Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 261 of 290
Found at i:90122871 original size:50 final size:50
Alignment explanation
Indices: 90122812--90122948 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
90122802 ATATGAGATC
* * * *
90122812 CCATGTAAGACCATGTTTGGGACATGGAATTGGCATCGATGTGTGTGATT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
*
90122862 CCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATATGTGTGAAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
* *
90122912 CCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
90122949 TTACTATGTG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
Found at i:90126886 original size:20 final size:20
Alignment explanation
Indices: 90126857--90126901 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
90126847 AGCACATGTA
*
90126857 TTCATAAAATTTCATAATTT
1 TTCATAAAATTTCACAATTT
* *
90126877 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTCACAATTT
90126897 TTCAT
1 TTCAT
90126902 TTGAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTCACAATTT
Found at i:90129918 original size:40 final size:40
Alignment explanation
Indices: 90129869--90130152 Score: 405
Period size: 40 Copynumber: 7.1 Consensus size: 40
90129859 CGGAATTTAA
** * *
90129869 CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90129909 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90129949 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90129988 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
90130028 CCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90130068 CCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90130108 CCGGATATAGTAACTCCCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
90130148 CCGGA
1 CCGGA
90130153 CATCATTCGA
Statistics
Matches: 219, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.15
40 180 0.82
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90133525 original size:21 final size:20
Alignment explanation
Indices: 90133499--90133551 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
90133489 TTTTGTGCCT
90133499 CTAAACCCTAGACCCCTAACC
1 CTAAACCCTA-ACCCCTAACC
*
90133520 CTAAACCCTAAGCCCTAAGCC
1 CTAAACCCTAACCCCTAA-CC
* *
90133541 ATGAACCCTAA
1 CTAAACCCTAA
90133552 AAAACTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.42, G:0.08, T:0.15
Consensus pattern (20 bp):
CTAAACCCTAACCCCTAACC
Found at i:90134175 original size:5 final size:6
Alignment explanation
Indices: 90134158--90134183 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
90134148 GGAGAATATT
90134158 AGAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA AGAAAA AG
90134184 GGAGAATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:90134200 original size:35 final size:36
Alignment explanation
Indices: 90134122--90134203 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
90134112 GAAAGAATGA
* *
90134122 AGGAAAACAAAAAAAAAAAGAAAGAAGGAGAATATT
1 AGGAAAAGAAAAAAAAAAAGAAAGAAGGAGAATATG
* *
90134158 AGAAAAAGAAAAAGAAAAAGAAA-AAGGGAGAATA-G
1 AGGAAAAGAAAAAAAAAAAGAAAGAA-GGAGAATATG
*
90134193 GGGAAAAGAAA
1 AGGAAAAGAAA
90134204 CGTGAGAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
35 11 0.28
36 28 0.72
ACGTcount: A:0.70, C:0.01, G:0.24, T:0.05
Consensus pattern (36 bp):
AGGAAAAGAAAAAAAAAAAGAAAGAAGGAGAATATG
Found at i:90134539 original size:47 final size:47
Alignment explanation
Indices: 90134467--90134560 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
90134457 CTTAAATAGA
* * * *
90134467 GTTACATACAATGTCTTTACTTGATTTAGACCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
* *
90134514 GTTACATATAATATCTCTACCTGATTCAGCCCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
90134561 ATACATTAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
Found at i:90135800 original size:24 final size:23
Alignment explanation
Indices: 90135750--90135809 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
90135740 ATTTGTCATG
* * *
90135750 TTCTTTTTATTTTTTTCCCTTTC
1 TTCTTATTCTTTTCTTCCCTTTC
*
90135773 TTCTCTA-TCTTTTCTTCCTCTTTT
1 TTCT-TATTCTTTTCTTCC-CTTTC
90135797 TTCTTATTCTTTT
1 TTCTTATTCTTTT
90135810 TTAATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (23 bp):
TTCTTATTCTTTTCTTCCCTTTC
Found at i:90136192 original size:5 final size:5
Alignment explanation
Indices: 90136182--90136213 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
90136172 TTGTGTGTTC
90136182 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90136214 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:90136196 original size:9 final size:9
Alignment explanation
Indices: 90136182--90136212 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
90136172 TTGTGTGTTC
90136182 TTTATTTTA
1 TTTATTTTA
90136191 TTTATTTTA
1 TTTATTTTA
90136200 TTTTATTTTA
1 -TTTATTTTA
90136210 TTT
1 TTT
90136213 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:90140643 original size:5 final size:5
Alignment explanation
Indices: 90140633--90140664 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
90140623 TTGTGTGTTC
90140633 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90140665 TCACAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:90140647 original size:9 final size:9
Alignment explanation
Indices: 90140633--90140663 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
90140623 TTGTGTGTTC
90140633 TTTATTTTA
1 TTTATTTTA
90140642 TTTATTTTA
1 TTTATTTTA
90140651 TTTTATTTTA
1 -TTTATTTTA
90140661 TTT
1 TTT
90140664 TTCACAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:90153480 original size:34 final size:35
Alignment explanation
Indices: 90153442--90153518 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
90153432 TTCTTTTTCT
*
90153442 AATTTTCCATGGATGATTCACC-AAATATCAACTA
1 AATTTTCCATGGATAATTCACCAAAATATCAACTA
*
90153476 AATTTTCCATGGGTAATTCACCAAAAATATCAACTA
1 AATTTTCCATGGATAATTCACC-AAAATATCAACTA
90153512 AATTTTC
1 AATTTTC
90153519 TTAATGGCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 20 0.51
36 19 0.49
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (35 bp):
AATTTTCCATGGATAATTCACCAAAATATCAACTA
Found at i:90188486 original size:42 final size:42
Alignment explanation
Indices: 90188348--90188495 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
90188338 GTTCCAAACG
** * *
90188348 TGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAA
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
* * * * * * **
90188390 TGGTCTTATACGAATTCTCATTTCAACGCCATGTCCCAGACG
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
* *
90188432 TGGTCTTACATGAAATCTCATATCAACGCCATATCCTAGATA
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
90188474 TGGTCTTACATGATAA-CTCATA
1 TGGTCTTACATGA-AATCTCATA
90188496 CTGATGCTGA
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 83 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
TGGTCTTACATGAAATCTCATATCAACGCCATATCCAAGAAA
Found at i:90188494 original size:84 final size:84
Alignment explanation
Indices: 90188329--90188483 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
90188319 AATAAAATGC
* ** *
90188329 CAACGCCATGTTCCAAACGTGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAATGGT
1 CAACGCCATGTCCCAAACGTGGTCTTACATGAAATCTCACATCAACGCCATATCCAAGAAATGGT
* *
90188394 CTTATACGAATTCTCATTT
66 CTTACACGAATACTCATTT
* * * *
90188413 CAACGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATATCAACGCCATATCCTAGATATGGT
1 CAACGCCATGTCCCAAACGTGGTCTTACATGAAATCTCACATCAACGCCATATCCAAGAAATGGT
90188478 CTTACA
66 CTTACA
90188484 TGATAACTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (84 bp):
CAACGCCATGTCCCAAACGTGGTCTTACATGAAATCTCACATCAACGCCATATCCAAGAAATGGT
CTTACACGAATACTCATTT
Found at i:90192678 original size:46 final size:45
Alignment explanation
Indices: 90192610--90192704 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 45
90192600 GTAAGAATAA
* * *
90192610 CTGCATATGAATGTGATTTGTTCTGTATATGAAACTGAAATTGCTT
1 CTGCATATGAATCTGATCTGTTCTATATATG-AACTGAAATTGCTT
* *
90192656 CTGCATATGTAA-CTGATCTGTTCTATATCTGAACTGAAATTGTTT
1 CTGCATATG-AATCTGATCTGTTCTATATATGAACTGAAATTGCTT
90192701 CTGC
1 CTGC
90192705 TACCTAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 17 0.40
46 24 0.56
47 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (45 bp):
CTGCATATGAATCTGATCTGTTCTATATATGAACTGAAATTGCTT
Found at i:90197212 original size:26 final size:25
Alignment explanation
Indices: 90197183--90197282 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 25
90197173 TAAAATAAAG
*
90197183 TATAAATCAATTTTAAATAAATAATT
1 TATAAATCAA-TTAAAATAAATAATT
* * * *
90197209 TATAAAGCAATTTAGAGTAAATAATA
1 TATAAATCAA-TTAAAATAAATAATT
90197235 TATAAAAT-AATTTAAAAT-AATAA-T
1 TAT-AAATCAA-TTAAAATAAATAATT
*
90197259 AATAAA-CGAATTAAAATAAATAAT
1 TATAAATC-AATTAAAATAAATAAT
90197283 ACGGTAAAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
23 10 0.17
24 9 0.15
25 5 0.08
26 32 0.54
27 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (25 bp):
TATAAATCAATTAAAATAAATAATT
Found at i:90197270 original size:24 final size:25
Alignment explanation
Indices: 90197197--90197343 Score: 95
Period size: 27 Copynumber: 5.8 Consensus size: 25
90197187 AATCAATTTT
*
90197197 AAATAAATAATTTAT-AAAGCAATTTA
1 AAATAAATAATATATAAAAG-AA-TTA
* * *
90197223 GAGTAAATAATATATAAAATAATTTA
1 AAATAAATAATATATAAAAGAA-TTA
*
90197249 AAAT-AATAATA-ATAAACGAATTA
1 AAATAAATAATATATAAAAGAATTA
** *
90197272 AAATAAATAATACGGTAAAACAATTTA
1 AAATAAATAATA-TATAAAAGAA-TTA
* ** *
90197299 AAACAAATACCATATGAAAAAAACTTA
1 AAATAAATAATATAT-AAAAGAA-TTA
90197326 AAATAAATAATA-ATAAAA
1 AAATAAATAATATATAAAA
90197344 TTGTTCAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
23 7 0.07
24 14 0.15
25 11 0.12
26 29 0.31
27 33 0.35
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
AAATAAATAATATATAAAAGAATTA
