Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 283 of 295
Found at i:89788559 original size:27 final size:28
Alignment explanation
Indices: 89788499--89788570 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
89788489 TATACTAATA
89788499 AAATAATAATAAAATATCTTATTAAAGT
1 AAATAATAATAAAATATCTTATTAAAGT
*
89788527 -ATTAATAA-AATAATAT-TTATCTAAA-T
1 AAATAATAATAA-AATATCTTAT-TAAAGT
*
89788553 AAATAATTATAAAATATC
1 AAATAATAATAAAATATC
89788571 AAAATATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
26 7 0.19
27 27 0.75
28 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (28 bp):
AAATAATAATAAAATATCTTATTAAAGT
Found at i:89791315 original size:17 final size:18
Alignment explanation
Indices: 89791293--89791327 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89791283 TTTACCCTTA
*
89791293 AAATA-TATTACCCCATT
1 AAATATTATTACACCATT
89791310 AAATATTATTACACCATT
1 AAATATTATTACACCATT
89791328 CATAATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATATTATTACACCATT
Found at i:89792817 original size:45 final size:45
Alignment explanation
Indices: 89792756--89792874 Score: 220
Period size: 45 Copynumber: 2.6 Consensus size: 45
89792746 ATATCCTTCT
89792756 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
1 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
*
89792801 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCT
1 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
*
89792846 TCCTCGGATCTACCATAACTTGGTTTCCT
1 TCCTCGGATCTACCATAACTTGGCTTCCT
89792875 CTCATACCCG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.16, C:0.35, G:0.10, T:0.39
Consensus pattern (45 bp):
TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
Found at i:89793190 original size:54 final size:54
Alignment explanation
Indices: 89793126--89793249 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
89793116 TGTTCGCCAT
* *
89793126 ATTCGGGTCTCCGGCCATACCCAGATTCAAATTCAGGAGGCGGAGGCTGCTCAA
1 ATTCGGGTCTCCGGCCATACCCAGATCCAAACTCAGGAGGCGGAGGCTGCTCAA
* * *
89793180 ATTCGGGTCTCCGTCGATACCCAGATCCAAACTCAGGCGGCGGAGGCTGCTCAA
1 ATTCGGGTCTCCGGCCATACCCAGATCCAAACTCAGGAGGCGGAGGCTGCTCAA
* *
89793234 ATTCTGATCTCCGGCC
1 ATTCGGGTCTCCGGCC
89793250 GGATCCGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.21
Consensus pattern (54 bp):
ATTCGGGTCTCCGGCCATACCCAGATCCAAACTCAGGAGGCGGAGGCTGCTCAA
Found at i:89803836 original size:6 final size:6
Alignment explanation
Indices: 89803825--89803860 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
89803815 TAATTAATAT
89803825 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
89803861 AGAATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:89805333 original size:22 final size:22
Alignment explanation
Indices: 89805308--89805353 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
89805298 TTTATACATC
89805308 AACTCATTTTATATTAACATTT
1 AACTCATTTTATATTAACATTT
89805330 AACTCATTTTATATTAACATTT
1 AACTCATTTTATATTAACATTT
89805352 AA
1 AA
89805354 ACTTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (22 bp):
AACTCATTTTATATTAACATTT
Found at i:89807730 original size:40 final size:37
Alignment explanation
Indices: 89807627--89807761 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
89807617 TTTTCCTCAT
* * *
89807627 TGAAACACCATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
* * **
89807663 -GAAATGCCATACCTACGTTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
89807699 TTTGATAATACCATACCTACATTTCACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTCAGTATGGA
89807739 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
89807762 CTTTGCCATG
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 49 0.59
38 2 0.02
39 2 0.02
40 30 0.36
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGGA
Found at i:89815740 original size:12 final size:12
Alignment explanation
Indices: 89815723--89815747 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89815713 AAAAAAAAAA
89815723 ATTTAATTTTTT
1 ATTTAATTTTTT
89815735 ATTTAATTTTTT
1 ATTTAATTTTTT
89815747 A
1 A
89815748 AACTTACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTAATTTTTT
Found at i:89815879 original size:9 final size:8
Alignment explanation
Indices: 89815847--89815878 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
89815837 TTAATTATAT
*
89815847 TTTTAAAT
1 TTTTAAAA
89815855 TTTTAAAA
1 TTTTAAAA
89815863 TTTTAAAA
1 TTTTAAAA
89815871 TTTTAAAA
1 TTTTAAAA
89815879 AATTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:89815879 original size:17 final size:17
Alignment explanation
Indices: 89815845--89815879 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
89815835 AATTAATTAT
* *
89815845 ATTTTTAAATTTTTAAA
1 ATTTTAAAATTTTAAAA
89815862 ATTTTAAAATTTTAAAA
1 ATTTTAAAATTTTAAAA
89815879 A
1 A
89815880 ATTATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTAAAATTTTAAAA
