (22 bp):
CTCAGTTTCTTATGTTCATGGT
Found at i:35130378 original size:20 final size:20
Alignment explanation
Indices: 35130325--35130417 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
35130315 GAGCTAATAA
* *
35130325 TGAGCTC-AATGAGCTGAAT
1 TGAGCTCGAGTGAGCTGACT
* * * *
35130344 TGAGTTCGTGGGAGCTTACT
1 TGAGCTCGAGTGAGCTGACT
*
35130364 TGAGCTCGAATGAGCTGACT
1 TGAGCTCGAGTGAGCTGACT
* *
35130384 TGAGCTCGAGTGAACTGAAT
1 TGAGCTCGAGTGAGCTGACT
35130404 TGAGCTCGAGTGAG
1 TGAGCTCGAGTGAG
35130418 ATGAACCGCA
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
19 6 0.10
20 52 0.90
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (20 bp):
TGAGCTCGAGTGAGCTGACT
Found at i:35130407 original size:40 final size:40
Alignment explanation
Indices: 35130325--35130422 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
35130315 GAGCTAATAA
* * * * *
35130325 TGAGCTC-AATGAGCTGAATTGAGTTCGTGGGAGCTTACT
1 TGAGCTCGAATGAGCTGAATTGAGCTCGAGGGAACTGAAT
* *
35130364 TGAGCTCGAATGAGCTGACTTGAGCTCGAGTGAACTGAAT
1 TGAGCTCGAATGAGCTGAATTGAGCTCGAGGGAACTGAAT
* *
35130404 TGAGCTCGAGTGAGATGAA
1 TGAGCTCGAATGAGCTGAA
35130423 CCGCATGGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 7 0.15
40 41 0.85
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (40 bp):
TGAGCTCGAATGAGCTGAATTGAGCTCGAGGGAACTGAAT
Found at i:35132121 original size:15 final size:15
Alignment explanation
Indices: 35132086--35132124 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35132076 TCTTTTCAGG
35132086 CTCTCTTTCTTTTCC
1 CTCTCTTTCTTTTCC
* *
35132101 CACTCTTTCTTTTTC
1 CTCTCTTTCTTTTCC
*
35132116 TTCTCTTTC
1 CTCTCTTTC
35132125 AATTTCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (15 bp):
CTCTCTTTCTTTTCC
Found at i:35132181 original size:18 final size:18
Alignment explanation
Indices: 35132160--35132217 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
35132150 TTTTCACTCA
*
35132160 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATTTCTTTTT
*
35132178 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
35132196 CTTTTTCAATGTCTTTTT
1 CTTTTTCAATTTCTTTTT
35132214 CTTT
1 CTTT
35132218 CATTTCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.67
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:35132194 original size:30 final size:29
Alignment explanation
Indices: 35132116--35132196 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
35132106 TTTCTTTTTC
*
35132116 TTCTCTTTCAATTTCTTTTTCAAGCTCTTT
1 TTCT-TTTCAATTTCTTTTTCAAGCTCCTT
* ** **
35132146 TTCCTTTTCACTCACTTTTTCAATTTCCTT
1 TT-CTTTTCAATTTCTTTTTCAAGCTCCTT
35132176 TTCTTTTGCAATTTCTTTTTC
1 TTCTTTT-CAATTTCTTTTTC
35132197 TTTTTCAATG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 5 0.12
30 33 0.82
31 2 0.05
ACGTcount: A:0.12, C:0.25, G:0.02, T:0.60
Consensus pattern (29 bp):
TTCTTTTCAATTTCTTTTTCAAGCTCCTT
Found at i:35134086 original size:13 final size:13
Alignment explanation
Indices: 35134068--35134092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35134058 GTATTGATCA
35134068 TGTGTTCACACCT
1 TGTGTTCACACCT
35134081 TGTGTTCACACC
1 TGTGTTCACACC
35134093 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:35136787 original size:19 final size:19
Alignment explanation
Indices: 35136760--35136798 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35136750 TTATTCCAGC
*
35136760 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35136779 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35136798 A
1 A
35136799 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:35143106 original size:35 final size:35
Alignment explanation
Indices: 35143060--35143149 Score: 162
Period size: 35 Copynumber: 2.6 Consensus size: 35
35143050 AACTAAGTTG
*
35143060 AACTTAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
35143095 AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
1 AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
*
35143130 AACTTAATTAATTAAGATGA
1 AACTTAATTAACTAAGATGA
35143150 ACTCAATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
Found at i:35143157 original size:19 final size:19
Alignment explanation
Indices: 35143130--35143168 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35143120 TTATTCCAAC
* *
35143130 AACTTAATTAATTAAGATG
1 AACTCAATTAACTAAGATG
35143149 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35143168 A
1 A
35143169 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:35149008 original size:12 final size:13
Alignment explanation
Indices: 35148989--35149022 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
35148979 CTACCCTTTC
*
35148989 CTTTTTTTTTTTT
1 CTTTTTTTTGTTT
35149002 CTTTTTTTTGTTT
1 CTTTTTTTTGTTT
35149015 CTTTTTTT
1 CTTTTTTT
35149023 CGTCTCTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (13 bp):
CTTTTTTTTGTTT
Done.