Found at i:90197415 original size:50 final size:50
Alignment explanation
Indices: 90197361--90197497 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
90197351 AAATAAATAT
*
90197361 TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGCACA
1 TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGAACA
* * * * *
90197411 TATGAAAAGATCTAAAAT-AATAAAAT-AATCAAGTTTAAT-ATAAATAATA
1 TATG-AATGATTTATAATAAATAAAATAAAT-AAGTTTAATAATAAAGAACA
* *
90197460 TATGAGAT-ATTT-TAA-AAATAAAATAAATACGCTTAATA
1 TATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATA
90197498 CAAATAGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
47 17 0.24
48 7 0.10
49 15 0.21
50 21 0.30
51 10 0.14
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.32
Consensus pattern (50 bp):
TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGAACA
Found at i:90197483 original size:47 final size:47
Alignment explanation
Indices: 90197351--90197532 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 47
90197341 AAATTGTTCA
* *
90197351 AAATAAATATTATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATAAT
1 AAAT-AATA-TATGAGAT-ATTTA-AA-AAATAAAATAAATAAGCTTAAT-AC
** * * * * * *
90197403 AAAGCACATATGAAAAGATCTAAAATAATAAAAT-AATCAAGTTTAATAT
1 AAATAATATATG-AGATATTTAAAA-AATAAAATAAAT-AAGCTTAATAC
* *
90197452 AAATAATATATGAGATATTTTAAAAATAAAATAAATACGCTTAATAC
1 AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
* *
90197499 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAGATATTTAAAAAATAAAATAAA
90197533 ATATGTAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
46 7 0.07
47 40 0.37
48 11 0.10
49 15 0.14
50 23 0.21
51 7 0.07
52 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (47 bp):
AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
Found at i:90199136 original size:28 final size:28
Alignment explanation
Indices: 90199105--90199188 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
90199095 AACTGTGATC
90199105 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
90199133 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
90199155 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
90199183 ACGTGT
1 ACGTGT
90199189 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:90199228 original size:49 final size:49
Alignment explanation
Indices: 90199057--90199279 Score: 302
Period size: 49 Copynumber: 4.5 Consensus size: 49
90199047 TGAGGTCGCA
* * * *
90199057 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
90199108 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
90199158 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
90199207 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
90199256 TGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGTACTAAGTGCAGGCTAC
90199280 CATGCGTACC
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 75 0.49
50 45 0.29
51 34 0.22
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:90207866 original size:50 final size:50
Alignment explanation
Indices: 90207798--90207940 Score: 250
Period size: 50 Copynumber: 2.9 Consensus size: 50
90207788 ACATAGTAAG
* * *
90207798 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
*
90207848 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
90207898 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
90207941 CATAGCCTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
Found at i:90209101 original size:18 final size:18
Alignment explanation
Indices: 90209061--90209102 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
90209051 GAAATTATAC
90209061 ACATAG-CATATATTTGA
1 ACATAGTCATATATTTGA
* * *
90209078 AAATAGTCATGTATTTGT
1 ACATAGTCATATATTTGA
90209096 ACATAGT
1 ACATAGT
90209103 TCGGGTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
ACATAGTCATATATTTGA
Found at i:90216938 original size:16 final size:18
Alignment explanation
Indices: 90216917--90216949 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
90216907 CATACTAGCT
90216917 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
90216933 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
90216950 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:90217534 original size:41 final size:44
Alignment explanation
Indices: 90217480--90217693 Score: 197
Period size: 45 Copynumber: 4.9 Consensus size: 44
90217470 ATTCATCCAT
* *
90217480 CGACATT-TCGCCTGCTAGCT-GAA-GCCC-AATA-TCATTTCAC
1 CGACATTATAGCCTGCTAGCTCGAAGGCCCGAATAGT-ATATCAC
*
90217520 CGACATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATGAC
1 CGACATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTATATCAC
* * * * *
90217565 CGACATTATAGCCTGCTAGGCTCAAAAGCTCGAATGGTATCTCAC
1 CGACATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTATATCAC
* * ** *
90217610 C-AGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCCCGC
1 CGA-CATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTATATCAC
* *
90217655 CGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CGACATTATAGCCTGCTA-GCTCGAAGGCCCGAATAGTA
90217694 CCATACGATA
Statistics
Matches: 151, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
40 7 0.05
41 9 0.06
42 3 0.02
43 3 0.02
44 5 0.03
45 122 0.81
46 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
CGACATTATAGCCTGCTAGCTCGAAGGCCCGAATAGTATATCAC
Found at i:90217571 original size:45 final size:45
Alignment explanation
Indices: 90217518--90217693 Score: 239
Period size: 45 Copynumber: 3.9 Consensus size: 45
90217508 ATATCATTTC
* * *
90217518 ACCGACATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATG
1 ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTG
* * * * *
90217563 ACCGACATTATAGCCTGCTAGGCTCAAAAGCTCGAATGGTATCTC
1 ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTG
*
90217608 ACC-AGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCCCG
1 ACCGA-CATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT-CTG
90217654 -CCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
90217694 CCATACGATA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 113 0.97
46 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (45 bp):
ACCGACATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTG
Found at i:90233544 original size:27 final size:27
Alignment explanation
Indices: 90233492--90233593 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
90233482 GCTCTTCTTT
* * * *
90233492 AGAGTTCGTTATACCTACTGTTCCTTC
1 AGAGTTCGTCATACATACTATCCCTTC
90233519 AGAGTTCGTCATACATACTATCCCTTCC
1 AGAGTTCGTCATACATACTATCCCTT-C
* * * *
90233547 A-TGTT-TTCCACATATACTATCCCTTC
1 AGAGTTCGT-CATACATACTATCCCTTC
* *
90233573 AGAGTTCGTCAGAAATACTAT
1 AGAGTTCGTCATACATACTAT
90233594 TTCTTTCTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.05
27 53 0.90
28 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
AGAGTTCGTCATACATACTATCCCTTC
Found at i:90234035 original size:27 final size:27
Alignment explanation
Indices: 90233980--90234042 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
90233970 TGATCACCAA
* * *
90233980 AAAAGCTTCCATATTATATATTTCTAC
1 AAAAGCTTCCATATTATAAATTGCCAC
90234007 AAAAGCTTCCAT-TTCATAAATTGCCAC
1 AAAAGCTTCCATATT-ATAAATTGCCAC
*
90234034 AAAGGCTTC
1 AAAAGCTTC
90234043 TAATTTCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAAGCTTCCATATTATAAATTGCCAC
Found at i:90248401 original size:16 final size:17
Alignment explanation
Indices: 90248380--90248412 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90248370 ATTTAATCCT
*
90248380 AATT-AAATTGGATATA
1 AATTAAAATTGAATATA
90248396 AATTAAAATTGAATATA
1 AATTAAAATTGAATATA
90248413 TCATGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTAAAATTGAATATA
Found at i:90251480 original size:30 final size:30
Alignment explanation
Indices: 90251446--90251506 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
90251436 TTCCCGAGCC
90251446 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
90251476 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
90251506 T
1 T
90251507 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:90254945 original size:16 final size:16
Alignment explanation
Indices: 90254926--90254966 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
90254916 AATTATTAAT
*
90254926 AATTCAATAATTGAAA
1 AATTAAATAATTGAAA
90254942 AATTAAATAATTGAATAA
1 AATTAAATAATTG-A-AA
90254960 AATTAAA
1 AATTAAA
90254967 ATTTAGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (16 bp):
AATTAAATAATTGAAA
Found at i:90255727 original size:22 final size:19
Alignment explanation
Indices: 90255688--90255729 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
90255678 TGCAAAGTTG
90255688 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
90255707 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
90255729 A
1 A
90255730 AAGGTTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:90262049 original size:35 final size:34
Alignment explanation
Indices: 90262025--90262099 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 34
90262015 ATGTTATTTC
90262025 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAAT-ATCTCTTGT
90262060 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAAT-ATCTCTTGT
*
90262095 TCATA
1 ACATA
90262100 TTCTTATGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.37
Consensus pattern (34 bp):
ACATACATACTTATTAAATCGAAATATCTCTTGT
Found at i:90264051 original size:40 final size:40
Alignment explanation
Indices: 90263989--90264206 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
90263979 AAGCCAAGTA
* * *
90263989 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
90264028 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
90264068 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
90264108 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
90264148 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