Found at i:89815896 original size:21 final size:22
Alignment explanation
Indices: 89815870--89815918 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
89815860 AAATTTTAAA
89815870 ATTTTAAAAA-ATTATATAAT-T
1 ATTTTAAAAATATT-TATAATAT
*
89815891 ATTTTAAAAATATTTTTAATAT
1 ATTTTAAAAATATTTATAATAT
89815913 ATTTTA
1 ATTTTA
89815919 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTAAAAATATTTATAATAT
Found at i:89824589 original size:13 final size:13
Alignment explanation
Indices: 89824558--89824602 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
89824548 TTTATAAATT
89824558 TAAA-TTTC-TTA
1 TAAATTTTCTTTA
*
89824569 TAACTTTT-TTTAA
1 TAAATTTTCTTT-A
89824582 TAAATTTTCTTTA
1 TAAATTTTCTTTA
89824595 TAAATTTT
1 TAAATTTT
89824603 ATGATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 5 0.18
13 17 0.61
14 3 0.11
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATTTTCTTTA
Found at i:89829464 original size:20 final size:21
Alignment explanation
Indices: 89829439--89829488 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
89829429 GATTGACTTA
*
89829439 ATTTAATATAT-TTTTTAATT
1 ATTTAAAATATATTTTTAATT
89829459 ATTTAAAATATATTTTTAATT
1 ATTTAAAATATATTTTTAATT
*
89829480 -TATAAAATA
1 ATTTAAAATA
89829489 AATAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAAAATATATTTTTAATT
Found at i:89829471 original size:22 final size:20
Alignment explanation
Indices: 89829443--89829488 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
89829433 GACTTAATTT
*
89829443 AATATATTTTTTAATTATTTAA
1 AATATA-TTTTTAATT-TATAA
89829465 AATATATTTTTAATTTATAA
1 AATATATTTTTAATTTATAA
89829485 AATA
1 AATA
89829489 AATAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATATTTTTAATTTATAA
Found at i:89838208 original size:32 final size:32
Alignment explanation
Indices: 89838172--89838239 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
89838162 TTTTAAGAAT
*
89838172 TTTAATTTTAATAAAATATTTGGGAAAATAAA
1 TTTAATTTTAATAAAATATTTGGAAAAATAAA
89838204 TTTAATTTTAATAAAATATTTGGAAAAATAAA
1 TTTAATTTTAATAAAATATTTGGAAAAATAAA
89838236 TTTA
1 TTTA
89838240 CTTGATAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (32 bp):
TTTAATTTTAATAAAATATTTGGAAAAATAAA
Found at i:89838533 original size:11 final size:12
Alignment explanation
Indices: 89838510--89838544 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
89838500 AGTCATATTT
89838510 AATTTTTATATA
1 AATTTTTATATA
89838522 AATTTTTA-ATA
1 AATTTTTATATA
89838533 AATTTATTATAT
1 AATTT-TTATAT
89838545 CATTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTTATATA
Found at i:89841098 original size:126 final size:128
Alignment explanation
Indices: 89840968--89841226 Score: 378
Period size: 126 Copynumber: 2.0 Consensus size: 128
89840958 TTCAGATACG
* * ** *
89840968 AAATACTGTCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTA
1 AAATACTGCCTCATTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCA
89841033 GTCGAATG-AAAAAA-TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
66 GTCGAATGAAAAAAAGTCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
* ** * *
89841094 AAATATTGCCTTGTTTTAATTTAAGAAAACTTGGACGAAATTTCACAAGGATATTCCATATTTCA
1 AAATACTGCCTCATTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCA
* * * *
89841159 GTTGAATGAAAAAAAGTCGAAACCCAGCACGATTGGGCACGATCTCTTAAACTTCCAAACACG
66 GTCGAATGAAAAAAAGTCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
89841222 AAATA
1 AAATA
89841227 TTTCCTTATG
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
126 62 0.53
127 6 0.05
128 49 0.42
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (128 bp):
AAATACTGCCTCATTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCA
GTCGAATGAAAAAAAGTCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
Found at i:89841226 original size:128 final size:126
Alignment explanation
Indices: 89840981--89841233 Score: 389
Period size: 128 Copynumber: 2.0 Consensus size: 126
89840971 TACTGTCTCA
* ** *
89840981 TTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAA
1 TTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
89841046 ATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTTG
66 ATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTTG
* * *
89841107 TTTTAATTTAAGAAAACTTGGACGAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAA
1 TTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTCGAATG-AAAA
* * * *
89841172 AAGTCGAAACCCAGCACGATTGGGCACGATCTCTTAAACTTCCAAACACGAAATATTTCCTT
65 AA-TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTT
89841234 ATGTGGAGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
126 53 0.46
127 6 0.05
128 55 0.48
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (126 bp):
TTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
ATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTTG
Found at i:89841423 original size:13 final size:13
Alignment explanation
Indices: 89841392--89841428 Score: 60
Period size: 11 Copynumber: 3.0 Consensus size: 13
89841382 ATGAAACAAT
89841392 AAAATATGAAAAC
1 AAAATATGAAAAC
89841405 --AATATGAAAAC
1 AAAATATGAAAAC
89841416 AAAATATGAAAAC
1 AAAATATGAAAAC
89841429 TAGAAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAATATGAAAAC
Found at i:89841613 original size:26 final size:26
Alignment explanation
Indices: 89841534--89841615 Score: 67
Period size: 28 Copynumber: 3.0 Consensus size: 26
89841524 ATAAAAACTG
* *
89841534 ATAATATATGAACGATTATTT-AAATAT
1 ATAATATAT-AAC-ATAATTTCAAATAA
* * * *
89841561 ATAATATGTAAGAAGAAATTCGAAATAA
1 ATAATATATAA-CATAATTTC-AAATAA
89841589 ATAATATATAACATAATTTCAAATAA
1 ATAATATATAACATAATTTCAAATAA
89841615 A
1 A
89841616 ACAAATTAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
26 13 0.31
27 14 0.33
28 15 0.36
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (26 bp):
ATAATATATAACATAATTTCAAATAA
Found at i:89842005 original size:16 final size:16
Alignment explanation
Indices: 89841966--89842006 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
89841956 ATAAAAGAGG
89841966 ATTTTAAAATAAATAA
1 ATTTTAAAATAAATAA
*
89841982 ATTGTAAAATAAA-ACA
1 ATTTTAAAATAAATA-A
89841998 ATTTTAAAA
1 ATTTTAAAA
89842007 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
ATTTTAAAATAAATAA
Found at i:89842122 original size:17 final size:18
Alignment explanation
Indices: 89842102--89842135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89842092 ATAATAAATC
89842102 AATTA-AAAAAATAAAAG
1 AATTACAAAAAATAAAAG
*
89842119 AATTACAAAGAATAAAA
1 AATTACAAAAAATAAAA
89842136 AGGTAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (18 bp):
AATTACAAAAAATAAAAG
Found at i:89843820 original size:177 final size:177
Alignment explanation
Indices: 89843541--89843948 Score: 593
Period size: 177 Copynumber: 2.3 Consensus size: 177
89843531 CTTCTGGAAT
* * * * *
89843541 ATAAGATTTGCAATTTTCAGTCTGTCACCCTACTGCTTAGGAGGTTAAGGCTCGTATCTTCAAAC
1 ATAAGATTTGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAAAC
*
89843606 TGCTCTCTTGCTACCTCAGAGAGATAAGACCGGTGGCTAAAATCTACTCCATAGTCGAGACATGG
66 TGCTCTCTTGCTACCTCAGAGAGATAAGACCGGTGGCTAAAATCTACTCCATAGCCGAGACATGG
*
89843671 AGATAAGACTCTCCATTTTTGATCTGCTCCATAGCCGATACATGGAG
131 AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAG
* * * *
89843718 ATAAGATTTGTAATTTACAGCCTGTAACCTTACTGTTTAGGGGGTTAAGGCTCGTATCTTTAACC
1 ATAAGATTTGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAAAC
* * * * * * *
89843783 TGCTCTCTTGTTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATTG
66 TGCTCTCTTGCTACCTCAGAGAGATAAGACCGGTGGCTAAAATCTACTCCATAGCCGAGACATGG
* * *
89843848 AGATAAGACTCGCCATTTTTTATTTGCTCCATAGCCGATACATGGTG
131 AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAG
* *
89843895 ATAA-ATTCTGTAATTTGCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCG
1 ATAAGATT-TGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCG
89843949 CTGTCTTCGA
Statistics
Matches: 205, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 3 0.01
177 202 0.99
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (177 bp):
ATAAGATTTGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAAAC
TGCTCTCTTGCTACCTCAGAGAGATAAGACCGGTGGCTAAAATCTACTCCATAGCCGAGACATGG
AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAG
Found at i:89844211 original size:64 final size:64
Alignment explanation
Indices: 89844105--89844227 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
89844095 TATCTATACT
* * *
89844105 TATGCCAAATAATTAGGATGCTATGATTGCAATGAATCAAATGCTCTTAACTAGATGTAATGCG
1 TATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTAATGCG
* *
89844169 TATGTCAAATAATTAGGATGTTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTA
1 TATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTA
89844228 TCATGAATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (64 bp):
TATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTAATGCG
Found at i:89845923 original size:32 final size:32
Alignment explanation
Indices: 89845882--89845993 Score: 97
Period size: 32 Copynumber: 3.6 Consensus size: 32
89845872 GAGAATATTG
*
89845882 TTTTAATAAATTTAATATTTTATCTAGATAGTA
1 TTTT-ATAAATTTAATATTTTATCTAGATAATA
* * *
89845915 TTTTATAAATTTAATATTGATAT-GAGATATTA
1 TTTTATAAATTTAATATT-TTATCTAGATAATA
** * *
89845947 AATT-T-AATTTAATA-GTTATCTTGATAATA
1 TTTTATAAATTTAATATTTTATCTAGATAATA
*
89845976 TTTTATTAATTTAATATT
1 TTTTATAAATTTAATATT
89845994 AATGTAATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
28 3 0.05
29 8 0.13
30 10 0.16
31 10 0.16
32 23 0.38
33 7 0.11
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (32 bp):
TTTTATAAATTTAATATTTTATCTAGATAATA
