Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 250 of 316
Found at i:82519567 original size:15 final size:14
Alignment explanation
Indices: 82519541--82519575 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
82519531 ATGGATTATG
82519541 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
82519555 GGTTTAGGGGTTTAT
1 GGTTTA-GGGTTTAA
82519570 GGTTTA
1 GGTTTA
82519576 TGAGTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:82519707 original size:7 final size:7
Alignment explanation
Indices: 82519697--82519802 Score: 50
Period size: 7 Copynumber: 14.9 Consensus size: 7
82519687 AAGGGGACAT
82519697 GGTTTAG
1 GGTTTAG
82519704 GGTTTAG
1 GGTTTAG
* *
82519711 TGTTTAA
1 GGTTTAG
*
82519718 AGTTTAG
1 GGTTTAG
* *
82519725 GGATTAAT
1 GG-TTTAG
*
82519733 GGTTTAT
1 GGTTTAG
*
82519740 GGTTTAA
1 GGTTTAG
*
82519747 GGTTGAG
1 GGTTTAG
*
82519754 GGGTTAGG
1 GGTTTA-G
*
82519762 GGTTAAG
1 GGTTTAG
*** *
82519769 GGGACAT
1 GGTTTAG
82519776 GGTTTAG
1 GGTTTAG
82519783 GGTTTAG
1 GGTTTAG
*
82519790 TGTTTAG
1 GGTTTAG
*
82519797 TGTTTA
1 GGTTTA
82519803 AATTTTAAGG
Statistics
Matches: 73, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
7 63 0.86
8 10 0.14
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:82519916 original size:14 final size:14
Alignment explanation
Indices: 82519864--82519916 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
82519854 AGAGAATATG
*
82519864 GTTTAGGGTTTAGT
1 GTTTAAGGTTTAGT
* *
82519878 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGT
* *
82519892 GATTAATGGTTTATT
1 GTTTAA-GGTTTAGT
82519907 GTTTAAGGTT
1 GTTTAAGGTT
82519917 GATAGGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
GTTTAAGGTTTAGT
Found at i:82519960 original size:29 final size:30
Alignment explanation
Indices: 82519921--82519983 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
82519911 AAGGTTGATA
* *
82519921 GGTTTAGGGGTT-AAGGGGACAT-GGTTTAG
1 GGTTGAGGGGTTGAA-GGGACATGGGTTAAG
82519950 GGTTGAGGGGTTGAAGGGACATGGGTTAAG
1 GGTTGAGGGGTTGAAGGGACATGGGTTAAG
82519980 GGTT
1 GGTT
82519984 TAGGATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.21, C:0.03, G:0.48, T:0.29
Consensus pattern (30 bp):
GGTTGAGGGGTTGAAGGGACATGGGTTAAG
Found at i:82520136 original size:26 final size:24
Alignment explanation
Indices: 82520100--82520150 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 24
82520090 TATATTAAAT
82520100 AATTTCAAATTTT-AATGATTTCAA
1 AATTTCAAATTTTCAA-GATTTCAA
82520124 AATTTCAATAATTTTCAAGATTTCAA
1 AATTTC-A-AATTTTCAAGATTTCAA
82520150 A
1 A
82520151 TTTTATGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.25
25 1 0.04
26 15 0.62
27 2 0.08
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (24 bp):
AATTTCAAATTTTCAAGATTTCAA
Found at i:82520141 original size:18 final size:17
Alignment explanation
Indices: 82520097--82520149 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
82520087 ATATATATTA
*
82520097 AATAATTTC-AAATTTT
1 AATAATTTCAAAATTTC
*
82520113 AATGATTTCAAAATTTC
1 AATAATTTCAAAATTTC
*
82520130 AATAATTTTCAAGATTTC
1 AATAA-TTTCAAAATTTC
82520148 AA
1 AA
82520150 ATTTTATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 8 0.26
17 10 0.32
18 13 0.42
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (17 bp):
AATAATTTCAAAATTTC
Found at i:82520302 original size:18 final size:17
Alignment explanation
Indices: 82520264--82520299 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
82520254 CTATATAACG
82520264 TATTGTTTTTTAATTTA
1 TATTGTTTTTTAATTTA
82520281 TATTGTTTTTT-ATTTA
1 TATTGTTTTTTAATTTA
82520297 TAT
1 TAT
82520300 ATTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TATTGTTTTTTAATTTA
Found at i:82521314 original size:10 final size:10
Alignment explanation
Indices: 82521282--82521320 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
82521272 GCTGCACTTT
*
82521282 TTTTTTTCCA
1 TTTTTTTCAA
82521292 TTTTTGTTCCAA
1 TTTTT-TT-CAA
82521304 TTTTTTTCAA
1 TTTTTTTCAA
82521314 TTTTTTT
1 TTTTTTT
82521321 GAAGTTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 15 0.58
11 4 0.15
12 7 0.27
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:82521417 original size:13 final size:14
Alignment explanation
Indices: 82521395--82521424 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
82521385 GGAAATATTC
82521395 AAAAACAAAAACTT
1 AAAAACAAAAACTT
82521409 AAAAA-AAAAACTT
1 AAAAACAAAAACTT
82521422 AAA
1 AAA
82521425 TTTCCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAACAAAAACTT
Found at i:82521693 original size:84 final size:85
Alignment explanation
Indices: 82521596--82521753 Score: 255
Period size: 85 Copynumber: 1.9 Consensus size: 85
82521586 TGTAGTATTT
* * *
82521596 TAGTATTTCAGTATTTCAATTCATT-AACTCTTTCTGATTAACATGCCGTATGAACTCATACTTC
1 TAGTATTTCAGTATTTCAATTCATTAAACTCTCTCTGATGAACATGCCGTATGAACTAATACTTC
82521660 TCCATTTGCTTTTTTTTTGG
66 TCCATTTGCTTTTTTTTTGG
* *
82521680 TAGTATTTTAGTATTTCAATTCATTAAACTCTCTCTGATGAACATGCTGTATGAACTAATACTTC
1 TAGTATTTCAGTATTTCAATTCATTAAACTCTCTCTGATGAACATGCCGTATGAACTAATACTTC
*
82521745 TCGATTTGC
66 TCCATTTGC
82521754 ATTTGAAGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 24 0.36
85 43 0.64
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.45
Consensus pattern (85 bp):
TAGTATTTCAGTATTTCAATTCATTAAACTCTCTCTGATGAACATGCCGTATGAACTAATACTTC
TCCATTTGCTTTTTTTTTGG
Found at i:82523803 original size:64 final size:64
Alignment explanation
Indices: 82523730--82523862 Score: 257
Period size: 64 Copynumber: 2.1 Consensus size: 64
82523720 TAATATTTCT
*
82523730 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
82523794 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
82523858 ATATT
1 ATATT
82523863 AAATAAAATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:82523876 original size:64 final size:64
Alignment explanation
Indices: 82523743--82523877 Score: 202
Period size: 64 Copynumber: 2.1 Consensus size: 64
82523733 TTTCTATCAC
* ** * *
82523743 GATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTAATATAAA
82523807 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTAA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTAATATAAA
82523870 -ATATTTTA
1 GAT-TTTTA
82523878 TATAGTTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 2 0.03
63 8 0.12
64 55 0.85
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTAATATAAA
Found at i:82523938 original size:24 final size:24
Alignment explanation
Indices: 82523911--82523981 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
82523901 ATTATTATTG
*
82523911 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
82523935 AAATATTATTGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
82523959 AAATATTATCATCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
82523982 TTTAAGTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:82524187 original size:29 final size:29
Alignment explanation
Indices: 82524155--82524228 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
82524145 AACGACATGT
*
82524155 ATATTATTTAATTAAAATAAATTTTT-TCA
1 ATATTATTTAATTAAAAT-AATTTTTATAA
82524184 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAATTTTTATAA
82524213 ATATTATTTAATTAAA
1 ATATTATTTAATTAAA
82524229 TATTATTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 7 0.16
29 36 0.84
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAATTTTTATAA
Found at i:82524228 original size:15 final size:15
Alignment explanation
Indices: 82524155--82524239 Score: 81
Period size: 15 Copynumber: 5.8 Consensus size: 15
82524145 AACGACATGT
82524155 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* * *
82524170 A-ATAAATTT-TTTCA
1 ATAT-TATTTAATTAA
82524184 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
82524200 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
82524213 ATATTATTTAATTAA
1 ATATTATTTAATTAA
82524228 ATATTATTTAAT
1 ATATTATTTAAT
82524240 CCCGAAACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
12 3 0.05
13 7 0.12
14 12 0.21
15 25 0.45
16 6 0.11
17 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:82524356 original size:9 final size:9
Alignment explanation
Indices: 82524344--82524674 Score: 143
Period size: 9 Copynumber: 37.6 Consensus size: 9
82524334 TATTTGATAT
*
82524344 CATAATTTA
1 CATAACTTA
82524353 CATAACTTA
1 CATAACTTA
* *
82524362 CAAAACGTA
1 CATAACTTA
82524371 CATAACTTA
1 CATAACTTA
*
82524380 TATAACTTA
1 CATAACTTA
* *
82524389 GATAA-ATA
1 CATAACTTA
**
82524397 TTTAACTTA
1 CATAACTTA
*
82524406 TATAACTTA
1 CATAACTTA
82524415 CATAACTTA
1 CATAACTTA
82524424 CATAACTTA
1 CATAACTTA
*
82524433 TATAACTTA
1 CATAACTTA
*
82524442 CAT-A-TAAA
1 CATAACT-TA
*
82524450 TATAACTTA
1 CATAACTTA
*
82524459 CATAA-ATA
1 CATAACTTA
* * *
82524467 TATATCATA
1 CATAACTTA
82524476 TCATAACTTA
1 -CATAACTTA
82524486 CATAATACTTA
1 CAT-A-ACTTA
* *
82524497 AATATA-TTT
1 CATA-ACTTA
*
82524506 TAT-A--TA
1 CATAACTTA
*
82524512 -ATAATTTA
1 CATAACTTA
82524520 CATAACTTA
1 CATAACTTA
*
82524529 CAAAACTTA
1 CATAACTTA
*
82524538 CATGACTTA
1 CATAACTTA
*
82524547 TATAACTTA
1 CATAACTTA
* *
82524556 GATAA-ATA
1 CATAACTTA
*
82524564 TATAACTTA
1 CATAACTTA
* *
82524573 TATAACTCA
1 CATAACTTA
*
82524582 TATAACTTA
1 CATAACTTA
* *
82524591 GATAA-ATA
1 CATAACTTA
* *
82524599 TATAATTTA
1 CATAACTTA
*
82524608 CATAA-ATA
1 CATAACTTA
* * *
82524616 TATATCATA
1 CATAACTTA
82524625 TCATAACTTA
1 -CATAACTTA
82524635 CATAACTTA
1 CATAACTTA
82524644 CATAA--TA
1 CATAACTTA
*
82524651 CTTAGA-TATA
1 CATA-ACT-TA
82524661 CATAACTTA
1 CATAACTTA
82524670 CATAA
1 CATAA
82524675 TACTTAGATA
Statistics
Matches: 248, Mismatches: 54, Indels: 40
0.73 0.16 0.12
Matches are distributed among these distances:
5 2 0.01
6 2 0.01
7 7 0.03