90264188 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
90264207 TTATCATCCG
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.08
40 146 0.92
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:90266075 original size:54 final size:54
Alignment explanation
Indices: 90265993--90266101 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
90265983 GTTCAAAAGG
90265993 TAGTGTCCAGTTTGGTGCTATGACAATCGATGCTGTCACCGGTTGCTTTTTTAA
1 TAGTGTCCAGTTTGGTGCTATGACAATCGATGCTGTCACCGGTTGCTTTTTTAA
*
90266047 TAGTGTCCAGTTTGGTTCTATGACAATCGATGCTGTCACCGGTTGCTTTTTTAA
1 TAGTGTCCAGTTTGGTGCTATGACAATCGATGCTGTCACCGGTTGCTTTTTTAA
90266101 T
1 T
90266102 TCTTCAAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (54 bp):
TAGTGTCCAGTTTGGTGCTATGACAATCGATGCTGTCACCGGTTGCTTTTTTAA
Found at i:90268095 original size:39 final size:39
Alignment explanation
Indices: 90268036--90268117 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
90268026 AGGGTCGATC
* *
90268036 ACAATTCATACAATAATAAAGCATTTAAAGCATAATTAA
1 ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
90268075 ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
1 ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
90268114 ACAA
1 ACAA
90268118 TGCATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (39 bp):
ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
Found at i:90268109 original size:19 final size:19
Alignment explanation
Indices: 90268048--90268110 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
90268038 AATTCATACA
90268048 ATAATAAAGCATTTAAAGC
1 ATAATAAAGCATTTAAAGC
*
90268067 ATAATTAAA-CAACTCATAAA--
1 ATAA-TAAAGC-A-T-TTAAAGC
90268087 ATAATAAAGCATTTAAAGC
1 ATAATAAAGCATTTAAAGC
90268106 ATAAT
1 ATAAT
90268111 TAAACAATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 15 0.43
20 10 0.29
21 1 0.03
22 4 0.11
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (19 bp):
ATAATAAAGCATTTAAAGC
Found at i:90277416 original size:27 final size:27
Alignment explanation
Indices: 90277384--90277496 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 27
90277374 AAACATATAG
*
90277384 AGTCTACTAG-GACACTAAACATGGGGT
1 AGTCTA-TAGAGACACTAAACACGGGGT
* *
90277411 AGTCTATCGAGACATTAAACACGGGGT
1 AGTCTATAGAGACACTAAACACGGGGT
** * * * *
90277438 AGTCCGTCGAGACACTAAGCAAGAGGT
1 AGTCTATAGAGACACTAAACACGGGGT
* *
90277465 AGTCCATCA-AGACACTAAACACGAGGT
1 AGTCTAT-AGAGACACTAAACACGGGGT
90277492 AGTCT
1 AGTCT
90277497 GCTGGGACAA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.03
27 68 0.97
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
AGTCTATAGAGACACTAAACACGGGGT
Found at i:90277528 original size:26 final size:28
Alignment explanation
Indices: 90277475--90277574 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
90277465 AGTCCATCAA
90277475 GACACTAAACACGAGGTAG-TCTGCTGG
1 GACACTAAACACGAGGTAGTTCTGCTGG
* *
90277502 GACAATAAACAC-AGGTAGTTC-GTTGG
1 GACACTAAACACGAGGTAGTTCTGCTGG
* ***
90277528 GACACTAAATACGAGGTAGTT-TGCCAA
1 GACACTAAACACGAGGTAGTTCTGCTGG
* *
90277555 GACACTAGATACGAGGTAGT
1 GACACTAAACACGAGGTAGT
90277575 CCACTAGGAC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.33
27 41 0.67
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (28 bp):
GACACTAAACACGAGGTAGTTCTGCTGG
Found at i:90277585 original size:27 final size:27
Alignment explanation
Indices: 90277460--90277593 Score: 72
Period size: 27 Copynumber: 5.0 Consensus size: 27
90277450 CACTAAGCAA
* * *
90277460 GAGGTAGTCCATCAAGACACTAAACAC
1 GAGGTAGTCCACCAGGACACTAAATAC
** ** * *
90277487 GAGGTAGTCTGCTGGGACAATAAACAC
1 GAGGTAGTCCACCAGGACACTAAATAC
* ****
90277514 -AGGTAGTTCGTTGGGACACTAAATAC
1 GAGGTAGTCCACCAGGACACTAAATAC
*** * *
90277540 GAGGTAGTTTGCCAAGACACTAGATAC
1 GAGGTAGTCCACCAGGACACTAAATAC
* *
90277567 GAGGTAGTCCACTAGGACAATAAATAC
1 GAGGTAGTCCACCAGGACACTAAATAC
90277594 AGAAAGGTCC
Statistics
Matches: 81, Mismatches: 25, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
26 21 0.26
27 60 0.74
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
GAGGTAGTCCACCAGGACACTAAATAC
Found at i:90280194 original size:24 final size:24
Alignment explanation
Indices: 90280144--90280202 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
90280134 GCCCGAGAGT
* *
90280144 TTTGAATGTTTCAAGCCCCAAAGC
1 TTTGAATGTTTCAAGCACCAAACC
*
90280168 TTTGAATG-TTCTAAGCACTAAACC
1 TTTGAATGTTTC-AAGCACCAAACC
90280192 TTTG--TGTTTCA
1 TTTGAATGTTTCA
90280203 CTAGTTCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 21 0.70
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (24 bp):
TTTGAATGTTTCAAGCACCAAACC
Found at i:90282066 original size:51 final size:51
Alignment explanation
Indices: 90281990--90282091 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
90281980 GTCAATTCCT
* *
90281990 GCTGCATTTAAAATGTCATTAGGTACTTGGGCATCATGGGTTGAGAACACG
1 GCTGCATTCAAAATGGCATTAGGTACTTGGGCATCATGGGTTGAGAACACG
90282041 GCTGCATTCAAAATGGCATTAGGTACTTGGGCATCATGGGTTGAGAACACG
1 GCTGCATTCAAAATGGCATTAGGTACTTGGGCATCATGGGTTGAGAACACG
90282092 ATTGACACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (51 bp):
GCTGCATTCAAAATGGCATTAGGTACTTGGGCATCATGGGTTGAGAACACG
Found at i:90283862 original size:55 final size:56
Alignment explanation
Indices: 90283728--90283876 Score: 237
Period size: 58 Copynumber: 2.6 Consensus size: 56
90283718 AAATTGGATC
90283728 TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATT
1 TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAA--TGTTCCATT
* * *
90283786 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATTGTAATTAA-GTTCCATT
1 TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAATGTTCCATT
*
90283841 TTGAATGAATTGAGTAGACAAAGTGAGATTTTATCA
1 TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCA
90283877 GAACATAGGT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
55 42 0.49
58 44 0.51
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (56 bp):
TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAATGTTCCATT
Found at i:90283872 original size:30 final size:30
Alignment explanation
Indices: 90283783--90283872 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 30
90283773 AAGTTGTTCC
*
90283783 ATTTTGAATGAATTGAGTAGACAAAGCCAG
1 ATTTTGAATGAATTGAGTAGACAAAGTCAG
* ** *
90283813 ATTTT--ATCAATT--GTA-ATTAAGTTC-C
1 ATTTTGAATGAATTGAGTAGACAAAG-TCAG
*
90283838 ATTTTGAATGAATTGAGTAGACAAAGTGAG
1 ATTTTGAATGAATTGAGTAGACAAAGTCAG
90283868 ATTTT
1 ATTTT
90283873 ATCAGAACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 6 0.14
28 6 0.14
29 4 0.09
30 14 0.33
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (30 bp):
ATTTTGAATGAATTGAGTAGACAAAGTCAG
Found at i:90287552 original size:40 final size:40
Alignment explanation
Indices: 90287495--90287670 Score: 250
Period size: 40 Copynumber: 4.4 Consensus size: 40
90287485 GATGATAACT
*
90287495 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
* *
90287535 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
* *
90287575 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
*
90287615 GGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATATCC
*
90287655 -GGCTAATTCCCGAAGG
1 GGGCTAAGTCCCGAAGG
90287671 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 17 0.14
40 108 0.86
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
Found at i:90289718 original size:67 final size:67
Alignment explanation
Indices: 90289610--90289737 Score: 202
Period size: 67 Copynumber: 1.9 Consensus size: 67
90289600 GCTTGAACAA
** *
90289610 TAAGCCTACCACCAACAAGTTGGGAGGTCACCTACAAGCTCACCATTCTGGGATGACTACTAAAT
1 TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACTAAAT
90289675 AG
66 AG
* **
90289677 TAAGCCTACCACCAGCAAGGAGGGAGGTCACCTGTAAGCTCACCATTCTAGGATGACTACT
1 TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACT
90289738 TGGGCAATAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (67 bp):
TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACTAAAT
AG
Found at i:90291046 original size:276 final size:276
Alignment explanation
Indices: 90290552--90291097 Score: 880
Period size: 276 Copynumber: 2.0 Consensus size: 276
90290542 AAAGAAATGG
*
90290552 ACAAATATCTTCATCCTCTTCAATTTTCTTTTCTAAAACAAAAAAAAACCCTAGTTACCTTTCCC
1 ACAAATATCTTCATCCTCTTCAATCTTCTTTTCTAAAAC-AAAAAAAACCCTAGTTACCTTTCCC
90290617 ACTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGATT
65 ACTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGATT
90290682 CCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTATAAAGAAAAAATGAGTGAAAGAAAAACCCA
130 CCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTATAAAGAAAAAATGAGTGAAAGAAAAACCCA
* * * *** *
90290747 GAAAATCAAAGAATTTTTTGGGTTTTTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTTG
195 AAAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTTG
90290812 CAAAGGCCATGAAATAA
260 CAAAGGCCATGAAATAA
* * *
90290829 ACAAATATCTTCATCCTCTTCAATCTTCTTCTT-TAAAGC-AAAAAATCCCTAGTTGCCTTTTCC
1 ACAAATATCTTCATCCTCTTCAATCTTCTT-TTCTAAAACAAAAAAAACCCTAGTTACC-TTTCC
* * * * * * *
90290892 CACTATTGATGCTATTGCTTATCGGCATCTTCTCCGACCAAGAAGCGTTCAATGATGTCCATGAT
64 CACTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGAT
*
90290957 TCCATCTCTGAAATTTGATCTTTTCCTTTTGAGTTATAAAGAAAAAATGAGTGAAAGAAAAACCC
129 TCCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTATAAAGAAAAAATGAGTGAAAGAAAAACCC
90291022 AAAAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTT
194 AAAAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTT
90291087 GCAAAGGCCAT
259 GCAAAGGCCAT
90291098 TCTCACCTCT
Statistics
Matches: 248, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
275 16 0.06
276 196 0.79
277 34 0.14
278 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (276 bp):
ACAAATATCTTCATCCTCTTCAATCTTCTTTTCTAAAACAAAAAAAACCCTAGTTACCTTTCCCA
CTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGATTC
CATCTCCGAAATTTGATCTTTTCCTTTTGAGTTATAAAGAAAAAATGAGTGAAAGAAAAACCCAA
AAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTTGC
AAAGGCCATGAAATAA
Found at i:90297223 original size:41 final size:40
Alignment explanation
Indices: 90297099--90297240 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
90297089 GCACAAGGCA
* * * * *
90297099 TTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
*
90297139 TTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
* * *
90297179 TTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCC
1 TTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGCC
90297220 TTCGGGACTTAGCCCGGATAT
1 TTCGGGACTTAGCCCGGATAT
90297241 CATTCGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 54 0.62
41 27 0.31
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
Found at i:90304839 original size:25 final size:25
Alignment explanation
Indices: 90304792--90304839 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
90304782 TTATAATATG
* * * *
90304792 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90304817 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90304840 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90304901 original size:20 final size:20
Alignment explanation
Indices: 90304876--90304938 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
90304866 ATTTTGATAA
*
90304876 ACATGATATTTATGATATGC
1 ACATGATATGTATGATATGC
*
90304896 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90304916 AAATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90304936 ACA
1 ACA
90304939 CGAGATGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90305019 original size:24 final size:24
Alignment explanation
Indices: 90304992--90305121 Score: 183
Period size: 24 Copynumber: 5.4 Consensus size: 24
90304982 GAGGAAGTGC
90304992 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
90305016 AAAAGGGCTTATGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
90305040 ACAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90305064 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
90305087 AAAAAAGGGCTT-TGCCCCAATTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
90305112 AAAAGAGGCT
1 AAAAG-GGCT
90305122 AGGCCTCCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
23 26 0.27
24 48 0.51
25 12 0.13
26 9 0.09
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:90312710 original size:25 final size:25
Alignment explanation
Indices: 90312681--90312728 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90312671 TTATAATATG
* * *
90312681 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90312706 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90312729 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90312790 original size:20 final size:20
Alignment explanation
Indices: 90312765--90312827 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
90312755 ATTTTGATAA
*
90312765 ACATGATATGTCTGATATGC
1 ACATGATATGTATGATATGC
*
90312785 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
90312805 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90312825 ACA
1 ACA
90312828 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90313127 original size:25 final size:25
Alignment explanation
Indices: 90313098--90313147 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
90313088 CCTTATAATA
* * *
90313098 TGAAAATGACCGTTTTGCCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
90313123 TGAAAATGACCATTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
90313148 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
TGAAAATGACCATTATACCCCTAGG
Found at i:90313198 original size:9 final size:9
Alignment explanation
Indices: 90313186--90313242 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
90313176 TTTGATAAAC
90313186 ATGATATGT
1 ATGATATGT
*
90313195 ATGATATGCAC
1 ATGATATG--T
*
90313206 ATGACATGT
1 ATGATATGT
*
90313215 ATGATATGCAC
1 ATGATATG--T
90313226 ATGATATGT
1 ATGATATGT
90313235 ATGATATG
1 ATGATATG
90313243 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:90313202 original size:419 final size:419
Alignment explanation
Indices: 90312423--90313262 Score: 1545
Period size: 419 Copynumber: 2.0 Consensus size: 419
90312413 TTTCAGGCCT
90312423 ATTTGGGGTAAATTTGGTAGGAATTGGAAATCTGTTAAATTGCATGTTAAAACTATTAATACTGT
1 ATTTGGGGTAAATTTGGTAGGAATTGGAAATCTGTTAAATTGCATGTTAAAACTATTAATACTGT
*
90312488 TATGGATATAGGCTAAATGGACATAGATGACAGAATCGGCTAAGTAGGGCCCATTAGGGGTTTTT
66 TATGGATATAGGCTAAATGGACATAGATGACAGAATCGGCTAAGTAGGGCCCATTAGGGGGTTTT
90312553 GGCCCAATAACTTATTTTCGCTAAAAATAGGCCAGAATCACTGTTTGCACCCATGAATTGTTTGT
131 GGCCCAATAACTTATTTTCGCTAAAAATAGGCCAGAATCACTGTTTGCACCCATGAATTGTTTGT
*
90312618 AACCGTTAATGAACATGGAAACCCTAATTTTTTGTAAAATTACAAGATTACCCTTATAATATGAA
196 AACCGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTACAAGATTACCCTTATAATATGAA
90312683 AATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGTTTATATATGAACTTAAT
261 AATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGTTTATATATGAACTTAAT
*
90312748 GCATGGGATTTTGATAAACATGATATGTCTGATATGCACATGACATGTATGATATGCACATGATA
326 GCATGGGATTTTGATAAACATGATATGTATGATATGCACATGACATGTATGATATGCACATGATA
90312813 TGTATGATATGCACACGAGATGTTCATAA
391 TGTATGATATGCACACGAGATGTTCATAA
* *
90312842 ATTTGGGGTAAATTTGGTAGGATTTGGAAATCTGTTAAATTGCATGTTAAAACTGTTAATACTGT
1 ATTTGGGGTAAATTTGGTAGGAATTGGAAATCTGTTAAATTGCATGTTAAAACTATTAATACTGT
* *
90312907 TATGGATATAGGCTAAATGGACCTAGATGACCGAATCGGCTAAGTAGGGCCCATTAGGGGGTTTT
66 TATGGATATAGGCTAAATGGACATAGATGACAGAATCGGCTAAGTAGGGCCCATTAGGGGGTTTT
* ** * *
90312972 GGCCCAATAACTTGTTTTCGCTACCAATGGGCCAGAATCACTGTTTGCACCCGTGAATTGTTTGT
131 GGCCCAATAACTTATTTTCGCTAAAAATAGGCCAGAATCACTGTTTGCACCCATGAATTGTTTGT
**
90313037 AACCGTTAATGAACATGGCCACCCTAATTTTTGGTAAAATTACAAGATTACCCTTATAATATGAA
196 AACCGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTACAAGATTACCCTTATAATATGAA
*
90313102 AATGACCGTTTTGCCCCTAGGTGAAAATGACCATTATACCCCTAGGGTTTATATATGAACTTAAT
261 AATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGTTTATATATGAACTTAAT
90313167 GCATGGGATTTTGATAAACATGATATGTATGATATGCACATGACATGTATGATATGCACATGATA
326 GCATGGGATTTTGATAAACATGATATGTATGATATGCACATGACATGTATGATATGCACATGATA
90313232 TGTATGATATGCACACGAGATGTTCATAA
391 TGTATGATATGCACACGAGATGTTCATAA
90313261 AT
1 AT
90313263 GCATTGGGTT
Statistics
Matches: 406, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
419 406 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (419 bp):
ATTTGGGGTAAATTTGGTAGGAATTGGAAATCTGTTAAATTGCATGTTAAAACTATTAATACTGT
TATGGATATAGGCTAAATGGACATAGATGACAGAATCGGCTAAGTAGGGCCCATTAGGGGGTTTT
GGCCCAATAACTTATTTTCGCTAAAAATAGGCCAGAATCACTGTTTGCACCCATGAATTGTTTGT
AACCGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTACAAGATTACCCTTATAATATGAA
AATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGTTTATATATGAACTTAAT
GCATGGGATTTTGATAAACATGATATGTATGATATGCACATGACATGTATGATATGCACATGATA
TGTATGATATGCACACGAGATGTTCATAA
Found at i:90313209 original size:20 final size:20
Alignment explanation
Indices: 90313184--90313246 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
90313174 ATTTTGATAA
90313184 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90313204 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
90313224 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90313244 ACA
1 ACA
90313247 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90313439 original size:25 final size:24
Alignment explanation
Indices: 90313300--90313443 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
90313290 GAGGAAGTGC
90313300 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
90313324 AAAAGGGCTTATGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
90313348 ACAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90313372 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90313395 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
90313420 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
90313444 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
23 28 0.26
24 51 0.47
25 21 0.19
26 9 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:90313671 original size:31 final size:31
Alignment explanation
Indices: 90313636--90313699 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
90313626 CGTTTACAGT
*
90313636 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
90313667 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
90313698 AA
1 AA
90313700 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:90314416 original size:53 final size:53
Alignment explanation
Indices: 90314352--90314457 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
90314342 TTTTCAACTC
90314352 AAATGTGGCACGTCAGATTCAGCCATAACGTCTGGGCTGGGTTTGGGGTGTTA
1 AAATGTGGCACGTCAGATTCAGCCATAACGTCTGGGCTGGGTTTGGGGTGTTA
*
90314405 AAATGTGGCACGTCAGATTCGGCCATAACGTCTGGGCTGGGTTTGGGGTGTTA
1 AAATGTGGCACGTCAGATTCAGCCATAACGTCTGGGCTGGGTTTGGGGTGTTA
90314458 CATTTAGTGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (53 bp):
AAATGTGGCACGTCAGATTCAGCCATAACGTCTGGGCTGGGTTTGGGGTGTTA
Found at i:90319640 original size:76 final size:76
Alignment explanation
Indices: 90319514--90319667 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
90319504 GTACCCTCAA
* * * *
90319514 TTGTTTGGATTAGGTAAATTTTGAGACCGAAATTTCTTTAAGGATGGTAGAGTTGTAACCTCCTG
1 TTGTTTGGATTAGGTAAATTTCGAGACCAAAATTTCTTTAAAGATGGTAGAGTTGTAACATCCTG
90319579 ATTTTTGGGTT
66 ATTTTTGGGTT
*
90319590 TTGTTTGGATTAGGTAAATTTCGAGGCCAAAATTTCTTTAAAGATGGTAGAGTTGTAACATCCTG
1 TTGTTTGGATTAGGTAAATTTCGAGACCAAAATTTCTTTAAAGATGGTAGAGTTGTAACATCCTG
90319655 ATTTTTGGGTT
66 ATTTTTGGGTT
90319666 TT
1 TT
90319668 TCGCGATTCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (76 bp):
TTGTTTGGATTAGGTAAATTTCGAGACCAAAATTTCTTTAAAGATGGTAGAGTTGTAACATCCTG
ATTTTTGGGTT
Found at i:90321967 original size:12 final size:12