Found at i:89846684 original size:32 final size:32
Alignment explanation
Indices: 89846643--89846754 Score: 97
Period size: 32 Copynumber: 3.6 Consensus size: 32
89846633 GAGAATATTG
*
89846643 TTTTAATAAATTTAATATTTTATCTAGATAGTA
1 TTTT-ATAAATTTAATATTTTATCTAGATAATA
* * *
89846676 TTTTATAAATTTAATATTGATAT-GAGATATTA
1 TTTTATAAATTTAATATT-TTATCTAGATAATA
** * *
89846708 AATT-T-AATTTAATA-GTTATCTTGATAATA
1 TTTTATAAATTTAATATTTTATCTAGATAATA
*
89846737 TTTTATTAATTTAATATT
1 TTTTATAAATTTAATATT
89846755 AATGTAATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
28 3 0.05
29 8 0.13
30 10 0.16
31 10 0.16
32 23 0.38
33 7 0.11
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (32 bp):
TTTTATAAATTTAATATTTTATCTAGATAATA
Found at i:89846781 original size:761 final size:761
Alignment explanation
Indices: 89845320--89846841 Score: 3035
Period size: 761 Copynumber: 2.0 Consensus size: 761
89845310 GGCAAAACTG
89845320 CCTCCATCCCATAAACTAACGAGAAATATGTTGCCCCAGTAGAAGTACTGACCGACGTTCGATAG
1 CCTCCATCCCATAAACTAACGAGAAATATGTTGCCCCAGTAGAAGTACTGACCGACGTTCGATAG
89845385 GCATAGAGAGCAAATGGTAGCTTTTCATGCCAATCCTTGTAGGTCTCAGCCATTTTTCCCACGAT
66 GCATAGAGAGCAAATGGTAGCTTTTCATGCCAATCCTTGTAGGTCTCAGCCATTTTTCCCACGAT
89845450 CCTCTTTATATTTTTATTAGCCGCCTCAACTGCATATGTAATTCATGTGCTTTGATATAAGTGAA
131 CCTCTTTATATTTTTATTAGCCGCCTCAACTGCATATGTAATTCATGTGCTTTGATATAAGTGAA
89845515 AGCTTATGCTTTAAAGATGATTGAGCCAATAATCGACTAGTTAGGTACATGACTTGTGTACGGGT
196 AGCTTATGCTTTAAAGATGATTGAGCCAATAATCGACTAGTTAGGTACATGACTTGTGTACGGGT
89845580 CTTGTGTACAAAATTAGGTCGATGGTCCAACTGGTAGCTAGACCGGATCGATTGGGTCGTCACTT
261 CTTGTGTACAAAATTAGGTCGATGGTCCAACTGGTAGCTAGACCGGATCGATTGGGTCGTCACTT
89845645 ATTGAAACCAAATCGGCCAGGCCCATTTGGGCAAAGCGAAAACGATTCAGGGTGCCAGGAGGAAG
326 ATTGAAACCAAATCGGCCAGGCCCATTTGGGCAAAGCGAAAACGATTCAGGGTGCCAGGAGGAAG
89845710 TTGTGCAGACGATGGCATCGCCAAGCACAGAGACTGCGACAATGGCGACCCGACAGCCGTTGAAT
391 TTGTGCAGACGATGGCATCGCCAAGCACAGAGACTGCGACAATGGCGACCCGACAGCCGTTGAAT
89845775 TGTCAACGGCGACGGTTCTTGGCGGTAGAGTAGTGGAAAAATCATACTCCTAGTGGGACTCTACC
456 TGTCAACGGCGACGGTTCTTGGCGGTAGAGTAGTGGAAAAATCATACTCCTAGTGGGACTCTACC
89845840 AAGTAATTTGATTTCAAATTAACTTTTCTAAAGAGAATATTGTTTTAATAAATTTAATATTTTAT
521 AAGTAATTTGATTTCAAATTAACTTTTCTAAAGAGAATATTGTTTTAATAAATTTAATATTTTAT
89845905 CTAGATAGTATTTTATAAATTTAATATTGATATGAGATATTAAATTTAATTTAATAGTTATCTTG
586 CTAGATAGTATTTTATAAATTTAATATTGATATGAGATATTAAATTTAATTTAATAGTTATCTTG
89845970 ATAATATTTTATTAATTTAATATTAATGTAATTAATTCTAATCCTAGTTAAATTCTCTCTAAACT
651 ATAATATTTTATTAATTTAATATTAATGTAATTAATTCTAATCCTAGTTAAATTCTCTCTAAACT
89846035 CTCCCTATATAAAGATAACTTCGGTTATTATTCTCAAACATTTGAA
716 CTCCCTATATAAAGATAACTTCGGTTATTATTCTCAAACATTTGAA
89846081 CCTCCATCCCATAAACTAACGAGAAATATGTTGCCCCAGTAGAAGTACTGACCGACGTTCGATAG
1 CCTCCATCCCATAAACTAACGAGAAATATGTTGCCCCAGTAGAAGTACTGACCGACGTTCGATAG
89846146 GCATAGAGAGCAAATGGTAGCTTTTCATGCCAATCCTTGTAGGTCTCAGCCATTTTTCCCACGAT
66 GCATAGAGAGCAAATGGTAGCTTTTCATGCCAATCCTTGTAGGTCTCAGCCATTTTTCCCACGAT
89846211 CCTCTTTATATTTTTATTAGCCGCCTCAACTGCATATGTAATTCATGTGCTTTGATATAAGTGAA
131 CCTCTTTATATTTTTATTAGCCGCCTCAACTGCATATGTAATTCATGTGCTTTGATATAAGTGAA
89846276 AGCTTATGCTTTAAAGATGATTGAGCCAATAATCGACTAGTTAGGTACATGACTTGTGTACGGGT
196 AGCTTATGCTTTAAAGATGATTGAGCCAATAATCGACTAGTTAGGTACATGACTTGTGTACGGGT
*
89846341 CTTGTGTACGAAATTAGGTCGATGGTCCAACTGGTAGCTAGACCGGATCGATTGGGTCGTCACTT
261 CTTGTGTACAAAATTAGGTCGATGGTCCAACTGGTAGCTAGACCGGATCGATTGGGTCGTCACTT
89846406 ATTGAAACCAAATCGGCCAGGCCCATTTGGGCAAAGCGAAAACGATTCAGGGTGCCAGGAGGAAG
326 ATTGAAACCAAATCGGCCAGGCCCATTTGGGCAAAGCGAAAACGATTCAGGGTGCCAGGAGGAAG
89846471 TTGTGCAGACGATGGCATCGCCAAGCACAGAGACTGCGACAATGGCGACCCGACAGCCGTTGAAT
391 TTGTGCAGACGATGGCATCGCCAAGCACAGAGACTGCGACAATGGCGACCCGACAGCCGTTGAAT
89846536 TGTCAACGGCGACGGTTCTTGGCGGTAGAGTAGTGGAAAAATCATACTCCTAGTGGGACTCTACC
456 TGTCAACGGCGACGGTTCTTGGCGGTAGAGTAGTGGAAAAATCATACTCCTAGTGGGACTCTACC
89846601 AAGTAATTTGATTTCAAATTAACTTTTCTAAAGAGAATATTGTTTTAATAAATTTAATATTTTAT
521 AAGTAATTTGATTTCAAATTAACTTTTCTAAAGAGAATATTGTTTTAATAAATTTAATATTTTAT
89846666 CTAGATAGTATTTTATAAATTTAATATTGATATGAGATATTAAATTTAATTTAATAGTTATCTTG
586 CTAGATAGTATTTTATAAATTTAATATTGATATGAGATATTAAATTTAATTTAATAGTTATCTTG
89846731 ATAATATTTTATTAATTTAATATTAATGTAATTAATTCTAATCCTAGTTAAATTCTCTCTAAACT
651 ATAATATTTTATTAATTTAATATTAATGTAATTAATTCTAATCCTAGTTAAATTCTCTCTAAACT
89846796 CTCCCTATATAAAGATAACTTCGGTTATTATTCTCAAACATTTGAA
716 CTCCCTATATAAAGATAACTTCGGTTATTATTCTCAAACATTTGAA
89846842 TTTAAGAAAA
Statistics
Matches: 760, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
761 760 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (761 bp):
CCTCCATCCCATAAACTAACGAGAAATATGTTGCCCCAGTAGAAGTACTGACCGACGTTCGATAG
GCATAGAGAGCAAATGGTAGCTTTTCATGCCAATCCTTGTAGGTCTCAGCCATTTTTCCCACGAT
CCTCTTTATATTTTTATTAGCCGCCTCAACTGCATATGTAATTCATGTGCTTTGATATAAGTGAA