8 34 0.14
9 173 0.70
10 23 0.09
11 7 0.03
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:82524426 original size:53 final size:53
Alignment explanation
Indices: 82524369--82524648 Score: 251
Period size: 53 Copynumber: 5.1 Consensus size: 53
82524359 TTACAAAACG
* *
82524369 TACATAACTTATATAACTTAGATAAATATTTAACTTATATAACTTACATAACT
1 TACATAACTTATATAACTTACATAAATATATAACTTATATAACTTACATAACT
* * * * *
82524422 TACATAACTTATATAACTTACATATAA-ATATAACTTACATAA-ATATATATCA
1 TACATAACTTATATAACTTACATA-AATATATAACTTATATAACTTACATAACT
* * * * *
82524474 TATCATAACTTACATAATACTTAAATATATTTTATATAATAATTTACATAACTTACAAAACT
1 TA-CATAACTTATAT-A-ACTTACATA-A----ATAT-ATAACTTATATAACTTACATAACT
* * * *
82524536 TACATGACTTATATAACTTAGATAAATATATAACTTATATAACTCATATAACT
1 TACATAACTTATATAACTTACATAAATATATAACTTATATAACTTACATAACT
* * * * *
82524589 TAGATAA-ATATATAATTTACATAAATATATATCATATCATAACTTACATAACT
1 TACATAACTTATATAACTTACATAAATATATAACTTAT-ATAACTTACATAACT
82524642 TACATAA
1 TACATAA
82524649 TACTTAGATA
Statistics
Matches: 182, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
52 33 0.18
53 90 0.49
54 7 0.04
55 10 0.05
58 1 0.01
59 9 0.05
60 3 0.02
61 22 0.12
62 7 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (53 bp):
TACATAACTTATATAACTTACATAAATATATAACTTATATAACTTACATAACT
Found at i:82524453 original size:44 final size:44
Alignment explanation
Indices: 82524405--82524489 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
82524395 TATTTAACTT
* *
82524405 ATATAACTTACATAACTTACATAACTTAT-ATAACTTACATATAA
1 ATATAACTTACATAA-ATACATAACATATCATAACTTACATATAA
* *
82524449 ATATAACTTACATAAATATATATCATATCATAACTTACATA
1 ATATAACTTACATAAATACATAACATATCATAACTTACATA
82524490 ATACTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 9 0.25
44 27 0.75
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (44 bp):
ATATAACTTACATAAATACATAACATATCATAACTTACATATAA
Found at i:82524490 original size:167 final size:166
Alignment explanation
Indices: 82524313--82524619 Score: 490
Period size: 167 Copynumber: 1.8 Consensus size: 166
82524303 TCAAATAAAA
*
82524313 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACT
1 AACTTACATAATACATAAATATATTTGATATAATAATTTACATAACTTACAAAACGTACATAACT
* * *
82524378 TATATAACTTAGATAAATATTTAACTTATATAACTTACATAACTTACATAACTTATATAACTTAC
66 TATATAACTTAGATAAATATATAACTTATATAACTCACATAACTTACATAA-ATATATAACTTAC
82524443 ATATAA-ATATAACTTACATAAATATATATCATATCAT
130 ATA-AATATATAACTTACATAAATATATATCATATCAT
* * * *
82524480 AACTTACATAATACTTAAATATATTTTATATAATAATTTACATAACTTACAAAACTTACATGACT
1 AACTTACATAATACATAAATATATTTGATATAATAATTTACATAACTTACAAAACGTACATAACT
* * *
82524545 TATATAACTTAGATAAATATATAACTTATATAACTCATATAACTTAGATAAATATATAATTTACA
66 TATATAACTTAGATAAATATATAACTTATATAACTCACATAACTTACATAAATATATAACTTACA
82524610 TAAATATATA
131 TAAATATATA
82524620 TCATATCATA
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
165 2 0.02
166 19 0.15
167 107 0.84
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (166 bp):
AACTTACATAATACATAAATATATTTGATATAATAATTTACATAACTTACAAAACGTACATAACT
TATATAACTTAGATAAATATATAACTTATATAACTCACATAACTTACATAAATATATAACTTACA
TAAATATATAACTTACATAAATATATATCATATCAT
Found at i:82524600 original size:35 final size:35
Alignment explanation
Indices: 82524532--82524612 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
82524522 TAACTTACAA
* *
82524532 AACTTACATGACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTCATATAACTTAGATAAATATAT
*
82524567 AACTTATATAACTCATATAACTTAGATAAATATAT
1 AACTTACATAACTCATATAACTTAGATAAATATAT
*
82524602 AATTTACATAA
1 AACTTACATAA
82524613 ATATATATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (35 bp):
AACTTACATAACTCATATAACTTAGATAAATATAT
Found at i:82524662 original size:26 final size:26
Alignment explanation
Indices: 82524633--82524686 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
82524623 TATCATAACT
82524633 TACATAACTTACATAATACTTAGATA
1 TACATAACTTACATAATACTTAGATA
82524659 TACATAACTTACATAATACTTAGATA
1 TACATAACTTACATAATACTTAGATA
82524685 TA
1 TA
82524687 TATCATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (26 bp):
TACATAACTTACATAATACTTAGATA
Found at i:82527919 original size:40 final size:40
Alignment explanation
Indices: 82527821--82528083 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
82527811 TCCTCGTTCA
* * * * *
82527821 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
82527860 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
82527900 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
82527940 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
82527980 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
82528020 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
82528060 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
82528084 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:82535862 original size:40 final size:40
Alignment explanation
Indices: 82535764--82536026 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
82535754 TCCTCGTTCA
* * * * *
82535764 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
82535803 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
82535843 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
82535883 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
82535923 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
82535963 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
82536003 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
82536027 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:82539141 original size:16 final size:16
Alignment explanation
Indices: 82539120--82539153 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
82539110 TAATAAAAAG
82539120 ATATAGTGCCTTCCTC
1 ATATAGTGCCTTCCTC
82539136 ATATAGTGCCTTCCTC
1 ATATAGTGCCTTCCTC
82539152 AT
1 AT
82539154 CAATGGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (16 bp):
ATATAGTGCCTTCCTC
Found at i:82541009 original size:13 final size:14
Alignment explanation
Indices: 82540993--82541021 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
82540983 TTCTAAATAT
82540993 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
82541006 TTATAATTGTTTAA
1 TTATAATTGTTTAA
82541020 TT
1 TT
82541022 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:82541463 original size:21 final size:21
Alignment explanation
Indices: 82541436--82541490 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
82541426 ACTTAGAGCG
82541436 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* *
82541457 GCGGCAGCAGTGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
82541478 GAGGTAGCAGCGA
1 GAGGCAGCAGCGA
82541491 TGGTAGCAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.51, T:0.04
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:82541930 original size:42 final size:42
Alignment explanation
Indices: 82541875--82541954 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
82541865 GTTTTTCTGG
* *
82541875 CAAACAGCCCTAAAAGCCATTACTTTTAGCAACGCTTTCCAA
1 CAAACAGCCCTAAAAACCATGACTTTTAGCAACGCTTTCCAA
* *
82541917 CAAAC-GCCGCTAAAAACCATGACTTTTAGTAGCGCTTT
1 CAAACAGCC-CTAAAAACCATGACTTTTAGCAACGCTTT
82541955 TTTTACAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (42 bp):
CAAACAGCCCTAAAAACCATGACTTTTAGCAACGCTTTCCAA
Found at i:82544400 original size:21 final size:21
Alignment explanation
Indices: 82544353--82544400 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
82544343 ATAATAAATT
* *
82544353 TTGCTTTTAGACATATTACTC
1 TTGCTTCTAAACATATTACTC
** *
82544374 CCGCTTCTAAACATATTATTC
1 TTGCTTCTAAACATATTACTC
82544395 TTGCTT
1 TTGCTT
82544401 AAAAAAATCG
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (21 bp):
TTGCTTCTAAACATATTACTC
Found at i:82544965 original size:16 final size:17
Alignment explanation
Indices: 82544944--82544977 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
82544934 AAGTTTTATT
*
82544944 TATTTATTATAT-TTAA
1 TATTTAATATATATTAA
82544960 TATTTAATATATATTAA
1 TATTTAATATATATTAA
82544977 T
1 T
82544978 TAATATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTAATATATATTAA
Found at i:82552072 original size:24 final size:25
Alignment explanation
Indices: 82551994--82552099 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 25
82551984 GTAACTCCGA
* **
82551994 AGAGCCATTTATCAGGAAGCTCCGG
1 AGAGCCATATATCAGGAAGCTCAAG
* *
82552019 ATAGCCATATATCAGGAAGTTCAAG
1 AGAGCCATATATCAGGAAGCTCAAG
* * *
82552044 TGAGCCA-ATATCGGGAAGCTCTAG
1 AGAGCCATATATCAGGAAGCTCAAG
* *
82552068 AGAGCCAT-TAATTAGGAAGCTCACAA
1 AGAGCCATAT-ATCAGGAAGCTCA-AG
82552094 AGAGCC
1 AGAGCC
82552100 TTTAATCGAG
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
24 21 0.33
25 35 0.56
26 7 0.11
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
AGAGCCATATATCAGGAAGCTCAAG
Found at i:82557773 original size:20 final size:20
Alignment explanation
Indices: 82557744--82557793 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
82557734 AGCACATGTA
* *
82557744 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
82557764 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
82557784 TTCATTAAAA
1 TTCA-TAAAA
82557794 ATCACTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:82562150 original size:21 final size:20
Alignment explanation
Indices: 82562126--82562164 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
82562116 TACATGGTCA
* *
82562126 CTAATCAAATTACACTTTTTT
1 CTAATAAAAATACA-TTTTTT
82562147 CTAATAAAAATACATTTT
1 CTAATAAAAATACATTTT
82562165 AATTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
CTAATAAAAATACATTTTTT
Found at i:82580104 original size:25 final size:25
Alignment explanation
Indices: 82580070--82580120 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