Alignment explanation
Indices: 90321950--90321975 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90321940 AAAATAGGGC
90321950 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90321962 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90321974 TT
1 TT
90321976 ATCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:90322049 original size:40 final size:40
Alignment explanation
Indices: 90321963--90322098 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
90321953 AGCGGCGTTT
* * * *
90321963 TTAGCGGCGTTTTATCAAAAAACGGCAC-AAAAACCAAAGCA
1 TTAGCGGCGTTTT-T-ACAAAACGCCGCGAAAAACCAGAGCA
* *
90322004 ATAGCGGCGTTTTTACTAAAACGCCGCGAAAAA-TAGAGCA
1 TTAGCGGCGTTTTTAC-AAAACGCCGCGAAAAACCAGAGCA
** *
90322044 TTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCG-TTTTTACAAAACGCCGCGAAAAACCAGAGCA
*
90322085 TTAGCGGCGCTTTT
1 TTAGCGGCGTTTTT
90322099 CGAAAAATGC
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 40 0.51
41 37 0.47
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGTTTTTACAAAACGCCGCGAAAAACCAGAGCA
Found at i:90322111 original size:41 final size:41
Alignment explanation
Indices: 90321963--90322116 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 41
90321953 AGCGGCGTTT
* * * * *
90321963 TTAGCGGCGTTTTATCAAAAAACGGCAC-AAAAACCAAAGCA
1 TTAGCGGCGCTTT-TCGAAAAACGCCGCTAAAAACCAGAGCA
* * * * *
90322004 ATAGCGGCGTTTTTAC-TAAAACGCCGCGAAAAA-TAGAGCA
1 TTAGCGGCGCTTTT-CGAAAAACGCCGCTAAAAACCAGAGCA
* *
90322044 TTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGCTTTTCGAAAAACGCCGCTAAAAACCAGAGCA
*
90322085 TTAGCGGCGCTTTTCGAAAAATGCCGCTAAAA
1 TTAGCGGCGCTTTTCGAAAAACGCCGCTAAAA
90322117 GTCATATAAC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 41 0.44
41 53 0.56
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCGAAAAACGCCGCTAAAAACCAGAGCA
Found at i:90322288 original size:7 final size:7
Alignment explanation
Indices: 90322273--90322324 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
90322263 TTAATTATCA
*
90322273 TTATAGT
1 TTATGGT
90322280 TTATGGT
1 TTATGGT
90322287 TTATGGT
1 TTATGGT
* *
90322294 TTAAGAT
1 TTATGGT
*
90322301 ATATGGT
1 TTATGGT
*
90322308 TTAGGGT
1 TTATGGT
*
90322315 TTAAGGT
1 TTATGGT
90322322 TTA
1 TTA
90322325 AGAGTTAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:90322499 original size:7 final size:7
Alignment explanation
Indices: 90322383--90322500 Score: 62
Period size: 7 Copynumber: 16.6 Consensus size: 7
90322373 TTATGATTAA
90322383 TTAGGGT
1 TTAGGGT
*
90322390 TTAATGG-
1 TT-AGGGT
90322397 TTAGGG-
1 TTAGGGT
*
90322403 TTAGAGT
1 TTAGGGT
*
90322410 TTAAGGT
1 TTAGGGT
*
90322417 GTAAGGGT
1 -TTAGGGT
*
90322425 TTATGGT
1 TTAGGGT
*
90322432 TAAGGGT
1 TTAGGGT
*
90322439 TAAGGGT
1 TTAGGGT
*
90322446 TAAGGGT
1 TTAGGGT
*
90322453 TTAGAGT
1 TTAGGGT
*
90322460 TTAGTGT
1 TTAGGGT
90322467 TTATGGG-
1 TTA-GGGT
*
90322474 ATAGGGGT
1 TTA-GGGT
*
90322482 TAAGAGGT
1 TTAG-GGT
90322490 TTAGGGT
1 TTAGGGT
90322497 TTAG
1 TTAG
90322501 ATTAATTAGT
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
6 8 0.09
7 60 0.71
8 17 0.20
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (7 bp):
TTAGGGT
Found at i:90322606 original size:22 final size:22
Alignment explanation
Indices: 90322581--90322644 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
90322571 AAAATAGGTT
90322581 TTAAGGGGATAGGGGTTAGGCG
1 TTAAGGGGATAGGGGTTAGGCG
*
90322603 TTAAGGGGATAAGGGTTAGGCG
1 TTAAGGGGATAGGGGTTAGGCG
* *
90322625 TTAAGGGGGTTGGGGTTAGG
1 TTAAGGGGATAGGGGTTAGG
90322645 GGTTTATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (22 bp):
TTAAGGGGATAGGGGTTAGGCG
Found at i:90322641 original size:6 final size:7
Alignment explanation
Indices: 90322584--90322648 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
90322574 ATAGGTTTTA
*
90322584 AGGGGAT
1 AGGGGTT
90322591 AGGGGTT
1 AGGGGTT
*
90322598 AGGCGTT
1 AGGGGTT
*
90322605 AAGGGGAT
1 -AGGGGTT
*
90322613 AAGGGTT
1 AGGGGTT
*
90322620 AGGCGTT
1 AGGGGTT
90322627 AAGGGGGTT
1 -A-GGGGTT
90322636 -GGGGTT
1 AGGGGTT
90322642 AGGGGTT
1 AGGGGTT
90322649 TATGGTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
6 6 0.13
7 28 0.62
8 6 0.13
9 5 0.11
ACGTcount: A:0.20, C:0.03, G:0.52, T:0.25
Consensus pattern (7 bp):
AGGGGTT
Found at i:90322722 original size:14 final size:14
Alignment explanation
Indices: 90322669--90322836 Score: 60
Period size: 14 Copynumber: 11.9 Consensus size: 14
90322659 GAGTTAATAT
*
90322669 TTTAAGGTTTATGG
1 TTTAAGGTTTAGGG
* * *
90322683 ATTATGGTTTAGAG
1 TTTAAGGTTTAGGG
* *
90322697 ATT-ATGTATTAGGG
1 TTTAAGGT-TTAGGG
90322711 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* * *
90322725 GTTATGTGTTAAGGG
1 TTTAAG-GTTTAGGG
90322740 TTT-AGGTTTTAAGGG
1 TTTAAGG-TTT-AGGG
**
90322755 -TTAAGAG-ACATGGG
1 TTTAAG-GTTTA-GGG
*
90322769 -TTATGGGTTTAGGG
1 TTTA-AGGTTTAGGG
* *
90322783 TTTAGGGTTTAGGA
1 TTTAAGGTTTAGGG
*
90322797 TTTAAGATTTAGGG
1 TTTAAGGTTTAGGG
* *
90322811 GTAAAGG-TTAGAGG
1 TTTAAGGTTTAG-GG
*
90322825 TTTAGGGTTTAG
1 TTTAAGGTTTAG
90322837 ATTAATTAGT
Statistics
Matches: 111, Mismatches: 30, Indels: 25
0.67 0.18 0.15
Matches are distributed among these distances:
13 8 0.07
14 75 0.68
15 27 0.24
16 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.40
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:90322729 original size:28 final size:28
Alignment explanation
Indices: 90322688--90322757 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
90322678 TATGGATTAT
* *
90322688 GGTTTAGAGATTATGTATT-AGGGTTTAA
1 GGTTTAGGGGTTATGTATTAAGGGTTT-A
*
90322716 GGTTTAGGGGTTATGTGTTAAGGGTTTA
1 GGTTTAGGGGTTATGTATTAAGGGTTTA
*
90322744 GGTTTTAAGGGTTA
1 GG-TTTAGGGGTTA
90322758 AGAGACATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (28 bp):
GGTTTAGGGGTTATGTATTAAGGGTTTA
Found at i:90322752 original size:36 final size:36
Alignment explanation
Indices: 90322705--90322796 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 36
90322695 AGATTATGTA
* ** *
90322705 TTAGGGTTTAAGGTTTAGGGGTTATGTGTTAAGGGT
1 TTAGGGTTTAAGGTTTAGGAGACATGGGTTAAGGGT
* * * *
90322741 TTAGGTTTTAAGGGTTAAGAGACATGGGTTATGGGT
1 TTAGGGTTTAAGGTTTAGGAGACATGGGTTAAGGGT
*
90322777 TTAGGGTTTAGGGTTTAGGA
1 TTAGGGTTTAAGGTTTAGGA
90322797 TTTAAGATTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.39
Consensus pattern (36 bp):
TTAGGGTTTAAGGTTTAGGAGACATGGGTTAAGGGT
Found at i:90322755 original size:15 final size:15
Alignment explanation
Indices: 90322707--90322756 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
90322697 ATTATGTATT
90322707 AGGGTTTAAGG-TTT-
1 AGGGTTT-AGGTTTTA
* * *
90322721 AGGGGTTATGTGTTA
1 AGGGTTTAGGTTTTA
90322736 AGGGTTTAGGTTTTA
1 AGGGTTTAGGTTTTA
90322751 AGGGTT
1 AGGGTT
90322757 AAGAGACATG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (15 bp):
AGGGTTTAGGTTTTA
Found at i:90322792 original size:7 final size:7
Alignment explanation
Indices: 90322705--90322836 Score: 63
Period size: 7 Copynumber: 18.6 Consensus size: 7
90322695 AGATTATGTA
90322705 TTAGGGT
1 TTAGGGT
*
90322712 TTAAGGT
1 TTAGGGT
*
90322719 TTAGGGG
1 TTAGGGT
*
90322726 TTATGTGT
1 TTA-GGGT
*
90322734 TAAGGGT
1 TTAGGGT
*
90322741 TTAGGTT
1 TTAGGGT
90322748 TTAAGGGT
1 TT-AGGGT
* *
90322756 TAAGAG-
1 TTAGGGT
**
90322762 ACATGGG-
1 TTA-GGGT
90322769 TTATGGGT
1 TTA-GGGT
90322777 TTAGGGT
1 TTAGGGT
90322784 TTAGGGT
1 TTAGGGT
*
90322791 TTAGGAT
1 TTAGGGT
* *
90322798 TTAAGAT
1 TTAGGGT
*
90322805 TTAGGGG
1 TTAGGGT
* *
90322812 TAAAGG-
1 TTAGGGT
90322818 TTAGAGGT
1 TTAG-GGT
90322826 TTAGGGT
1 TTAGGGT
90322833 TTAG
1 TTAG
90322837 ATTAATTAGT
Statistics
Matches: 93, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
6 3 0.03
7 74 0.80
8 16 0.17
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.39
Consensus pattern (7 bp):
TTAGGGT
Found at i:90323104 original size:73 final size:73
Alignment explanation
Indices: 90323019--90323220 Score: 359
Period size: 75 Copynumber: 2.7 Consensus size: 73
90323009 TGGCTTCCAA
90323019 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAACACCACAA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAACACCACAA
90323084 AAAACACT
66 AAAACACT
*
90323092 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCG-TTTTTT-AAAAACACCAC
90323157 AAAAAACACT
64 AAAAAACACT
* *
90323167 TTTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCATTTTTTAA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAA
90323221 CGTTTTTTTA
Statistics
Matches: 124, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
73 48 0.39
74 12 0.10
75 64 0.52
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (73 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAACACCACAA
AAAACACT
Found at i:90325366 original size:12 final size:12
Alignment explanation
Indices: 90325349--90325374 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90325339 AAAATAGGGC
90325349 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90325361 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90325373 TT
1 TT
90325375 ATCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:90325448 original size:40 final size:40
Alignment explanation
Indices: 90325362--90325497 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
90325352 AGCGGCGTTT
* * * *
90325362 TTAGCGGCGTTTTATCAAAAAACGGCAC-AAAAACCAAAGCA
1 TTAGCGGCGTTTT-T-ACAAAACGCCGCGAAAAACCAGAGCA
* *
90325403 ATAGCGGCGTTTTTACTAAAACGCCGCGAAAAA-TAGAGCA
1 TTAGCGGCGTTTTTAC-AAAACGCCGCGAAAAACCAGAGCA
** *
90325443 TTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCG-TTTTTACAAAACGCCGCGAAAAACCAGAGCA
*
90325484 TTAGCGGCGCTTTT
1 TTAGCGGCGTTTTT
90325498 CGAAAAATGC
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 40 0.51
41 37 0.47
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGTTTTTACAAAACGCCGCGAAAAACCAGAGCA
Found at i:90325510 original size:41 final size:41