AGCTTATGCTTTAAAGATGATTGAGCCAATAATCGACTAGTTAGGTACATGACTTGTGTACGGGT
CTTGTGTACAAAATTAGGTCGATGGTCCAACTGGTAGCTAGACCGGATCGATTGGGTCGTCACTT
ATTGAAACCAAATCGGCCAGGCCCATTTGGGCAAAGCGAAAACGATTCAGGGTGCCAGGAGGAAG
TTGTGCAGACGATGGCATCGCCAAGCACAGAGACTGCGACAATGGCGACCCGACAGCCGTTGAAT
TGTCAACGGCGACGGTTCTTGGCGGTAGAGTAGTGGAAAAATCATACTCCTAGTGGGACTCTACC
AAGTAATTTGATTTCAAATTAACTTTTCTAAAGAGAATATTGTTTTAATAAATTTAATATTTTAT
CTAGATAGTATTTTATAAATTTAATATTGATATGAGATATTAAATTTAATTTAATAGTTATCTTG
ATAATATTTTATTAATTTAATATTAATGTAATTAATTCTAATCCTAGTTAAATTCTCTCTAAACT
CTCCCTATATAAAGATAACTTCGGTTATTATTCTCAAACATTTGAA
Found at i:89855329 original size:3 final size:3
Alignment explanation
Indices: 89855321--89855420 Score: 51
Period size: 3 Copynumber: 33.3 Consensus size: 3
89855311 GTCCTTTTTG
* * * *
89855321 TTA TTA TTA TTA TTA TTA TTA CCCTA CTG TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * **
89855368 TTA CTA TT- TTC TTT TTA TTA TCA CTA TCA TTA TTA GCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
89855414 TCA TTA T
1 TTA TTA T
89855421 CTTTGTTAGT
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
2 3 0.04
3 67 0.93
5 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:89856063 original size:23 final size:23
Alignment explanation
Indices: 89856037--89856081 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
89856027 TATATACTAA
** *
89856037 ATATATATTTTTTATTTTTAATC
1 ATATATACATTTTAATTTTAATC
*
89856060 ATATTTACATTTTAATTTTAAT
1 ATATATACATTTTAATTTTAAT
89856082 TTTAATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATACATTTTAATTTTAATC
Found at i:89856149 original size:40 final size:40
Alignment explanation
Indices: 89856097--89856180 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
89856087 TATAAACATT
*
89856097 TTTTATTATATTTTCAATTTGTCTATTGTTTTAAGAATTG
1 TTTTAGTATATTTTCAATTTGTCTATTGTTTTAAGAATTG
** * * * *
89856137 TTTTAGTATATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAGTATATTTTCAATTTGTCTATTGTTTTAAGAATTG
89856177 TTTT
1 TTTT
89856181 TAATGTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.20, C:0.04, G:0.10, T:0.67
Consensus pattern (40 bp):
TTTTAGTATATTTTCAATTTGTCTATTGTTTTAAGAATTG
Found at i:89857394 original size:42 final size:42
Alignment explanation
Indices: 89857347--89857430 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
89857337 GACCAGTTTA
* *
89857347 CTTTTGGATCTAACCTACAGGGATTAATTTATCAATTTTTTT
1 CTTTTGAATCTAACCTACAAGGATTAATTTATCAATTTTTTT
*
89857389 CTTTTGAATCTAACTTACAAGGATTAATTTATCAATTTTTTT
1 CTTTTGAATCTAACCTACAAGGATTAATTTATCAATTTTTTT
89857431 AGTGGCGCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (42 bp):
CTTTTGAATCTAACCTACAAGGATTAATTTATCAATTTTTTT
Found at i:89859415 original size:129 final size:129
Alignment explanation
Indices: 89859252--89859641 Score: 674
Period size: 129 Copynumber: 3.0 Consensus size: 129
89859242 TCTCATTACA
89859252 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
*
89859317 AATTTTAATAATGTATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
*
89859381 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTTATTT
1 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* *
89859446 AATTTTAATAATGCATACTTTATCTGGATGAAGTATGCATTAGCAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
*
89859510 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* * * **
89859575 AAGTTTAATAATGCATACTTTAGCCTGAAAAAG-AGTGTATTAGCAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTATCCGGATGAAGTA-TGTATTAGCAGATTCACTAATATGATTAT
89859639 ATA
1 ATA
89859642 TATTTACGAA
Statistics
Matches: 247, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
128 1 0.00
129 246 1.00
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (129 bp):
ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
AATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
Found at i:89860151 original size:8 final size:8
Alignment explanation
Indices: 89860140--89860165 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
89860130 ATTAATTATT
89860140 TAAAAATA
1 TAAAAATA
89860148 TAAAAATA
1 TAAAAATA
89860156 TAAAAATA
1 TAAAAATA
89860164 TA
1 TA
89860166 TAATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
TAAAAATA
Found at i:89860183 original size:16 final size:16
Alignment explanation
Indices: 89860137--89860184 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
89860127 TTAATTAATT
* *
89860137 ATTTAAAAATATAAAA
1 ATTTAAAAATATTATA
*
89860153 ATATAAAAATA-TATA
1 ATTTAAAAATATTATA
*
89860168 ATTTAAAATTATTATA
1 ATTTAAAAATATTATA
89860184 A
1 A
89860185 ATTATAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAAATATTATA
Found at i:89862471 original size:19 final size:18
Alignment explanation
Indices: 89862444--89862479 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89862434 AAGCATAAAA
89862444 ATAACACTAAACAAAATAT
1 ATAACACT-AACAAAATAT