82580060 GAAAAGAAAA
*
82580070 AGAAAACTTAGGTTCGGCCATTCTC
1 AGAAAACTTAGGTTCGACCATTCTC
*
82580095 AGAAAACTTAGGTTTGACCATTCTC
1 AGAAAACTTAGGTTCGACCATTCTC
82580120 A
1 A
82580121 AGCTTGATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
AGAAAACTTAGGTTCGACCATTCTC
Found at i:82580953 original size:46 final size:45
Alignment explanation
Indices: 82580875--82581052 Score: 230
Period size: 45 Copynumber: 3.9 Consensus size: 45
82580865 TTATGCTATA
* *
82580875 TGTTTTCGTGTAAGAACATATCTGGGGCGTTGGCATCGATATATG
1 TGTTTTCGTGTAAGACCACATCTGGGGCGTTGGCATCGATATATG
* *
82580920 TGTGTTCGTGTAAGACCCACATTTGGGGCGTTGGCATCGATATATG
1 TGTTTTCGTGTAAGA-CCACATCTGGGGCGTTGGCATCGATATATG
* ** *
82580966 TGTTTTCGTGTAAGACCACGTCTGGGATGTTGGTATCGATATATG
1 TGTTTTCGTGTAAGACCACATCTGGGGCGTTGGCATCGATATATG
** * * *
82581011 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGATAT
1 TGTTTTCGTGTAAGACCACATCTGGGGCGTTGGCATCGATAT
82581053 GTGGTTACGA
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 76 0.65
46 41 0.35
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.35
Consensus pattern (45 bp):
TGTTTTCGTGTAAGACCACATCTGGGGCGTTGGCATCGATATATG
Found at i:82581067 original size:43 final size:44
Alignment explanation
Indices: 82580875--82581083 Score: 186
Period size: 45 Copynumber: 4.7 Consensus size: 44
82580865 TTATGCTATA
* * * * *
82580875 TGTTTTCGTGTAAGAACATATCTGGGGCGTTGGCATCGATATATG
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGA-ATATG
* ** * * * *
82580920 TGTGTTCGTGTAAGACCCACATTTGGGGCGTTGGCATCGATATATG
1 TGTTTTCGTGTAAGA-CCATGTCTGGGACATTGACATCGA-ATATG
* ** **
82580966 TGTTTTCGTGTAAGACCACGTCTGGGATGTTGGTATCGATATATG
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGA-ATATG
82581011 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCG-ATATG
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGAATATG
* * * *
82581054 TGGTTACGAGTAAGACCATGTTTGGGACAT
1 TGTTTTCGTGTAAGACCATGTCTGGGACAT
82581084 CGTCATTGTA
Statistics
Matches: 144, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
43 31 0.22
45 72 0.50
46 41 0.28
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGAATATG
Found at i:82581121 original size:41 final size:42
Alignment explanation
Indices: 82580961--82581164 Score: 124
Period size: 43 Copynumber: 4.7 Consensus size: 42
82580951 TGGCATCGAT
* * ** * **
82580961 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGTATCG
1 ATATGTG-ATTCGTGTAAGACCATGTCTGGGACATCGACATCG
* *
82581004 ATATATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCG
1 --ATATGTG-ATTCGTGTAAGACCATGTCTGGGACATCGACATCG
* * * * *
82581049 ATATGTGGTTACGAGTAAGACCATGTTTGGGACATCGTCATTG
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACATCGACATCG
* * * * *
82581092 -TATTTGATTCGTGTAAGACCCTATCTGGGACAGT-GGCATTG
1 ATATGTGATTCGTGTAAGACCATGTCTGGGACA-TCGACATCG
* * * *
82581133 ATATGAGATAGCATGTAAGACCACGTCTGGGA
1 ATATGTGAT-TCGTGTAAGACCATGTCTGGGA
82581165 TGTTGGAATT
Statistics
Matches: 130, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 25 0.19
42 16 0.12
43 51 0.39
45 38 0.29
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATCGACATCG
Found at i:82582757 original size:39 final size:39
Alignment explanation
Indices: 82582729--82582880 Score: 164
Period size: 39 Copynumber: 4.2 Consensus size: 39
82582719 GGACTTTAAC
* * **
82582729 CCGGACATATTTCCAGCATGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
82582768 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
82582807 CCGGATATAATTCCAGCAC--A-----C---CC-TAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
82582835 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
82582874 CTGGATA
1 CCGGATA
82582881 AACATCACTG
Statistics
Matches: 95, Mismatches: 7, Indels: 22
0.77 0.06 0.18
Matches are distributed among these distances:
28 24 0.25
29 2 0.02
30 1 0.01
32 1 0.01
35 1 0.01
37 1 0.01
38 2 0.02
39 63 0.66
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:82597904 original size:21 final size:21
Alignment explanation
Indices: 82597880--82597948 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
82597870 TAGCTCTCAC
82597880 GAGCTTTTATTCAACTCTTAT
1 GAGCTTTTATTCAACTCTTAT
* * **
82597901 GAGCTTTTAGTCAGCTCTTCC
1 GAGCTTTTATTCAACTCTTAT
* *
82597922 GAGCTTCTGTT-AAGCTCTTAT
1 GAGCTTTTATTCAA-CTCTTAT
82597943 GAGCTT
1 GAGCTT
82597949 CTGTTTAGCT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.03
21 36 0.97
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (21 bp):
GAGCTTTTATTCAACTCTTAT
Found at i:82597949 original size:21 final size:21
Alignment explanation
Indices: 82597894--82597958 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
82597884 TTTTATTCAA
* *
82597894 CTCTTATGAGCTTTTAG-TCAG
1 CTCTTATGAGCTTCT-GTTAAG
**
82597915 CTCTTCCGAGCTTCTGTTAAG
1 CTCTTATGAGCTTCTGTTAAG
*
82597936 CTCTTATGAGCTTCTGTTTAG
1 CTCTTATGAGCTTCTGTTAAG
82597957 CT
1 CT
82597959 TTCAAGCTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTAAG
Found at i:82599000 original size:20 final size:20
Alignment explanation
Indices: 82598963--82599001 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
82598953 CCTATAGTTC
* **
82598963 AAAATTTTTAAATTTTTCCT
1 AAAATTTTCAAAAGTTTCCT
82598983 AAAATTTTCAAAAGTTTCC
1 AAAATTTTCAAAAGTTTCC
82599002 GATTTAGTCC
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:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (20 bp):
AAAATTTTCAAAAGTTTCCT
Found at i:82600461 original size:48 final size:48
Alignment explanation
Indices: 82600401--82600529 Score: 186
Period size: 48 Copynumber: 2.6 Consensus size: 48
82600391 TATGTGTGCT
* ** *
82600401 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGGTATACAAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCC
*
82600449 AGTGTAAAACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCT
1 AGTGTAAAACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCC
*
82600497 AGTGTAAGACCATGTCTGGGACATGGCATCAAC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCAAC
82600530 TTGTTGTGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 50 0.68
49 15 0.21
50 8 0.11
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (48 bp):
AGTGTAAAACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCC
Found at i:82600643 original size:49 final size:49
Alignment explanation
Indices: 82600401--82600715 Score: 285
Period size: 49 Copynumber: 6.5 Consensus size: 49
82600391 TATGTGTGCT
* * ** *
82600401 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGGTAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGA-AAGTC
* * * *
82600449 AGTGTAAAACATGTCTGGGACAT-GCATCAACCTCGAGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGA-AAGTC
* * * *
82600496 TAGTGTAAGACCATGTCTGGGACATGGCATCA-ACTTG-T-TGTG--TGTC
1 -AGTGTAAGACC-TGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
* * * * *
82600542 AGTGTAAGACCTGTCTGGGACATGGCCTC-GACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAG-C-CTCGATATATGAAAGTC
*
82600591 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
* * *
82600640 AGTGTAAGACCTGTTTGGGACACGGCATTAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
82600689 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
82600716 GTCGGCATCT
Statistics
Matches: 221, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
44 17 0.08
45 12 0.05
46 3 0.01
47 5 0.02
48 52 0.24
49 112 0.51
50 20 0.09
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
Found at i:82604050 original size:15 final size:15
Alignment explanation
Indices: 82604030--82604061 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
82604020 TATTTCACTA
82604030 TTATGTCTTCTATAT
1 TTATGTCTTCTATAT
*
82604045 TTATGTCTTTTATAT
1 TTATGTCTTCTATAT
82604060 TT
1 TT
82604062 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTCTATAT
Found at i:82607378 original size:49 final size:49
Alignment explanation
Indices: 82607318--82607446 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
82607308 ATTAAAGTCG
* * *
82607318 ATGCCGTGTCCCAGACATGACTTACACTGACTTTCATATATTGAG-GCCA
1 ATGCCATGTCCCAGACATGTCTTACACTGACTCTCATATATTG-GTGCCA
* * * * *
82607367 ATGCCATGTCCCAGACATGTCTTACATTGGCTCTCATCTATTGGTGTCG
1 ATGCCATGTCCCAGACATGTCTTACACTGACTCTCATATATTGGTGCCA
* *
82607416 ATGCCATGTCCCAGAGAGGTCTTACACTGAC
1 ATGCCATGTCCCAGACATGTCTTACACTGAC
82607447 ACACAACAAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGTCTTACACTGACTCTCATATATTGGTGCCA
Found at i:82620867 original size:39 final size:40
Alignment explanation
Indices: 82620759--82620943 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
82620749 TCGAATGAAG
* * * *
82620759 TCCGGGCTAAGTCCCGAAGG-GTTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
82620798 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
82620839 TCCGGGCTAAG-CCCGATGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
82620878 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
82620917 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
82620944 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:82620965 original size:79 final size:79
Alignment explanation
Indices: 82620812--82620966 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
82620802 GGACTAAGAT
* * **
82620812 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGATGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
82620877 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
82620891 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
82620954 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
82620967 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:82626100 original size:49 final size:49
Alignment explanation
Indices: 82626046--82626168 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