Alignment explanation
Indices: 90325362--90325515 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 41
90325352 AGCGGCGTTT
* * * * *
90325362 TTAGCGGCGTTTTATCAAAAAACGGCAC-AAAAACCAAAGCA
1 TTAGCGGCGCTTT-TCGAAAAACGCCGCTAAAAACCAGAGCA
* * * * *
90325403 ATAGCGGCGTTTTTAC-TAAAACGCCGCGAAAAA-TAGAGCA
1 TTAGCGGCGCTTTT-CGAAAAACGCCGCTAAAAACCAGAGCA
* *
90325443 TTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGCTTTTCGAAAAACGCCGCTAAAAACCAGAGCA
*
90325484 TTAGCGGCGCTTTTCGAAAAATGCCGCTAAAA
1 TTAGCGGCGCTTTTCGAAAAACGCCGCTAAAA
90325516 GTCATATAAC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 41 0.44
41 53 0.56
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCGAAAAACGCCGCTAAAAACCAGAGCA
Found at i:90325687 original size:7 final size:7
Alignment explanation
Indices: 90325672--90325723 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
90325662 TTAATTATCA
*
90325672 TTATAGT
1 TTATGGT
90325679 TTATGGT
1 TTATGGT
90325686 TTATGGT
1 TTATGGT
* *
90325693 TTAAGAT
1 TTATGGT
*
90325700 ATATGGT
1 TTATGGT
*
90325707 TTAGGGT
1 TTATGGT
*
90325714 TTAAGGT
1 TTATGGT
90325721 TTA
1 TTA
90325724 AGAGTTAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:90325898 original size:7 final size:7
Alignment explanation
Indices: 90325782--90325899 Score: 62
Period size: 7 Copynumber: 16.6 Consensus size: 7
90325772 TTATGATTAA
90325782 TTAGGGT
1 TTAGGGT
*
90325789 TTAATGG-
1 TT-AGGGT
90325796 TTAGGG-
1 TTAGGGT
*
90325802 TTAGAGT
1 TTAGGGT
*
90325809 TTAAGGT
1 TTAGGGT
*
90325816 GTAAGGGT
1 -TTAGGGT
*
90325824 TTATGGT
1 TTAGGGT
*
90325831 TAAGGGT
1 TTAGGGT
*
90325838 TAAGGGT
1 TTAGGGT
*
90325845 TAAGGGT
1 TTAGGGT
*
90325852 TTAGAGT
1 TTAGGGT
*
90325859 TTAGTGT
1 TTAGGGT
90325866 TTATGGG-
1 TTA-GGGT
*
90325873 ATAGGGGT
1 TTA-GGGT
*
90325881 TAAGAGGT
1 TTAG-GGT
90325889 TTAGGGT
1 TTAGGGT
90325896 TTAG
1 TTAG
90325900 ATTAATTAGT
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
6 8 0.09
7 60 0.71
8 17 0.20
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (7 bp):
TTAGGGT
Found at i:90326005 original size:22 final size:22
Alignment explanation
Indices: 90325980--90326043 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
90325970 AAAATAGGTT
90325980 TTAAGGGGATAGGGGTTAGGCG
1 TTAAGGGGATAGGGGTTAGGCG
*
90326002 TTAAGGGGATAAGGGTTAGGCG
1 TTAAGGGGATAGGGGTTAGGCG
* *
90326024 TTAAGGGGGTTGGGGTTAGG
1 TTAAGGGGATAGGGGTTAGG
90326044 GGTTTATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (22 bp):
TTAAGGGGATAGGGGTTAGGCG
Found at i:90326040 original size:6 final size:7
Alignment explanation
Indices: 90325983--90326047 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
90325973 ATAGGTTTTA
*
90325983 AGGGGAT
1 AGGGGTT
90325990 AGGGGTT
1 AGGGGTT
*
90325997 AGGCGTT
1 AGGGGTT
*
90326004 AAGGGGAT
1 -AGGGGTT
*
90326012 AAGGGTT
1 AGGGGTT
*
90326019 AGGCGTT
1 AGGGGTT
90326026 AAGGGGGTT
1 -A-GGGGTT
90326035 -GGGGTT
1 AGGGGTT
90326041 AGGGGTT
1 AGGGGTT
90326048 TATGGTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
6 6 0.13
7 28 0.62
8 6 0.13
9 5 0.11
ACGTcount: A:0.20, C:0.03, G:0.52, T:0.25
Consensus pattern (7 bp):
AGGGGTT
Found at i:90326121 original size:14 final size:14
Alignment explanation
Indices: 90326068--90326235 Score: 53
Period size: 14 Copynumber: 11.9 Consensus size: 14
90326058 GAGTTAATAT
*
90326068 TTTAAGGTTTATGG
1 TTTAAGGTTTAGGG
* * *
90326082 ATTATGGTTTAGAG
1 TTTAAGGTTTAGGG
* *
90326096 ATT-ATGTATTAGGG
1 TTTAAGGT-TTAGGG
90326110 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* * *
90326124 GTTATGTGTTAAGGG
1 TTTAAG-GTTTAGGG
90326139 TTT-AGGTTTTAAGGG
1 TTTAAGG-TTT-AGGG
**
90326154 -TTAAGAG-ACATGGG
1 TTTAAG-GTTTA-GGG
*
90326168 -TTATGGGTTTAGGG
1 TTTA-AGGTTTAGGG
*
90326182 TTT-AGGATTTAGGA
1 TTTAAGG-TTTAGGG
*
90326196 TTTAAGATTTAGGG
1 TTTAAGGTTTAGGG
* *
90326210 GTAAAGG-TTAGAGG
1 TTTAAGGTTTAG-GG
*
90326224 TTTAGGGTTTAG
1 TTTAAGGTTTAG
90326236 ATTAATTAGT
Statistics
Matches: 109, Mismatches: 30, Indels: 29
0.65 0.18 0.17
Matches are distributed among these distances:
13 10 0.09
14 70 0.64
15 28 0.26
16 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.34, T:0.40
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:90326128 original size:28 final size:28
Alignment explanation
Indices: 90326087--90326156 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
90326077 TATGGATTAT
* *
90326087 GGTTTAGAGATTATGTATT-AGGGTTTAA
1 GGTTTAGGGGTTATGTATTAAGGGTTT-A
*
90326115 GGTTTAGGGGTTATGTGTTAAGGGTTTA
1 GGTTTAGGGGTTATGTATTAAGGGTTTA
*
90326143 GGTTTTAAGGGTTA
1 GG-TTTAGGGGTTA
90326157 AGAGACATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (28 bp):
GGTTTAGGGGTTATGTATTAAGGGTTTA
Found at i:90326154 original size:15 final size:15
Alignment explanation
Indices: 90326106--90326155 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
90326096 ATTATGTATT
90326106 AGGGTTTAAGG-TTT-
1 AGGGTTT-AGGTTTTA
* * *
90326120 AGGGGTTATGTGTTA
1 AGGGTTTAGGTTTTA
90326135 AGGGTTTAGGTTTTA
1 AGGGTTTAGGTTTTA
90326150 AGGGTT
1 AGGGTT
90326156 AAGAGACATG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (15 bp):
AGGGTTTAGGTTTTA
Found at i:90326592 original size:75 final size:74
Alignment explanation
Indices: 90326418--90326619 Score: 343
Period size: 75 Copynumber: 2.7 Consensus size: 74
90326408 TGGCTTCCAA
*
90326418 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCG-TTTTAAAAAAAACGCCAA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAAACGCCAA
90326482 AAAAACACT
66 AAAAACACT
* *
90326491 ATTATAACAAATAAAAATAAATATGAAAATTAAAAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAAACGCCA-
*
90326556 AAAAAGCACT
65 AAAAAACACT
*
90326566 TTTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAA
90326620 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
73 45 0.38
74 15 0.12
75 60 0.50
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28
Consensus pattern (74 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAAACGCCAA
AAAAACACT
Found at i:90328091 original size:15 final size:15
Alignment explanation
Indices: 90328071--90328110 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
90328061 TAGTGGGTAG
90328071 GGGTTAAGGGTTTAA
1 GGGTTAAGGGTTTAA
* *
90328086 GGGTTATGAGTTTAA
1 GGGTTAAGGGTTTAA
90328101 GGGTTAAGGG
1 GGGTTAAGGG
90328111 GACATGGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (15 bp):
GGGTTAAGGGTTTAA
Found at i:90328134 original size:7 final size:7
Alignment explanation
Indices: 90328124--90328227 Score: 50
Period size: 7 Copynumber: 14.7 Consensus size: 7
90328114 ATGGGTTAGG
90328124 GGTTTAT
1 GGTTTAT
90328131 GGTTTAT
1 GGTTTAT
*
90328138 GAGTTAAT
1 G-GTTTAT
** *
90328146 ATTTTAA
1 GGTTTAT
90328153 GGTTTAT
1 GGTTTAT
*
90328160 GGATTAT
1 GGTTTAT
90328167 GGTTTAT
1 GGTTTAT
* *
90328174 AGATTAT
1 GGTTTAT
*
90328181 -GTATTAG
1 GGT-TTAT
*
90328188 GGTTTAA
1 GGTTTAT
*
90328195 GGTTTAG
1 GGTTTAT
*
90328202 GGGTTAT
1 GGTTTAT
* *
90328209 GTGTTAAG
1 G-GTTTAT
90328217 GGTTTA-
1 GGTTTAT
90328223 GGTTT
1 GGTTT
90328228 TAAGGGTTAA
Statistics
Matches: 71, Mismatches: 22, Indels: 9
0.70 0.22 0.09
Matches are distributed among these distances:
6 6 0.08
7 54 0.76
8 11 0.15
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:90328231 original size:36 final size:36
Alignment explanation
Indices: 90328184--90328300 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 36
90328174 AGATTATGTA
* * *
90328184 TTAGGGTTTAAGGTTTAGGGGTTATGTGTTAAGGGT
1 TTAGGATTTAAGGTTTAGGGGATATGGGTTAAGGGT
* * * *
90328220 TTAGGTTTTAAGGGTTAAGGGATATGGGTTATGGGT
1 TTAGGATTTAAGGTTTAGGGGATATGGGTTAAGGGT
**
90328256 TTAGGATTT-AGGATTTA-GGGATAAAGGTT-AGAGGT
1 TTAGGATTTAAGG-TTTAGGGGATATGGGTTAAG-GGT
*
90328291 TTAGGGTTTA
1 TTAGGATTTA
90328301 GATTAATTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 1 0.02
35 24 0.36
36 41 0.62
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (36 bp):
TTAGGATTTAAGGTTTAGGGGATATGGGTTAAGGGT
Found at i:90328234 original size:15 final size:15
Alignment explanation
Indices: 90328186--90328235 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
90328176 ATTATGTATT
90328186 AGGGTTTAAGG-TTT-
1 AGGGTTT-AGGTTTTA
* * *
90328200 AGGGGTTATGTGTTA
1 AGGGTTTAGGTTTTA
90328215 AGGGTTTAGGTTTTA
1 AGGGTTTAGGTTTTA
90328230 AGGGTT
1 AGGGTT
90328236 AAGGGATATG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (15 bp):
AGGGTTTAGGTTTTA
Found at i:90328285 original size:35 final size:34
Alignment explanation
Indices: 90328215--90328306 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 34
90328205 TTATGTGTTA
* * **
90328215 AGGGTTTAGGTTTTAAGGGTTAAGGGATATGGGTT
1 AGGGTTTAGGATTT-AGGATTAAGGGATAAAGGTT
*
90328250 ATGGGTTTAGGATTTAGGATTTAGGGATAAAGGTT
1 A-GGGTTTAGGATTTAGGATTAAGGGATAAAGGTT
*
90328285 AGAGGTTTAGGGTTTA-GATTAA
1 AG-GGTTTAGGATTTAGGATTAA
90328307 TTAGTATTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 6 0.12
35 30 0.62
36 12 0.25
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.37
Consensus pattern (34 bp):
AGGGTTTAGGATTTAGGATTAAGGGATAAAGGTT
Found at i:90328298 original size:7 final size:7
Alignment explanation
Indices: 90328184--90328301 Score: 62
Period size: 7 Copynumber: 16.6 Consensus size: 7
90328174 AGATTATGTA
90328184 TTAGGGT
1 TTAGGGT
*
90328191 TTAAGGT
1 TTAGGGT
*
90328198 TTAGGGG
1 TTAGGGT
*
90328205 TTATGTGT
1 TTA-GGGT
*
90328213 TAAGGGT
1 TTAGGGT
*
90328220 TTAGGTT
1 TTAGGGT
90328227 TTAAGGGT
1 TT-AGGGT
*
90328235 TAAGGG-
1 TTAGGGT
*
90328241 ATATGGG-
1 TTA-GGGT
90328248 TTATGGGT
1 TTA-GGGT
*
90328256 TTAGGAT
1 TTAGGGT
*
90328263 TTAGGAT
1 TTAGGGT
*
90328270 TTAGGGA
1 TTAGGGT
* *
90328277 TAAAGG-
1 TTAGGGT
90328283 TTAGAGGT
1 TTAG-GGT
90328291 TTAGGGT
1 TTAGGGT
90328298 TTAG
1 TTAG
90328302 ATTAATTAGT
Statistics
Matches: 84, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