*
89862463 ATAATACTAACAAAATA
1 ATAACACTAACAAAATA
89862480 ATATTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAACACTAACAAAATAT
Found at i:89862808 original size:17 final size:18
Alignment explanation
Indices: 89862786--89862829 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
89862776 GCTCCTCTTT
89862786 TTTTTTTAA-ACAGTTTA
1 TTTTTTTAATACAGTTTA
89862803 TTTTTTTAATACAGTTTA
1 TTTTTTTAATACAGTTTA
89862821 TTTTTTTAA
1 TTTTTTTAA
89862830 CTAATTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTTTTAATACAGTTTA
Found at i:89862808 original size:18 final size:19
Alignment explanation
Indices: 89862785--89862827 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 19
89862775 CGCTCCTCTT
89862785 TTTTTTTTAA-ACAGTTTA
1 TTTTTTTTAATACAGTTTA
89862803 -TTTTTTTAATACAGTTTA
1 TTTTTTTTAATACAGTTTA
89862821 TTTTTTT
1 TTTTTTT
89862828 AACTAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 8 0.35
19 6 0.26
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTTTAATACAGTTTA
Found at i:89865226 original size:141 final size:141
Alignment explanation
Indices: 89864919--89865524 Score: 784
Period size: 141 Copynumber: 4.3 Consensus size: 141
89864909 CAAAACAGTG
* * * * * *
89864919 CTAAGACGACA-TTTATGGGGCGACACTTTCCTAACTATTAGGATAGACTAGCCAACATACACTT
1 CTAAGACGACACTTT-TGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTT
* * * *
89864983 TGGCCAGCTCTTTGTATAAGGGTTGGGACATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGC
65 TGGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGC
*
89865048 -TTTGTCTAGTC
130 TTTTGTGTAGTC
89865059 CTAAGACGACACTTTTGGGGCTGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTT
1 CTAAGACGACACTTTTGGGGC-GACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTT
* * *
89865124 TGGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCTTAAGGCGACGCTTGAATAAGAGTTGGC
65 TGGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGC
*
89865189 TTTTGTATAGTC
130 TTTTGTGTAGTC
* * * **
89865201 CTAAGACGACACTTTTGTGACGACACTTTCCTAAGTGTTGGGATAGAGTTGCAAACATATGCTTT
1 CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTTT
* *
89865266 GGGCAACTCTTTGTATAAGGGTTGGAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
89865331 TTTGTGTAGTC
131 TTTGTGTAGTC
* * * *
89865342 CTAAGACAACACTTTTGTGGTGACACTTTCCTAAGTGTT--G-T-GA--T-AG-AC-TACACTTT
1 CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTTT
* *
89865398 AGCCAACTCTTTATATATATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTT
66 GGCCAACTC--T-T-TGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTT
*
89865463 AGCTTTTGTGTAGTC
127 GGCTTTTGTGTAGTC
* * * *
89865478 CTAAGATGCCACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGA
1 CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGA
89865525 CTATGCTTTA
Statistics
Matches: 414, Mismatches: 41, Indels: 22
0.87 0.09 0.05
Matches are distributed among these distances:
132 13 0.03
133 2 0.00
134 1 0.00
135 2 0.00
136 95 0.23
137 2 0.00
138 2 0.00
139 2 0.00
140 19 0.05
141 247 0.60
142 29 0.07
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (141 bp):
CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTTT
GGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
TTTGTGTAGTC
Found at i:89865476 original size:136 final size:136
Alignment explanation
Indices: 89865279--89865550 Score: 436
Period size: 136 Copynumber: 2.0 Consensus size: 136
89865269 CAACTCTTTG
*
89865279 TATAAGGGTTGGAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCT
1 TATAAGGGTTGGAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTTGTGTAGTCCT
* ** *
89865344 AAGACAACACTTTTGTGGTGACACTTTCCTAAGTGTTGTGATAGACTACACTTTAGCCAACTCTT
66 AAGACAACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTACACTTTAGCCAACTCTT
89865409 TATATA
131 TATATA
*
89865415 TATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTTGTGTAGTCCT
1 TATAAGGGTTGGAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTTGTGTAGTCCT
*** **
89865480 AAGATGCCACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTATGCTTTAGCCAACTCTT
66 AAGACAACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTACACTTTAGCCAACTCTT
*
89865545 TGTATA
131 TATATA
89865551 AGGGTTGAGA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
136 124 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (136 bp):
TATAAGGGTTGGAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTTGTGTAGTCCT
AAGACAACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTACACTTTAGCCAACTCTT
TATATA
Found at i:89866015 original size:37 final size:37
Alignment explanation
Indices: 89865981--89866067 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
89865971 ATGGTTTAAA
* *
89865981 ATTTCAGGGTTTTGTGTTTATGGATTTGGGGTTTAGG
1 ATTTTAGGGTTTTGTGATTATGGATTTGGGGTTTAGG
* * *
89866018 ATTTTAGGATTTTGTGATTATGGGTTTGGGTTTTAGG