82626036 GTTGATGCTG
*
82626046 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCGATGCCA
* * * *
82626095 TGTCCCAGATAGGTCTTACACT-AGCTCTCATCTATTGGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTGCCGATGCCA
**
82626144 TGTCGTAGACAGGTCTTACACTGAC
1 TGTCCCAGACAGGTCTTACACTGAC
82626169 ACACAACAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
48 2 0.03
49 60 0.95
50 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
Found at i:82626211 original size:31 final size:31
Alignment explanation
Indices: 82626173--82626234 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
82626163 ACTGACACAC
*
82626173 AACAAGCTGACGCCATGTCCTAGATAGGTCT
1 AACAAGCTGACACCATGTCCTAGATAGGTCT
82626204 AACAAGCTGACACCATGTCCTAGATAGGTCT
1 AACAAGCTGACACCATGTCCTAGATAGGTCT
82626235 TACACTAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (31 bp):
AACAAGCTGACACCATGTCCTAGATAGGTCT
Found at i:82626312 original size:124 final size:124
Alignment explanation
Indices: 82626092--82626327 Score: 454
Period size: 124 Copynumber: 1.9 Consensus size: 124
82626082 GAGGCCGATG
82626092 CCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATTGGTGTCGATGCCATGTCGTAGACAGG
1 CCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATTGGTGTCGATGCCATGTCGTAGACAGG
82626157 TCTTACACTGACACACAACAAGCTGACGCCATGTCCTAGATAGGTCTAACAAGCTGACA
66 TCTTACACTGACACACAACAAGCTGACGCCATGTCCTAGATAGGTCTAACAAGCTGACA
*
82626216 CCATGTCCTAGATAGGTCTTACACTAGCTCTCATCTATTGGTGTCGATGCCATGTCGTAGACAGG
1 CCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATTGGTGTCGATGCCATGTCGTAGACAGG
*
82626281 TCTTACATTGACACACAACAAGCTGACGCCATGTCCTAGATAGGTCT
66 TCTTACACTGACACACAACAAGCTGACGCCATGTCCTAGATAGGTCT
82626328 TACACTAGCT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 110 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (124 bp):
CCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATTGGTGTCGATGCCATGTCGTAGACAGG
TCTTACACTGACACACAACAAGCTGACGCCATGTCCTAGATAGGTCTAACAAGCTGACA
Found at i:82639667 original size:12 final size:12
Alignment explanation
Indices: 82639650--82639712 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
82639640 TTTTAATAAG
82639650 ATTTAATATTAA
1 ATTTAATATTAA
82639662 ATTTAATA-TAA
1 ATTTAATATTAA
*
82639673 TATTT-ATCAAGATAA
1 -ATTTAAT--A-TTAA
82639688 ATATT-ATATTAA
1 AT-TTAATATTAA
82639700 ATTTAATATTAA
1 ATTTAATATTAA
82639712 A
1 A
82639713 GTTTTTAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
11 7 0.16
12 25 0.58
13 2 0.05
14 2 0.05
15 7 0.16
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:82639687 original size:59 final size:58
Alignment explanation
Indices: 82639577--82639707 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 58
82639567 TCCAAAAATA
* * * **
82639577 ATATTATTTTAAT-AGTTTAATATTAAATTTAATTTAATGTTTTTCTTGATAAACATT
1 ATATTATTTTAATAAGTTTAATATTAAATTTAATATAATATTTATCAAGATAAACATT
* *
82639634 CTATTATTTTAATAAGATTTAATATTAAATTTAATATAATATTTATCAAGATAAATATT
1 ATATTATTTTAATAAG-TTTAATATTAAATTTAATATAATATTTATCAAGATAAACATT
*
82639693 ATATTAAATTTAATA
1 ATATT-ATTTTAATA
82639708 TTAAAGTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 12 0.19
58 2 0.03
59 40 0.65
60 8 0.13
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
ATATTATTTTAATAAGTTTAATATTAAATTTAATATAATATTTATCAAGATAAACATT
Found at i:82641424 original size:41 final size:41
Alignment explanation
Indices: 82641378--82641461 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
82641368 TGTTGATTAG
*
82641378 TCCTTAGAGAATTGATCGTTTACTATTTTGACCAGGAAAGA
1 TCCTTAGAGAATTGATCATTTACTATTTTGACCAGGAAAGA
82641419 TCCTTAGAGAATTGATCATTTACTATTTTGACCAGGAAAGA
1 TCCTTAGAGAATTGATCATTTACTATTTTGACCAGGAAAGA
82641460 TC
1 TC
82641462 GTACGGTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (41 bp):
TCCTTAGAGAATTGATCATTTACTATTTTGACCAGGAAAGA
Found at i:82642278 original size:35 final size:35
Alignment explanation
Indices: 82642238--82642307 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
82642228 CATTACTCAT
82642238 TTCCATTTAATTCATGATCCACTGGCCTACATTTA
1 TTCCATTTAATTCATGATCCACTGGCCTACATTTA
82642273 TTCCATTTAATTCATGATCCACTGGCCTACATTTA
1 TTCCATTTAATTCATGATCCACTGGCCTACATTTA
82642308 ACTTACCTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (35 bp):
TTCCATTTAATTCATGATCCACTGGCCTACATTTA
Found at i:82643653 original size:50 final size:49
Alignment explanation
Indices: 82643547--82643778 Score: 279
Period size: 49 Copynumber: 4.7 Consensus size: 49
82643537 GCAGTACGCA
* **
82643547 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACATG
* ** *
82643596 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACATG
* *
82643646 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGT--ATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACATG
* ** * *
82643695 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 --TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACATG
82643746 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
82643779 TCACAATAGA
Statistics
Matches: 154, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
49 70 0.45
50 48 0.31
51 36 0.23
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACATG
Found at i:82647767 original size:18 final size:18
Alignment explanation
Indices: 82647734--82647791 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
82647724 AAGGTTTTCT
82647734 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
82647749 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
82647767 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
82647785 TATTGAT
1 TATTGAT
82647792 CGTGACCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 11 0.29
16 1 0.03
18 26 0.68
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:82648740 original size:28 final size:28
Alignment explanation
Indices: 82648700--82648765 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
82648690 CCATCGCAAA
* * * *
82648700 AACAGTATCAGGTGGGTCTTAGCCCAAT
1 AACAGAATCAGGTAGGCCTAAGCCCAAT
*
82648728 AACAGAATTAGGTAGGCCTAAGCCCAAT
1 AACAGAATCAGGTAGGCCTAAGCCCAAT
82648756 -ACAGAATCAG
1 AACAGAATCAG
82648766 TATCAGATGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (28 bp):
AACAGAATCAGGTAGGCCTAAGCCCAAT
Found at i:82651436 original size:28 final size:27
Alignment explanation
Indices: 82651404--82651456 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
82651394 AATAGTATCG
* *
82651404 GGTGGGCCTTAGCCTAATAACAGAATTA
1 GGTGGGCCTAAGCCCAAT-ACAGAATTA
82651432 GGTGGGCCTAAGCCCAATACAGAAT
1 GGTGGGCCTAAGCCCAATACAGAAT
82651457 CAGTATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTGGGCCTAAGCCCAATACAGAATTA
Found at i:82655464 original size:50 final size:50
Alignment explanation
Indices: 82655390--82655485 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
82655380 ATTTTGATTG
*
82655390 GGGGCAAAAAAAGTTTTTTGGCATCGCGATACCGAACATTTGGTATCGCT
1 GGGGCAAAAAAAGTTTTTAGGCATCGCGATACCGAACATTTGGTATCGCT
*
82655440 GGGGCCAAAAAAGTTTTTAGGCATCGCGATACCGAACATTTGGTAT
1 GGGGCAAAAAAAGTTTTTAGGCATCGCGATACCGAACATTTGGTAT
82655486 GTAAAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (50 bp):
GGGGCAAAAAAAGTTTTTAGGCATCGCGATACCGAACATTTGGTATCGCT
Found at i:82660946 original size:34 final size:33
Alignment explanation
Indices: 82660908--82660971 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
82660898 TAGCGGTAAC
*
82660908 AGTCTGGGCCTGAGCCCATTTCAGTATCAGTGGT
1 AGTCTGGACCTGAGCCCATTTCAGTA-CAGTGGT
* *
82660942 AGTCTGGACCTTAGCCTATTTCAGTACAGT
1 AGTCTGGACCTGAGCCCATTTCAGTACAGT
82660972 ATGCAAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.31
Consensus pattern (33 bp):
AGTCTGGACCTGAGCCCATTTCAGTACAGTGGT
Found at i:82663733 original size:68 final size:67
Alignment explanation
Indices: 82663661--82663810 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
82663651 CATCATGTGT
* * * *
82663661 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
82663723 ATGTAG
62 ATGTAG
** * *
82663729 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
82663794 AG
66 AG
82663796 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
82663811 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:82663766 original size:64 final size:64
Alignment explanation
Indices: 82663685--82663868 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
82663675 AGACATTATG
* *
82663685 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
82663749 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
82663814 AA
63 AA
* * * *
82663816 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
82663869 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:82670991 original size:23 final size:23
Alignment explanation
Indices: 82670959--82671046 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
82670949 AACATGTAAT
* *
82670959 ATTCTGTTAAGCCTTTATGGCAC
1 ATTCTATTAAGCCTTTGTGGCAC
*
82670982 ATTCTATTAAGCCTTTGCGGC-C
1 ATTCTATTAAGCCTTTGTGGCAC
* * *
82671004 TATTTTATAAAGCCTTTGTGGCAT
1 -ATTCTATTAAGCCTTTGTGGCAC
*
82671028 ATTCTGTTAAGCCTTTGTG
1 ATTCTATTAAGCCTTTGTG
82671047 ATGCATTCTG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.02
23 52 0.98
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.42
Consensus pattern (23 bp):
ATTCTATTAAGCCTTTGTGGCAC
Found at i:82678232 original size:22 final size:22
Alignment explanation
Indices: 82678207--82678268 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
82678197 CCACGTTCAG
*
82678207 GCTATGGCTCAACACAGGGGCT
1 GCTACGGCTCAACACAGGGGCT
* * *
82678229 GCTACGGCTAAACATAAGGGCT
1 GCTACGGCTCAACACAGGGGCT
* *
82678251 GTTACGACTCAACACAGG
1 GCTACGGCTCAACACAGG
82678269 ATGTGTGTCA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (22 bp):
GCTACGGCTCAACACAGGGGCT