6 3 0.04
7 65 0.77
8 16 0.19
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (7 bp):
TTAGGGT
Found at i:90331720 original size:19 final size:19
Alignment explanation
Indices: 90331698--90331742 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
90331688 TTTATTGATA
90331698 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
90331716 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
90331735 TTTTTATT
1 TTTTTATT
90331743 CTAAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:90331750 original size:19 final size:20
Alignment explanation
Indices: 90331713--90331761 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
90331703 ATATTTAATC
**
90331713 TAGTTTTTATTATTTA-TTT
1 TAGTTTTTATTATAAATTTT
*
90331732 TAGTTTTTATTCTAAATTTT
1 TAGTTTTTATTATAAATTTT
90331752 TA-TTTTTATT
1 TAGTTTTTATT
90331762 TTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TAGTTTTTATTATAAATTTT
Found at i:90340887 original size:16 final size:16
Alignment explanation
Indices: 90340866--90340896 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90340856 TTGCTGAATC
90340866 TGAAATACCGAAAAGT
1 TGAAATACCGAAAAGT
*
90340882 TGAAATGCCGAAAAG
1 TGAAATACCGAAAAG
90340897 CCGAAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (16 bp):
TGAAATACCGAAAAGT
Found at i:90341225 original size:29 final size:29
Alignment explanation
Indices: 90341111--90341211 Score: 166
Period size: 29 Copynumber: 3.5 Consensus size: 29
90341101 GCAAGCATGA
90341111 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
90341140 ATATGAATGTGGTTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
90341169 ATACAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
90341198 ATATGAATGAGATT
1 ATATGAATGTGATT
90341212 GAGCCTAGTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:90354362 original size:27 final size:27
Alignment explanation
Indices: 90354324--90354377 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
90354314 TTATCGAGTT
90354324 ATCGATCCGATTCGTCAATTTCATGTA
1 ATCGATCCGATTCGTCAATTTCATGTA
*
90354351 ATCGATCCGATTTGTCAATTTCATGTA
1 ATCGATCCGATTCGTCAATTTCATGTA
90354378 CGAGGTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (27 bp):
ATCGATCCGATTCGTCAATTTCATGTA
Found at i:90362605 original size:29 final size:29
Alignment explanation
Indices: 90362573--90363008 Score: 283
Period size: 29 Copynumber: 14.9 Consensus size: 29
90362563 AGCTATCGAT
* * * *
90362573 TATGGAAAGGCATAGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
90362602 TATGAATAGGGATGGTGACGACCATTGAAT
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
* ** * * * *
90362632 TATGAAAAGGGATAGCT-TTGGCTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
*
90362661 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
*
90362690 TATGAAAAGGGATGGTGACGTCCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
90362719 TATGAAAAGGAATGGTGACGACCATAGAAT
1 TATGAAAAGGGATGGTGACGACCAT-CAAC
* * ** * * * *
90362749 TATGAAAAAGGATAGCT-TTGGCTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
*
90362778 TAT-ATAAAGTGATGGTGACGACCATCAAC
1 TATGA-AAAGGGATGGTGACGACCATCAAC
* * * * *
90362807 TATGAAAAGGGATGATGATGACTATTGAAT
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
* * * * * *
90362837 TATGAAAAGGGATAGCT-TCGGCTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
*
90362866 TATG-AAAGGTGATGGTGATGACCATCAAC
1 TATGAAAAGG-GATGGTGACGACCATCAAC
* *
90362895 TATGAAAAGGGATGATGACGACCATCTAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
90362925 TATGAAAAGGGATAGCT-TC-AGCTATCAAT
1 TATGAAAAGGGAT-GGTGACGA-CCATCAAC
*
90362954 TATGAAATGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
90362983 TATGAAATGGGATGGTGATGACCATC
1 TATGAAAAGGGATGGTGACGACCATC
90363009 GTGATTACAC
Statistics
Matches: 313, Mismatches: 76, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
28 14 0.04
29 209 0.67
30 82 0.26
31 8 0.03
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:90362679 original size:88 final size:87
Alignment explanation
Indices: 90362545--90362995 Score: 282
Period size: 88 Copynumber: 5.1 Consensus size: 87
90362535 TCATTGACCA
* *
90362545 ATGAAAAGGGATAACTTTAGCTATCGATTATGGAAAGGCATAGTGATGACCATCAACTATGAATA
1 ATGAAAAGGGATAACTTTAGCTATCGATTATGAAAAGGCATAGTGATGACCATCAACTATGAAAA
* *
90362610 GGGATGGTGACGACCATTGAATT
66 GGGATGGTGACGACCA-TCAACT
* * * *
90362633 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATGACCATCAACTATGAAAA
1 ATGAAAAGGGATAACTTTAGCTATCGATTATGAAAAGGCATAGTGATGACCATCAACTATGAAAA
*
90362698 GGGATGGTGACGTCCATCAACT
66 GGGATGGTGACGACCATCAACT
*** * * * * * * * *
90362720 ATGAAAA-GGA-ATGGTGACGACCATAGAATTATGAAAAAGG-ATAGCT-TTGGCTATCGATTAT
1 ATGAAAAGGGATAACTTTA-G-CTATCG-ATTATG-AAAAGGCATAG-TGATGACCATCAACTAT
*
90362781 -ATAAAGTGATGGTGACGACCATCAACT
61 GA-AAAGGGATGGTGACGACCATCAACT
* * * * * * * *
90362808 ATGAAAAGGGATGA--TGATGACTATTGAATTATGAAAAGGGATAGCT--TCGGCTATCGATTAT
1 ATGAAAAGGGATAACTTTA-G-CTATCG-ATTATGAAAAGGCATAG-TGAT-GACCATCAACTAT
*
90362869 G-AAAGGTGATGGTGATGACCATCAACT
61 GAAAAGG-GATGGTGACGACCATCAACT
* * * * * * * *
90362896 ATGAAAAGGGATGA--TGACGACCATCTAATTATGAAAAGGGATAGCT--TCAGCTATCAATTAT
1 ATGAAAAGGGATAACTTTA-G-CTATC-GATTATGAAAAGGCATAG-TGATGA-CCATCAACTAT
*
90362957 GAAATGGGATGGTGACGACCATCAACT
61 GAAAAGGGATGGTGACGACCATCAACT
*
90362984 ATGAAATGGGAT
1 ATGAAAAGGGAT
90362996 GGTGATGACC
Statistics
Matches: 307, Mismatches: 41, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
85 2 0.01
86 4 0.01
87 27 0.09
88 260 0.85
89 14 0.05
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (87 bp):
ATGAAAAGGGATAACTTTAGCTATCGATTATGAAAAGGCATAGTGATGACCATCAACTATGAAAA
GGGATGGTGACGACCATCAACT
Found at i:90362751 original size:117 final size:117
Alignment explanation
Indices: 90362594--90362820 Score: 384
Period size: 117 Copynumber: 1.9 Consensus size: 117
90362584 ATAGTGATGA
* * * *
90362594 CCATCAACTATGAATAGGGATGGTGACGACCATTGAATTATGAAAAGGGATAGCTTTGGCTATCG
1 CCATCAACTATGAAAAGGAATGGTGACGACCATAGAATTATGAAAAAGGATAGCTTTGGCTATCG
*
90362659 ATTATGA-AAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGT
66 ATTAT-ATAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGT
90362711 CCATCAACTATGAAAAGGAATGGTGACGACCATAGAATTATGAAAAAGGATAGCTTTGGCTATCG
1 CCATCAACTATGAAAAGGAATGGTGACGACCATAGAATTATGAAAAAGGATAGCTTTGGCTATCG
*
90362776 ATTATATAAAGTGATGGTGACGACCATCAACTATGAAAAGGGATG
66 ATTATATAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATG
90362821 ATGATGACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 1 0.01
117 102 0.99
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (117 bp):
CCATCAACTATGAAAAGGAATGGTGACGACCATAGAATTATGAAAAAGGATAGCTTTGGCTATCG
ATTATATAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGT
Found at i:90362897 original size:205 final size:206
Alignment explanation
Indices: 90362545--90362934 Score: 606
Period size: 205 Copynumber: 1.9 Consensus size: 206
90362535 TCATTGACCA
* * * *
90362545 ATGAAAAGGGATAACTTTAGCTATCGATTATGGAAAGGCATAGTGATGACCATCAACTATGAATA
1 ATGAAAAAGGATAACTTTAGCTATCGATTATAGAAAGGCATAGTGACGACCATCAACTATGAAAA
* *
90362610 GGGATGGTGACGACCATTGAATTATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATG
66 GGGATGATGACGACCATTGAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATG
* *
90362675 GTGATGACCATCAACTATGAAAAGGGATGGTGACGTCCATC-AACTATGAAAAGGAATGGTGACG
131 GTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCTAACTATGAAAAGGAATGGTGACG
90362739 ACCATAGAATT
196 ACCATAGAATT
* * * *
90362750 ATGAAAAAGGATAGCTTTGGCTATCGATTATATAAAGTG-ATGGTGACGACCATCAACTATGAAA
1 ATGAAAAAGGATAACTTTAGCTATCGATTATAGAAAG-GCATAGTGACGACCATCAACTATGAAA
* *
90362814 AGGGATGATGATGACTATTGAATTATGAAAAGGGATAGCTTCGGCTATCGATTATG-AAAGGTGA
65 AGGGATGATGACGACCATTGAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGG-GA
*
90362878 TGGTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCTAATTATGAAAAGG
129 TGGTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCTAACTATGAAAAGG
90362935 GATAGCTTCA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
204 5 0.03
205 149 0.89
206 13 0.08
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (206 bp):
ATGAAAAAGGATAACTTTAGCTATCGATTATAGAAAGGCATAGTGACGACCATCAACTATGAAAA
GGGATGATGACGACCATTGAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATG
GTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCTAACTATGAAAAGGAATGGTGACG
ACCATAGAATT
Found at i:90362996 original size:88 final size:88
Alignment explanation
Indices: 90362684--90363008 Score: 431
Period size: 88 Copynumber: 3.7 Consensus size: 88
90362674 GGTGATGACC
* * * * **
90362684 ATCAACTATGAAAAGGGATGGTGACGTCCATCAACTATGAAAAGGAATGGTGACGACCATAGAAT
1 ATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGATGACGACCATCTAAT
* *
90362749 TATGAAAAAGGATAGCTTTGGCT
66 TATGAAAAGGGATAGCTTCGGCT
* * * *
90362772 ATCGATTAT-ATAAAGTGATGGTGACGACCATCAACTATGAAAAGGGATGATGATGACTAT-TGA
1 ATCAATTATGA-AAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGATGACGACCATCT-A
90362835 ATTATGAAAAGGGATAGCTTCGGCT
64 ATTATGAAAAGGGATAGCTTCGGCT
* *
90362860 ATCGATTATG-AAAGGTGATGGTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCTAA
1 ATCAATTATGAAAAGG-GATGGTGACGACCATCAACTATGAAAAGGGATGATGACGACCATCTAA
*
90362924 TTATGAAAAGGGATAGCTTCAGCT
65 TTATGAAAAGGGATAGCTTCGGCT
* * * *
90362948 ATCAATTATGAAATGGGATGGTGACGACCATCAACTATGAAATGGGATGGTGATGACCATC
1 ATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGATGACGACCATC
90363009 GTGATTACAC
Statistics
Matches: 209, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
87 5 0.02
88 199 0.95
89 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (88 bp):
ATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGATGACGACCATCTAAT
TATGAAAAGGGATAGCTTCGGCT
Found at i:90364254 original size:13 final size:13
Alignment explanation
Indices: 90364234--90364265 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90364224 TGTGAGTCAT