1 ATTTTAGGGTTTTGTGATTATGGATTTGGGGTTTAGG
89866055 ATTTTAGGGTTTT
1 ATTTTAGGGTTTT
89866068 TTTAATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.15, C:0.01, G:0.32, T:0.52
Consensus pattern (37 bp):
ATTTTAGGGTTTTGTGATTATGGATTTGGGGTTTAGG
Found at i:89881344 original size:37 final size:36
Alignment explanation
Indices: 89881275--89881358 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
89881265 TGTCTATCGC
* *
89881275 AAGTTATCTTAGACGGGTTTATCCTAACCTTTTTTA
1 AAGTTATCTTAGACCGATTTATCCTAACCTTTTTTA
89881311 AAGGTTATCTTAGACACGATTTAT-CTCAA-CTTTTTTA
1 AA-GTTATCTTAGAC-CGATTTATCCT-AACCTTTTTTA
*
89881348 AATTTATCTTA
1 AAGTTATCTTA
89881359 ACATTTCTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 10 0.24
37 24 0.57
38 8 0.19
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (36 bp):
AAGTTATCTTAGACCGATTTATCCTAACCTTTTTTA
Found at i:89884884 original size:24 final size:23
Alignment explanation
Indices: 89884857--89884928 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
89884847 ACTATTAAGT
89884857 TTCTTTTTTTATTTATTCTTATTA
1 TTCTTTTTTTATTT-TTCTTATTA
* *
89884881 TTC-TTATTTA-TTTTCATTTTTA
1 TTCTTTTTTTATTTTTC-TTATTA
89884903 -TCTTTTTATTATTTTTACTTATTA
1 TTCTTTTT-TTATTTTT-CTTATTA
89884927 TT
1 TT
89884929 TTCCTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
21 5 0.13
22 10 0.26
23 9 0.24
24 12 0.32
25 2 0.05
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCTTTTTTTATTTTTCTTATTA
Found at i:89884901 original size:36 final size:37
Alignment explanation
Indices: 89884856--89884936 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 37
89884846 TACTATTAAG
* *
89884856 TTTCTTTTTTTAT-TTATTCTTATTATT-CTTATTTAT
1 TTTCATTTTTTATCTTATTATTATTATTACTTA-TTAT
* *
89884892 TTTCA-TTTTTATCTTTTTATTATTTTTACTTATTAT
1 TTTCATTTTTTATCTTATTATTATTATTACTTATTAT
*
89884928 TTTCCTTTT
1 TTTCATTTT
89884937 AAGTTACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
35 7 0.19
36 23 0.62
37 7 0.19
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (37 bp):
TTTCATTTTTTATCTTATTATTATTATTACTTATTAT
Found at i:89884927 original size:16 final size:16
Alignment explanation
Indices: 89884875--89884928 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
89884865 TTATTTATTC
* *
89884875 TTATTATTCTTATTTA
1 TTATTATTTTTACTTA
*
89884891 TT-TTCATTTTTATCTTT
1 TTATT-ATTTTTA-CTTA
89884908 TTATTATTTTTACTTA
1 TTATTATTTTTACTTA
89884924 TTATT
1 TTATT
89884929 TTCCTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 2 0.06
16 16 0.52
17 11 0.35
18 2 0.06
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTATTTTTACTTA
Found at i:89891602 original size:18 final size:17
Alignment explanation
Indices: 89891569--89891607 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
89891559 TTGTATAAAT
89891569 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
89891587 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
89891604 TGTG
1 TGTG
89891608 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:89891860 original size:23 final size:23
Alignment explanation
Indices: 89891833--89891930 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
89891823 AGTGTTATTG
89891833 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
89891856 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
89891879 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
89891901 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
89891924 ATCAGTG
1 ATCAGTG
89891931 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:89891899 original size:45 final size:45
Alignment explanation
Indices: 89891835--89891923 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
89891825 TGTTATTGAT
* *
89891835 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
89891880 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
89891924 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:89898965 original size:18 final size:17
Alignment explanation
Indices: 89898932--89898970 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
89898922 TTGTATAAAT
89898932 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
89898950 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
89898967 TGTG
1 TGTG
89898971 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:89899223 original size:23 final size:23
Alignment explanation
Indices: 89899196--89899294 Score: 180
Period size: 23 Copynumber: 4.3 Consensus size: 23
89899186 AGTGTTATTG
89899196 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
89899219 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
89899242 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
89899265 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
89899288 ATCAGTG
1 ATCAGTG
89899295 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:89902076 original size:46 final size:46