Found at i:82680834 original size:14 final size:15
Alignment explanation
Indices: 82680808--82680841 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
82680798 TAACTAATCT
82680808 AATAAATTAAAATAA
1 AATAAATTAAAATAA
82680823 AATAAA-TAAAATAA
1 AATAAATTAAAATAA
82680837 AATAA
1 AATAA
82680842 TATCTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAATTAAAATAA
Found at i:82680840 original size:5 final size:5
Alignment explanation
Indices: 82680808--82680841 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
82680798 TAACTAATCT
*
82680808 AATAA ATTAA AATAA AAT-A AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA
82680842 TATCTTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:82681436 original size:4 final size:4
Alignment explanation
Indices: 82681427--82681462 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
82681417 TCAAACAGTC
*
82681427 TTTA TTTA TTTA TTTA TTTA TTTA TTAA TATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT
82681463 TTGAAGGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:82690016 original size:29 final size:27
Alignment explanation
Indices: 82689974--82690052 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 27
82689964 GGCTGGTTTT
82689974 CAGCACTAAGTGTGCGGGTTTAAATTGTA
1 CAGCACTAAGTGTGCGGGTTTAAA--GTA
*
82690003 CAGCACTAAGTGTGCGAGTTTAAAGTA
1 CAGCACTAAGTGTGCGGGTTTAAAGTA
82690030 CATGGCACTAAGTGTGCGCGGTT
1 CA--GCACTAAGTGTGCG-GGTT
82690053 GATTATTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
27 5 0.11
29 37 0.82
30 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
CAGCACTAAGTGTGCGGGTTTAAAGTA
Found at i:82690320 original size:173 final size:174
Alignment explanation
Indices: 82690005--82690331 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
82689995 AAATTGTACA
* *
82690005 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
82690070 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
82690135 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
82690179 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
82690244 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
82690308 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
82690332 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:82707833 original size:29 final size:29
Alignment explanation
Indices: 82707799--82707857 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
82707789 GCCATAAGAT
82707799 TTTGCCCAAATTAAAACCTTTTATTAACA
1 TTTGCCCAAATTAAAACCTTTTATTAACA
82707828 TTTGCCCAAATTAAAACCTTTTATTAACA
1 TTTGCCCAAATTAAAACCTTTTATTAACA
82707857 T
1 T
82707858 ACATATCGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTGCCCAAATTAAAACCTTTTATTAACA
Found at i:82709282 original size:39 final size:39
Alignment explanation
Indices: 82709228--82709535 Score: 503
Period size: 39 Copynumber: 7.9 Consensus size: 39
82709218 AAGACACTGA
*
82709228 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
82709267 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* ** *
82709306 AAATATATTTGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
82709345 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
82709384 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
82709423 AAATGTATCCCGGCCAAAGTCCCGCAGGCTTCGT--TGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
82709460 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
82709499 AAATGTATCCGGGCCAAAGTCCCGTAGGCTTTGTGCT
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCT
82709536 AATAATATAA
Statistics
Matches: 252, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
37 36 0.14
39 216 0.86
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:82715580 original size:40 final size:41
Alignment explanation
Indices: 82715383--82715573 Score: 182
Period size: 39 Copynumber: 4.8 Consensus size: 41
82715373 TCGAATGATG
* * * *
82715383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTATAA
* * * * *
82715423 TCTGGACTAAGAT-CCGAAGACATTTGTGCGAGTTACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTATAA
*
82715463 TCCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
* *
82715502 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
* *
82715542 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
82715574 AGCTATATCT
Statistics
Matches: 124, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 65 0.52
40 51 0.41
41 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
Found at i:82723474 original size:39 final size:40
Alignment explanation
Indices: 82723377--82723596 Score: 263
Period size: 39 Copynumber: 5.5 Consensus size: 40
82723367 ATGATGTCCA
* * *
82723377 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCG
*
82723417 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
*
82723457 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* *
82723496 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* * *
82723535 GGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
82723575 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
82723597 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 15, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 75 0.47
40 74 0.47
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:82723523 original size:78 final size:80
Alignment explanation
Indices: 82723377--82723594 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 80
82723367 ATGATGTCCA
* * * * * * * *
82723377 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGT
1 GGCTAAGTCCCAAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTGGT
*
82723440 GCGAGTTACTAATTCCG
64 GCGAGTTACTAAATCCG
* *
82723457 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTG
1 GGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGTG
82723519 CGAGTTACTAAATCCG
65 CGAGTTACTAAATCCG
* * *
82723535 GGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
82723595 TGAACGAGTA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
78 36 0.30
79 58 0.48
80 26 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTAAATCCG
Found at i:82723610 original size:40 final size:41
Alignment explanation
Indices: 82723377--82723596 Score: 260
Period size: 40 Copynumber: 5.5 Consensus size: 41
82723367 ATGATGTCCA
* * *
82723377 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCCG
* *
82723417 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
* *
82723457 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
82723496 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
* *
82723535 GGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
82723575 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
82723597 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 14, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 74 0.46
40 76 0.47
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
Found at i:82726642 original size:47 final size:47
Alignment explanation
Indices: 82726591--82727083 Score: 590
Period size: 47 Copynumber: 10.1 Consensus size: 47
82726581 TTAGGATTTT
* * *
82726591 ATGTGATGGATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
82726638 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
82726689 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
82726736 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
82726783 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
82726834 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
82726881 ATGTGATGAATGTGAACCTGTATTTATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---A--TGCATATGTGTGATAAGGCCGAATGGCCA
** *
82726934 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
82726987 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
82727034 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
82727081 ATG
1 ATG
82727084 CGAAACGTGT
Statistics
Matches: 396, Mismatches: 34, Indels: 32
0.86 0.07 0.07
Matches are distributed among these distances:
47 214 0.54
48 1 0.00
49 4 0.01
51 85 0.21
52 1 0.00
53 88 0.22
55 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:82726696 original size:98 final size:96
Alignment explanation
Indices: 82726591--82727083 Score: 595
Period size: 98 Copynumber: 5.0 Consensus size: 96
82726581 TTAGGATTTT
* *
82726591 ATGTGATGGATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
82726656 CGTATATATATGTGTGATAAGGCCGAATGGCCA
65 CG-ATATATATGTGTGATAAGGCCGAATGGCCA
* *
82726689 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
***
82726753 -ATGCGTATGTGTGATAAGGCCGAATGGCCA
66 GATATATATGTGTGATAAGGCCGAATGGCCA
*** *
82726783 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
***
82726848 AA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACCGATATATATGTGTGATAAGGCCGAATGGCCA
*** *
82726881 ATGTGATGAATGTGAACCTGTATTTATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C---A--TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
82726946 TGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
60 TGAACC-G---ATATATATGTGTGATAAGGCCGAATGGCCA
82726987 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC-
* *
82727052 TGA-ATATATGTG-G-TAAGGCCGAATGGCTA
65 CGATATATATGTGTGATAAGGCCGAATGGCCA
82727081 ATG
1 ATG
82727084 CGAAACGTGT
Statistics
Matches: 355, Mismatches: 26, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
94 61 0.17
95 1 0.00
96 10 0.03
97 3 0.01
98 149 0.42
100 86 0.24
101 1 0.00
102 1 0.00
105 1 0.00
106 42 0.12
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (96 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
GATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:82726708 original size:145 final size:144
Alignment explanation
Indices: 82726592--82727083 Score: 732