90364234 ACGGCCTGGCCAC
1 ACGGCCTGGCCAC
*
90364247 ATGGCCTGGCCAC
1 ACGGCCTGGCCAC
90364260 ACGGCC
1 ACGGCC
90364266 ATGTGACTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.44, G:0.31, T:0.09
Consensus pattern (13 bp):
ACGGCCTGGCCAC
Found at i:90365814 original size:39 final size:39
Alignment explanation
Indices: 90365758--90365833 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
90365748 TACTATTTGA
* * * * *
90365758 TTCAAGGTTACCAAAGTATATATAGGGCACGTATGTGTG
1 TTCAAGGCTACCAAAGTACAAACAGAGCACGTATGTGTG
90365797 TTCAAGGCTA-CAGAAGTACAAACAGAGCACGTATGTG
1 TTCAAGGCTACCA-AAGTACAAACAGAGCACGTATGTG
90365834 CATTCAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (39 bp):
TTCAAGGCTACCAAAGTACAAACAGAGCACGTATGTGTG
Found at i:90371744 original size:40 final size:40
Alignment explanation
Indices: 90371681--90371791 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
90371671 ATTTAGGATT
* * * * *
90371681 ACCAAAGTATAAACAA-GGAACGTATGTACGTTAAGGGGT
1 ACCAAAGTACAAATAAGGGCACGTATGTACATTAAGGGGC
** * * *
90371720 ACTGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGC
1 ACCAAAGTACAAATAAGGGCACGTATGTACATTAAGGGGC
90371760 ACCAAAGTACAAATAAGGGCAC-TATGTACATT
1 ACCAAAGTACAAATAAGGGCACGTATGTACATT
90371792 CATCAATAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
39 20 0.35
40 37 0.65
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (40 bp):
ACCAAAGTACAAATAAGGGCACGTATGTACATTAAGGGGC
Found at i:90375008 original size:60 final size:60
Alignment explanation
Indices: 90374912--90375031 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
90374902 TTTTCCAAAC
* *
90374912 TCACCCCTTTCTCTTCCATCCTTGCAGGTGAGCCCTAGTTGGTGGACTTGGAGCTGGGCG
1 TCACCCCTTTCTCTTCCATCCTTGCAAGTGACCCCTAGTTGGTGGACTTGGAGCTGGGCG
*
90374972 TCACCCTTTTCTCTTCCATCCTTGCAAGTGACCCCTAGTTGGTGGACTTGGAGCTGGGCG
1 TCACCCCTTTCTCTTCCATCCTTGCAAGTGACCCCTAGTTGGTGGACTTGGAGCTGGGCG
90375032 GGATTCAGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.12, C:0.30, G:0.27, T:0.31
Consensus pattern (60 bp):
TCACCCCTTTCTCTTCCATCCTTGCAAGTGACCCCTAGTTGGTGGACTTGGAGCTGGGCG
Found at i:90378209 original size:49 final size:49
Alignment explanation
Indices: 90378156--90378256 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
90378146 ATGGTTAGGC
** *
90378156 CTACGTGTACCGGATAATTGGTCATGTGTGTAGTACTAAGTGCAGGCTA
1 CTACGTGTACCGGATAATTGGTCACATGTGTACTACTAAGTGCAGGCTA
* *
90378205 CTACGTGTACCGGATAATTGGTCGCATGTGTACTACTATGTGCAGGCTA
1 CTACGTGTACCGGATAATTGGTCACATGTGTACTACTAAGTGCAGGCTA
90378254 CTA
1 CTA
90378257 TGCGTACCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (49 bp):
CTACGTGTACCGGATAATTGGTCACATGTGTACTACTAAGTGCAGGCTA
Found at i:90378264 original size:49 final size:49
Alignment explanation
Indices: 90378156--90378269 Score: 147
Period size: 49 Copynumber: 2.3 Consensus size: 49
90378146 ATGGTTAGGC
* ** *
90378156 CTACGTGTACCGGATAATTGGTCATGTGTGTAGTACTAAGTGCAGGCTA
1 CTACGCGTACCGGATAATTGGTCACATGTGTACTACTAAGTGCAGGCTA
* * *
90378205 CTACGTGTACCGGATAATTGGTCGCATGTGTACTACTATGTGCAGGCTA
1 CTACGCGTACCGGATAATTGGTCACATGTGTACTACTAAGTGCAGGCTA
* *
90378254 CTATGCGTACCAGATA
1 CTACGCGTACCGGATA
90378270 GCTTTGGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
CTACGCGTACCGGATAATTGGTCACATGTGTACTACTAAGTGCAGGCTA
Found at i:90384370 original size:23 final size:22
Alignment explanation
Indices: 90384328--90384377 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
90384318 TGAAAATAGA
*
90384328 CTCATTAAGCTTTAATTTAACAT
1 CTCATTAAACTTTAATTTAA-AT
90384351 CTCATTAAACTTCTAA-TTAAAT
1 CTCATTAAACTT-TAATTTAAAT
90384373 -TCATT
1 CTCATT
90384378 CTATTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 2 0.08
23 15 0.60
24 3 0.12
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (22 bp):
CTCATTAAACTTTAATTTAAAT
Found at i:90384856 original size:68 final size:67
Alignment explanation
Indices: 90384702--90384857 Score: 163
Period size: 68 Copynumber: 2.3 Consensus size: 67
90384692 AGCCGATTTG
* * * *
90384702 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATA
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-T-GAATCACACATGCGACCTAGCTACACA
*
90384767 TATC
64 TATA
* *
90384771 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATCAC-GTATCACACATGTGACCTAGCTACTA
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTGAATCACACATGCGACCTAGCTAC-A
90384834 CATAGTA
62 CATA-TA
*
90384841 TCTCGTAGCTTTCTTGT
1 TCTCGTAGCTCTCTTGT
90384858 ACACATGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
68 34 0.46
69 7 0.09
70 5 0.07
71 28 0.38
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (67 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTGAATCACACATGCGACCTAGCTACACATA
TA
Found at i:90396230 original size:13 final size:13
Alignment explanation
Indices: 90396212--90396290 Score: 70
Period size: 13 Copynumber: 6.2 Consensus size: 13
90396202 GCTCAGCAGG
*
90396212 GACACGCCTGTGT
1 GACACGCCCGTGT
90396225 GACACGCCCGTGT
1 GACACGCCCGTGT
* * **
90396238 GACAGGACAATGT
1 GACACGCCCGTGT
90396251 GAC-CGCCCGTGT
1 GACACGCCCGTGT
* **
90396263 GACTCGAACGTGT
1 GACACGCCCGTGT
*
90396276 GACACGCTCGTGT
1 GACACGCCCGTGT
90396289 GA
1 GA
90396291 ATCATGCTTC
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
12 8 0.16
13 43 0.84
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.19
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:90397163 original size:79 final size:79
Alignment explanation
Indices: 90397030--90397182 Score: 236
Period size: 79 Copynumber: 1.9 Consensus size: 79
90397020 TTTCGTCCCT
* *
90397030 AAAATTTCCAACTATCAGATCAGTAGCGTAACACAGACTACGCCACTACGCTCCCACTGCGCACT
1 AAAATTTCCAACTATCAAATCAGTAGCGTAACACAGACTACGCCACTACACTCCCACTGCGCACT
90397095 CTAGTTCCATCCTC
66 CTAGTTCCATCCTC
** * *
90397109 AAAATTTCCAGTTATCAAATCAGTCA-CGTAACACAGACTACGCCACTACACTCCCGCTGCGTAC
1 AAAATTTCCAACTATCAAATCAGT-AGCGTAACACAGACTACGCCACTACACTCCCACTGCGCAC
90397173 TCTAGTTCCA
65 TCTAGTTCCA
90397183 AAACACTACC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 66 0.99
80 1 0.01
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (79 bp):
AAAATTTCCAACTATCAAATCAGTAGCGTAACACAGACTACGCCACTACACTCCCACTGCGCACT
CTAGTTCCATCCTC
Found at i:90399165 original size:18 final size:18
Alignment explanation
Indices: 90399126--90399167 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
90399116 TATATTAGGG
*
90399126 GCCCATGTGGGCCCACAC
1 GCCCATGTGGGCCCACAA
90399144 GCCCATGT-GGCCCACGAA
1 GCCCATGTGGGCCCAC-AA
90399162 GCCCAT
1 GCCCAT
90399168 ATATAGCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.19, C:0.43, G:0.26, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCACAA
Found at i:90403387 original size:56 final size:56
Alignment explanation
Indices: 90403301--90403433 Score: 203
Period size: 56 Copynumber: 2.4 Consensus size: 56
90403291 TCCCAGATAG
*** *
90403301 GGTCTTACTCGCACACATATATTGGAGTCACATATCAATTCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAAAGTCACATATCAATGCCAACGTATAAAACGT
* * *
90403357 GGTCTTACTTGCACACATATATCAAAGTCACATATCGATGCCAATGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAAAGTCACATATCAATGCCAACGTATAAAACGT
90403413 GGTCTTACTCGCACACATATA
1 GGTCTTACTCGCACACATATA
90403434 CCGATGCCAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAAAGTCACATATCAATGCCAACGTATAAAACGT
Found at i:90403452 original size:31 final size:31
Alignment explanation
Indices: 90403412--90403475 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
90403402 GTATAAAACG
* *
90403412 TGGTCTTACTCGCACACATATACCGATGCCA
1 TGGTATTACTCGCACAAATATACCGATGCCA
*
90403443 TGGTATTACTTGCACAAATATACCGATGCCA
1 TGGTATTACTCGCACAAATATACCGATGCCA
90403474 TG
1 TG
90403476 TAACACCCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
TGGTATTACTCGCACAAATATACCGATGCCA
Found at i:90419421 original size:8 final size:8
Alignment explanation
Indices: 90419410--90419440 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
90419400 CAGTTTTTCA
90419410 GCATTTTG
1 GCATTTTG
*
90419418 GCATTTCG
1 GCATTTTG
90419426 GCATTTTG
1 GCATTTTG
90419434 GCATTTT
1 GCATTTT
90419441 TCCGTTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.16, G:0.23, T:0.48
Consensus pattern (8 bp):
GCATTTTG
Found at i:90419429 original size:16 final size:16
Alignment explanation
Indices: 90419405--90419439 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
90419395 ACTTTCAGTT
90419405 TTTCAGCATTTTGGCA
1 TTTCAGCATTTTGGCA
*
90419421 TTTCGGCATTTTGGCA
1 TTTCAGCATTTTGGCA
90419437 TTT
1 TTT
90419440 TTCCGTTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTCAGCATTTTGGCA
Found at i:90443547 original size:21 final size:20
Alignment explanation
Indices: 90443518--90443563 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
90443508 AGAAATGCAA
90443518 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
90443539 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
90443559 T-AACC
1 TCAACC
90443564 ATTTCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:90444427 original size:22 final size:23
Alignment explanation
Indices: 90444393--90444442 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
90444383 TTTGTCAAAA
*
90444393 ATTATCAAAATTAATAAAAATTT
1 ATTATCAAAATTAATAAAAATTC
*
90444416 ATTAT-AAAATTAATTAAAATTC
1 ATTATCAAAATTAATAAAAATTC
90444438 ATTAT
1 ATTAT
90444443 GTTAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATCAAAATTAATAAAAATTC
Found at i:90451225 original size:21 final size:22
Alignment explanation
Indices: 90451192--90451235 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
90451182 ATTTAACAAA
90451192 TAAGTAGGGGGAAAACCTATGT
1 TAAGTAGGGGGAAAACCTATGT
90451214 TAAGTA-GGGGAAAACCTATGT
1 TAAGTAGGGGGAAAACCTATGT
90451235 T
1 T
90451236 CTTTATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (22 bp):
TAAGTAGGGGGAAAACCTATGT
Done.