Period size: 145 Copynumber: 3.3 Consensus size: 144
82726582 TAGGATTTTA
*
82726592 TGTGATGGATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
82726657 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
66 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
82726722 AGGCCGAATGGCCAC
131 AGG-CGAATGGCCAC
82726737 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
*
82726802 GTATATATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
66 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
*
82726867 AGGCCGAATGGCCAA
131 AGG-CGAATGGCCAC
* *** *
82726882 TGTGATGAATGTGAACCTGTATTTATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 TGTGATGGATGTGAA-C---A--TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
82726947 GAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTAT
60 GAACCCG--TATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTAT
*
82727012 GTGTGATAAGGCCGAATGGCCAA
123 GTGTGATAAGG-CGAATGGCCAC
* ** * * *
82727035 TGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
82727084 CGAAACGTGT
Statistics
Matches: 322, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
145 156 0.48
146 1 0.00
147 26 0.08
149 2 0.01
151 44 0.14
152 1 0.00
153 92 0.29
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (144 bp):
TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCGAATGGCCAC
Found at i:82726838 original size:24 final size:24
Alignment explanation
Indices: 82726810--82726885 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
82726800 CCGTATATAT
82726810 ATGTGTGATAAGGCTGAATGGCCA
1 ATGTGTGATAAGGCTGAATGGCCA
* **
82726834 A--TGTGATGAATG-TGAACAT-GCGT
1 ATGTGTGAT-AAGGCTG-A-ATGGCCA
*
82726857 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCTGAATGGCCA
82726881 ATGTG
1 ATGTG
82726886 ATGAATGTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 8 0.21
23 9 0.24
24 14 0.37
25 7 0.18
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.26
Consensus pattern (24 bp):
ATGTGTGATAAGGCTGAATGGCCA
Found at i:82727146 original size:46 final size:46
Alignment explanation
Indices: 82727057--82727147 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
82727047 GAACATGAAT
* * * * *
82727057 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGAACGAGATGG
* * *
82727103 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGAACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGAACGAGATG
82727148 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGAACGAGATGG
Found at i:82727474 original size:37 final size:37
Alignment explanation
Indices: 82727292--82727473 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
82727282 GGAAATATAT
82727292 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
82727329 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
82727366 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
82727403 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
82727440 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
82727474 TCGTCTGAGC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:82728784 original size:40 final size:40
Alignment explanation
Indices: 82728729--82728880 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
82728719 GAGAATTGAG
82728729 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
82728769 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** * *
82728809 AGTGATATATCCGTGCTAAACCCCAAAGAGAATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
82728849 GGTGTTCTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
82728881 ATCATGCTGG
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:82730119 original size:18 final size:18
Alignment explanation
Indices: 82730077--82730119 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
82730067 GCCCATTCCG
* *
82730077 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
82730095 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
82730113 AAGTATG
1 AAGTATG
82730120 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:82730645 original size:28 final size:28
Alignment explanation
Indices: 82730564--82730741 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
82730554 GAGATTGGCG
* * * * *
82730564 CTAAGTGTGCGGGTTTAAATTGTGCAGCG
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
82730593 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
82730620 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
82730648 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
82730676 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
82730704 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
82730731 CTAAGTGTGCG
1 CTAAGTGTGCG
82730742 GACTTATTAT
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 44 0.32
28 81 0.60
29 11 0.08
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:82732713 original size:37 final size:37
Alignment explanation
Indices: 82732512--82732712 Score: 339
Period size: 37 Copynumber: 5.4 Consensus size: 37
82732502 TTAACCGAGC
82732512 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
1 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
* *
82732549 ACTACGTATGGAGATTATGTCTGGGTAAGACCCGATG
1 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
*
82732586 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATC
1 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
82732623 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
1 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
* *
82732660 ACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATA
1 ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
* *
82732697 ACTTCATGTGGAGATT
1 ACTACGTGTGGAGATT
82732713 TCGTCTGAGC
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 154 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
ACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
Found at i:82734144 original size:40 final size:40
Alignment explanation
Indices: 82733981--82734132 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
82733971 GAGAATTGAG
82733981 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
82734021 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
82734061 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
82734101 GGTGTTCTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
82734133 ATCATGCTGG
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:82737165 original size:47 final size:47
Alignment explanation
Indices: 82737114--82737647 Score: 717
Period size: 47 Copynumber: 11.1 Consensus size: 47
82737104 TTAGGATTTT
*
82737114 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
82737161 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
82737212 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
82737259 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
82737306 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
82737357 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
82737404 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
82737457 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
82737504 ACGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
82737551 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * * *
82737598 ATGTGATGAATGTGAACATTAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
82737645 ATG
1 ATG
82737648 CGAAACGTGT
Statistics
Matches: 434, Mismatches: 39, Indels: 28
0.87 0.08 0.06
Matches are distributed among these distances:
47 300 0.69
48 1 0.00
49 4 0.01
51 86 0.20
52 1 0.00
53 42 0.10
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:82737264 original size:145 final size:144
Alignment explanation
Indices: 82737114--82737647 Score: 783
Period size: 145 Copynumber: 3.7 Consensus size: 144
82737104 TTAGGATTTT
* *
82737114 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
82737179 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
65 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
82737244 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
* * *
82737259 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
82737324 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
65 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
82737389 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
** *
82737404 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
*** * *
82737469 TGAA-C--ATGCGTATGTGTGATAAGGCTGAATGGCCAACGTGATGAATGTGAACATGCGTATGT
60 TGAACCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
*
82737531 GTGATAAGGTCGAATGGCCA
125 GTGATAAGGCCGAATGGCCA
* * *
82737551 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
82737616 TTA-ATATATGTG-G-TAAGGCCGAATGGCTAATG
66 GTATATATATGTGTGATAAGGCCGAATGGCCAATG
82737648 CGAAACGTGT
Statistics
Matches: 355, Mismatches: 25, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
141 57 0.16
142 1 0.00
143 6 0.02
144 1 0.00
145 158 0.45
146 2 0.01
147 87 0.25
149 1 0.00
151 42 0.12
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:82737361 original size:24 final size:24
Alignment explanation
Indices: 82737333--82737408 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
82737323 CCGTATATAT
82737333 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
82737357 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
82737380 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
82737404 ATGTG
1 ATGTG
82737409 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:82737534 original size:25 final size:25
Alignment explanation
Indices: 82737458--82737535 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
82737448 GAATGGCCAA
82737458 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * *
82737483 TGTGAT-AAGGCTG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
*
82737505 CGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
82737530 TGTGAT
1 TGTGAT
82737536 AAGGTCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:82737710 original size:46 final size:46
Alignment explanation
Indices: 82737621--82737711 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
82737611 GAACATTAAT
* * * *
82737621 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
82737667 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
82737712 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:82738001 original size:37 final size:37
Alignment explanation
Indices: 82737856--82738000 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
82737846 GGAAATATAT
82737856 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
82737893 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
82737930 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
82737967 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
82738001 TCGTCTAAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:82742015 original size:11 final size:11
Alignment explanation
Indices: 82741979--82742034 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
82741969 CATGGTATGT
82741979 ATGATATGCAC
1 ATGATATGCAC
* *
82741990 ATGACATG--T
1 ATGATATGCAC
82741999 ATGATATGCAC
1 ATGATATGCAC
*
82742010 ATGATATG--T
1 ATGATATGCAC
82742019 ATGATATGCAC
1 ATGATATGCAC
82742030 ATGAT
1 ATGAT
82742035 GTAATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:82742034 original size:20 final size:20
Alignment explanation
Indices: 82741968--82742034 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
82741958 AATTTGATAA
*
82741968 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
82741988 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
82742008 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
82742028 ACATGAT
1 ACATGAT
82742035 GTAATCACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:82742157 original size:45 final size:46
Alignment explanation
Indices: 82742083--82742202 Score: 188
Period size: 45 Copynumber: 2.6 Consensus size: 46
82742073 GGAGGAAGTG
*
82742083 TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTCTGCCCCAGTTAT
1 TAAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
82742130 T-AAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
82742175 TAAAAGGGCTTTTACCCCAGTTATTAAA
1 TAAAAGGGCTTAT-GCCCAGTTATTAAA
82742203 AGAGGATAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
45 32 0.47
46 22 0.32
47 14 0.21
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (46 bp):
TAAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:82742204 original size:24 final size:23
Alignment explanation
Indices: 82742085--82742202 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
82742075 AGGAAGTGTA
82742085 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
82742108 AAAGGGCTTCTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
82742131 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
82742153 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
82742176 AAAAGGGCTTTTACCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
82742200 AAA
1 AAA
82742203 AGAGGATAGG
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
22 22 0.25
23 46 0.52
24 21 0.24
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:82742451 original size:31 final size:31
Alignment explanation
Indices: 82742416--82742479 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
82742406 TGTTTACAGT
82742416 AAAGGCTTCGACCCAATAATATGAAATATGA
1 AAAGGCTTCGACCCAATAATATGAAATATGA
* * **
82742447 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAATAATATGAAATATGA
82742478 AA
1 AA
82742480 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAATAATATGAAATATGA
Found at i:82744960 original size:29 final size:31
Alignment explanation
Indices: 82744911--82744969 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
82744901 AATATGTATC
* *
82744911 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
82744940 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
82744970 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:82755315 original size:44 final size:45
Alignment explanation
Indices: 82755227--82755334 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 45
82755217 AAAACAGAAA
*
82755227 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTCAGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCTTCAGAGACAGGAG
* *
82755273 TGAGCCATGTAAGTCCATATT-ATATATGGCATT-GGAGACAGGAG
1 TGAGCCATGTAAGTCCATATTAAAATATGGC-TTCAGAGACAGGAG
* **
82755317 TAATTCATGTAAGTCCAT
1 TGAGCCATGTAAGTCCAT
82755335 GTCAAAGACA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 32 0.58
45 2 0.04
46 21 0.38
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCTTCAGAGACAGGAG
Found at i:82759102 original size:41 final size:40
Alignment explanation
Indices: 82759030--82759186 Score: 122
Period size: 41 Copynumber: 3.8 Consensus size: 40
82759020 GTGATATTAG
* * * *
82759030 GGCTTTAAGCCTAGCAAGCATTGTGCTGGTGAATGTAATCG
1 GGCTTTAAGCCTAGCAGGC-TTTTGCCGGTGAATGTAATCA
* *
82759071 GGCTTTATGCCTAGCAGGCTTATTGCCGGTGAATATAAAATCA
1 GGCTTTAAGCCTAGCAGGCTT-TTGCCGGTGAATGT--AATCA
* * **
82759114 GACTTTAAGTCTAGCAGGCCTTGAGCCGGTG--TGTAATTCA
1 GGCTTTAAGCCTAGCAGG-CTTTTGCCGGTGAATGTAA-TCA
* *
82759154 GGC-TTATGCCTAGCAGGCTTTATGCTGGTGAAT
1 GGCTTTAAGCCTAGCAGGCTTT-TGCCGGTGAAT
82759187 TATTAAAAGT
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
38 3 0.03
39 20 0.22
40 7 0.08
41 31 0.34
43 26 0.29
44 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
GGCTTTAAGCCTAGCAGGCTTTTGCCGGTGAATGTAATCA
Found at i:82762466 original size:42 final size:43
Alignment explanation
Indices: 82762407--82762497 Score: 139
Period size: 42 Copynumber: 2.1 Consensus size: 43
82762397 TAGGGTTAGT
*
82762407 TGAGATTACGTGTAAGACCATATCTGGGATA-TGACATTGATA
1 TGAGATTACGTGTAAGACCATAACTGGGATATTGACATTGATA
* * *
82762449 TGAGATTTCGTGTAAGACCATAACTGGGCTATTGGCATTGATA
1 TGAGATTACGTGTAAGACCATAACTGGGATATTGACATTGATA
82762492 TGAGAT
1 TGAGAT
82762498 CCCATGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 28 0.64
43 16 0.36
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (43 bp):
TGAGATTACGTGTAAGACCATAACTGGGATATTGACATTGATA
Found at i:82762506 original size:43 final size:42
Alignment explanation
Indices: 82762417--82762506 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 42
82762407 TGAGATTACG
* ** *
82762417 TGTAAGACCATATCTGGGATATGACATTGATATGAGATTTCG
1 TGTAAGACCATAACTGGGATATGACATTGATATGAGATCCCA
* *
82762459 TGTAAGACCATAACTGGGCTATTGGCATTGATATGAGATCCCA
1 TGTAAGACCATAACTGGGATA-TGACATTGATATGAGATCCCA
82762502 TGTAA
1 TGTAA
82762507 TTGGTATAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 19 0.46
43 22 0.54
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATAACTGGGATATGACATTGATATGAGATCCCA
Found at i:82762618 original size:20 final size:20
Alignment explanation
Indices: 82762590--82762636 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
82762580 CGGCAATGTT
82762590 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
82762610 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
82762630 TAAGTTG
1 TAAGTTG
82762637 CAAGTTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:82764935 original size:42 final size:42
Alignment explanation
Indices: 82764869--82765000 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
82764859 ATGGCATCGA
82764869 CATCAAAATGAG--TTATAATGTAAGACCATATTTGGGATATGG
1 CATCAAAATGAGAATT-T-ATGTAAGACCATATTTGGGATATGG
** * * ** *
82764911 CATTGATATGAGATTTTATGTAAGACCACGTCTT-GGACATGG
1 CATCAAAATGAGAATTTATGTAAGACCATAT-TTGGGATATGG
* * * * *
82764953 CGTCAAAATGAGAATTTGTATAAGACCATATTTGGGATACGT
1 CATCAAAATGAGAATTTATGTAAGACCATATTTGGGATATGG
82764995 CATCAA
1 CATCAA
82765001 TGTGGGATCC
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
41 2 0.03
42 60 0.90
43 3 0.04
44 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (42 bp):
CATCAAAATGAGAATTTATGTAAGACCATATTTGGGATATGG
Found at i:82776150 original size:12 final size:12
Alignment explanation
Indices: 82776133--82776158 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
82776123 TTATTCAGGG
82776133 ATTTTTCTAATA
1 ATTTTTCTAATA
82776145 ATTTTTCTAATA
1 ATTTTTCTAATA
82776157 AT
1 AT
82776159 AAAATAAATA
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:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTTCTAATA
Found at i:82776630 original size:8 final size:8
Alignment explanation
Indices: 82776608--82776640 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
82776598 AAGTAGTTTG
82776608 AATAAAA-
1 AATAAAAT
*
82776615 ATTAAAAT
1 AATAAAAT
82776623 AATAAAAT
1 AATAAAAT
82776631 AATAAAAT
1 AATAAAAT
82776639 AA
1 AA
82776641 ATATTTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:82776638 original size:16 final size:15
Alignment explanation
Indices: 82776579--82776640 Score: 52
Period size: 16 Copynumber: 4.0 Consensus size: 15
82776569 TTAAATCTGC
*
82776579 TAAAAAATAAAAAAA
1 TAAAAAATAAAATAA
* ***
82776594 TAAAAAGTAGTTTGAA
1 TAAAAAATAAAAT-AA
*
82776610 TAAAAATTAAAATAA
1 TAAAAAATAAAATAA
82776625 TAAAATAATAAAATAA
1 TAAAA-AATAAAATAA
82776641 ATATTTCTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
15 15 0.43
16 20 0.57
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
TAAAAAATAAAATAA
Found at i:82787439 original size:17 final size:17
Alignment explanation
Indices: 82787394--82787442 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
82787384 TATAAGGGAT
82787394 AAATAGATTGAAT-T-TG
1 AAAT-GATTGAATGTATG
*
82787410 -AATGA-TGATTGTATG
1 AAATGATTGAATGTATG
82787425 AAATGATTGAATGTATG
1 AAATGATTGAATGTATG
82787442 A
1 A
82787443 GAATAGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.15
14 3 0.11
15 5 0.19
16 5 0.19
17 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (17 bp):
AAATGATTGAATGTATG
Found at i:82792822 original size:27 final size:26
Alignment explanation
Indices: 82792791--82792940 Score: 149
Period size: 27 Copynumber: 5.6 Consensus size: 26
82792781 TAAATTGTAC
82792791 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
82792818 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
82792844 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
82792872 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
82792899 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
82792926 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82792941 GACTCGATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:82792852 original size:54 final size:53
Alignment explanation
Indices: 82792791--82792940 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 53
82792781 TAAATTGTAC
*
82792791 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* ** ** *
82792844 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGATTTGATTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* * *
82792899 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
82792941 GACTCGATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 75 0.93
55 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
Found at i:82792931 original size:81 final size:81
Alignment explanation
Indices: 82792792--82792940 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
82792782 AAATTGTACA
*
82792792 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
82792857 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** * *
82792873 GCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
82792937 TGCG
65 TGCG
82792941 GACTCGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82800971 original size:27 final size:26
Alignment explanation
Indices: 82800940--82801089 Score: 149
Period size: 27 Copynumber: 5.6 Consensus size: 26
82800930 TAAATTGTAC
82800940 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
82800967 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
82800993 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
82801021 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
82801048 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
82801075 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82801090 GACTCGATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:82801001 original size:54 final size:53
Alignment explanation
Indices: 82800940--82801089 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 53
82800930 TAAATTGTAC
*
82800940 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* ** ** *
82800993 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGATTTGATTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* * *
82801048 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
82801090 GACTCGATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 75 0.93
55 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
Found at i:82801080 original size:81 final size:81
Alignment explanation
Indices: 82800941--82801089 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
82800931 AAATTGTACA
*
82800941 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
82801006 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** * *
82801022 GCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
82801086 TGCG
65 TGCG
82801090 GACTCGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82806641 original size:40 final size:40
Alignment explanation
Indices: 82806575--82806797 Score: 243
Period size: 40 Copynumber: 5.6 Consensus size: 40
82806565 AATTATTGTA
* * * *
82806575 TGAACGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* **
82806615 TGAATGTACATACGTGCCCCTATTTGTACTTTTGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* * * ** * *
82806655 TGAATGCACATGCGTGCCCTTGTTTACACTTCGGTACCCT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* * *
82806695 TGAATACACATATGTGCCCCTATTTG-AATTCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* * *
82806734 TAAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
*
82806774 TGAATGCACAAACGTG-CCCTATTT
1 TGAATGCACATACGTGCCCCTATTT
82806798 AAACTCCGAT
Statistics
Matches: 148, Mismatches: 34, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 38 0.26
40 110 0.74
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
Found at i:82806713 original size:80 final size:79
Alignment explanation
Indices: 82806575--82806797 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 79
82806565 AATTATTGTA
* *
82806575 TGAACGCACATACGTGCCCATGTTTGTACTTCGGTACCCCTGAATGTACATACGTGCCCCTATTT
1 TGAATGCACATACGTGCCCATGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTATTT
* **
82806640 GTACTTTTGTACCCC
66 G-AATTCAGTACCCC
* * ** * * *
82806655 TGAATGCACATGCGTGCCCTTGTTTACACTTCGGTACCCTTGAATACACATATGTGCCCCTATTT
1 TGAATGCACATACGTGCCCATGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTATTT
82806720 GAATTCAGTACCCC
66 GAATTCAGTACCCC
* * * * *
82806734 TAAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACAAACGTG-CCCTATTT
1 TGAATGCACATACGTGCCCATGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTATTT
82806798 AAACTCCGAT
Statistics
Matches: 120, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
78 8 0.07
79 55 0.46
80 57 0.47
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (79 bp):
TGAATGCACATACGTGCCCATGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTATTT
GAATTCAGTACCCC
Found at i:82808009 original size:24 final size:24
Alignment explanation
Indices: 82807980--82808031 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
82807970 CAGAACAAAT
* **
82807980 AAATAAAAATTTAAAAACTATTAA
1 AAATAAAAAATTAAAAAAAATTAA
82808004 AAATAAAAAATTAAAAAAAATTAA
1 AAATAAAAAATTAAAAAAAATTAA
82808028 AAAT
1 AAAT
82808032 TTCGTATGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AAATAAAAAATTAAAAAAAATTAA
Found at i:82811735 original size:24 final size:21
Alignment explanation
Indices: 82811688--82811735 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
82811678 ACACGGCCTG
*
82811688 ACCACACGGGCGTATCCCTAC
1 ACCACACGGGCGTAGCCCTAC
82811709 ACCACACGGGCGTGTGAGCCCTAC
1 ACCACACGGGC--GT-AGCCCTAC
82811733 ACC
1 ACC
82811736 TTGGAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
23 2 0.09
24 10 0.43
ACGTcount: A:0.23, C:0.42, G:0.23, T:0.12
Consensus pattern (21 bp):
ACCACACGGGCGTAGCCCTAC
Found at i:82823830 original size:48 final size:48
Alignment explanation
Indices: 82823761--82823986 Score: 184
Period size: 48 Copynumber: 4.8 Consensus size: 48
82823751 ACCAAAAGTA
*
82823761 ATGATAGCCT-GTGTAAGACCATATCTGGGACATGGCATCGGGGTTGAT
1 ATGATAG-CTAGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGAT
* * * *
82823809 ATGATAGCTAGTGTAAAACCATGTCTGGGACATGGTATCGGCTTTGAT
1 ATGATAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGAT
* * * * * *
82823857 ATG-TGTGCTAGTGTAAGACTATATCTGGGATATGGCATCGGCATCGGT
1 ATGAT-AGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGAT
**
82823905 ATG-TGATTTCA-TGTAAGACCATATCTGGG--AT---AT-GGCGTTGAT
1 ATGAT-AGCT-AGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGAT
* ** * *
82823947 ATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGATAGCTAGTGTAAGACCATATCTGGGACATGGCATCG
82823987 ATGTGAGGTC
Statistics
Matches: 143, Mismatches: 24, Indels: 22
0.76 0.13 0.12
Matches are distributed among these distances:
42 30 0.21
43 2 0.01
44 2 0.01
46 2 0.01
47 5 0.03
48 101 0.71
49 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (48 bp):
ATGATAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGAT
Found at i:82823968 original size:42 final size:42
Alignment explanation
Indices: 82823896--82824114 Score: 188
Period size: 42 Copynumber: 5.1 Consensus size: 42
82823886 ATATGGCATC
* * * *
82823896 GGCATCGGTATGTGATTTCATGTAAGACCATATCTGGGATAT
1 GGCATCGATATGAGATTTCATGTAAGACCATGTCTGGGACAT
* * *
82823938 GGCGTTGATATGAGATTTCGTGTAAGACCATGTCTGGGACAT
1 GGCATCGATATGAGATTTCATGTAAGACCATGTCTGGGACAT
* * *
82823980 GGCATCGATGTGAGGTCTCATGTAAGACCATGTCTGGGACATGGAAT
1 GGCATCGATATGAGATTTCATGTAAGACCATGTCTGGGAC-----AT
* * ** * * * *
82824027 CGGCACCGACATGAGATTTTGTATAAGACCATATCTAGGATAT
1 -GGCATCGATATGAGATTTCATGTAAGACCATGTCTGGGACAT
**
82824070 GGCATCGATATGTAGA-CCCATGTAAGACCATGTCTGGGACAT
1 GGCATCGATATG-AGATTTCATGTAAGACCATGTCTGGGACAT
82824112 GGC
1 GGC
82824115 TTTGGCATCC
Statistics
Matches: 136, Mismatches: 34, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 100 0.74
43 5 0.04
47 2 0.01
48 29 0.21
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (42 bp):
GGCATCGATATGAGATTTCATGTAAGACCATGTCTGGGACAT
Found at i:82824041 original size:90 final size:90
Alignment explanation
Indices: 82823947--82824113 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 90
82823937 TGGCGTTGAT
* * * * * *
82823947 ATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGATGTG-AGGTCTCATGTAAGACCAT
1 ATGAGATTTCGTATAAGACCATATCTAGGACATGGCATCGATATGTA-GACCCATGTAAGACCAT
82824011 GTCTGGGACATGGAATCGGCACCGAC
65 GTCTGGGACATGGAATCGGCACCGAC
* *
82824037 ATGAGATTTTGTATAAGACCATATCTAGGATATGGCATCGATATGTAGACCCATGTAAGACCATG
1 ATGAGATTTCGTATAAGACCATATCTAGGACATGGCATCGATATGTAGACCCATGTAAGACCATG
82824102 TCTGGGACATGG
66 TCTGGGACATGG
82824114 CTTTGGCATC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 67 0.99
91 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (90 bp):
ATGAGATTTCGTATAAGACCATATCTAGGACATGGCATCGATATGTAGACCCATGTAAGACCATG
TCTGGGACATGGAATCGGCACCGAC
Done.