Alignment explanation
Indices: 89902016--89902319 Score: 327
Period size: 46 Copynumber: 7.0 Consensus size: 46
89902006 TTTGAAGTGA
* * * * * * *
89902016 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
** * * * *
89902062 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
89902108 TGCCATGGTATCTTTCAACCGTGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
89902154 TGCCATGGTATCTTTCAACCATTGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
89902200 TGTCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
89902238 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---CA-A--AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
89902276 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAG
89902320 AGAGCACATT
Statistics
Matches: 230, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
38 68 0.30
39 2 0.01
40 3 0.01
41 1 0.00
43 2 0.01
44 4 0.02
45 4 0.02
46 146 0.63
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
Found at i:89902246 original size:38 final size:38
Alignment explanation
Indices: 89902195--89902308 Score: 210
Period size: 38 Copynumber: 3.0 Consensus size: 38
89902185 CATCTCATAT
*
89902195 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
89902233 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
89902271 AAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
89902309 TTTCATATCA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:89905773 original size:53 final size:53
Alignment explanation
Indices: 89905644--89905798 Score: 199
Period size: 53 Copynumber: 2.9 Consensus size: 53
89905634 CACATATCAT
* * * *
89905644 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTATCACATTAC
* *
89905697 ACCGATGCCATAGCCCAGTTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTAC
* *
89905750 ACCGATGCCATAGCCCAGCTATGGTTTTAAACGG-GTGCAC-TTATCACAT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGT-CACATTATCACAT
89905799 ATTTTTCGTC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
52 11 0.12
53 80 0.88
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTAC
Found at i:89910121 original size:20 final size:20
Alignment explanation
Indices: 89910096--89910135 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89910086 GCAAAACAAA
* *
89910096 AGAGAATAAACAAACAATTT
1 AGAGAAAAAACAAAAAATTT
*
89910116 AGAGAAAAAAGAAAAAATTT
1 AGAGAAAAAACAAAAAATTT
89910136 TTAAGGTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (20 bp):
AGAGAAAAAACAAAAAATTT
Found at i:89914411 original size:19 final size:21
Alignment explanation
Indices: 89914389--89914428 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
89914379 AACTATTATG
89914389 ACAATATAAA-T-AAATTAAT
1 ACAATATAAACTAAAATTAAT
*
89914408 ACAATCTAAACTAAAATTAAT
1 ACAATATAAACTAAAATTAAT
89914429 TAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (21 bp):
ACAATATAAACTAAAATTAAT
Found at i:89920265 original size:90 final size:89
Alignment explanation
Indices: 89920160--89920406 Score: 231
Period size: 90 Copynumber: 2.8 Consensus size: 89
89920150 TTAAGGGTGT
* *
89920160 AAAAA-GCTCTCAAACTTCTTCAAAAAAAGCAATTAAGCCCTTATTTTTTTTTTACACTCAATTG
1 AAAAAGGCTCTCAAACTTATTCAAAAAAAGCAATTAAGCCCTT-TTTTTTTTTTGCACTCAATTG
* ***
89920224 GGTACTTGAACTTTTAAAATACATC
65 GGTACTTAAACTACCAAAATACATC
* * *
89920249 AAAAAGGCTCTTAAACTTAAT--AAAAAA--AATTAAGTCCCTACTTTTTCTTTTTTTGCATTCA
1 AAAAAGGCTCTCAAACTTATTCAAAAAAAGCAATTAAG--CC--CTTTTT-TTTTTTTGCACTCA
*
89920310 ATTGGGTATTTAAACTACCAAAATACATC
61 ATTGGGTACTTAAACTACCAAAATACATC
* * ** * * *
89920339 TAAAAGGCCCTCAAGGTTTTTCAAAAAAAGCAATTAA--TC-TCTTTTTTTTTGCACTCAATTGG
1 AAAAAGGCTCTCAAACTTATTCAAAAAAAGCAATTAAGCCCTTTTTTTTTTTTGCACTCAATTGG
89920401 GTACTT
66 GTACTT
89920407 TAACAGTTGA
Statistics
Matches: 127, Mismatches: 21, Indels: 23
0.74 0.12 0.13
Matches are distributed among these distances:
86 30 0.24
87 3 0.02
88 9 0.07
89 8 0.06
90 65 0.51
92 6 0.05
94 6 0.05
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (89 bp):
AAAAAGGCTCTCAAACTTATTCAAAAAAAGCAATTAAGCCCTTTTTTTTTTTTGCACTCAATTGG
GTACTTAAACTACCAAAATACATC
Found at i:89920637 original size:20 final size:19
Alignment explanation
Indices: 89920585--89920640 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
89920575 ATATATATAA
**
89920585 ATAAAAAAATATAAAATTTT
1 ATAAAAAAATA-AAAAAATT
*
89920605 ATAAAAATCATAAAAAAATT
1 ATAAAAA-AATAAAAAAATT
89920625 ATAAAAAGAATAAAAA
1 ATAAAAA-AATAAAAA
89920641 GGCCCTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAAAAAAATAAAAAAATT
Found at i:89920824 original size:9 final size:9
Alignment explanation
Indices: 89920810--89920865 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
89920800 TTTTGGTATG
89920810 ATAATTTTT
1 ATAATTTTT
89920819 ATAATTTTTTT
1 ATAA--TTTTT
*
89920830 ATAAATTTT
1 ATAATTTTT
*
89920839 ATATTTCTTT
1 ATAATT-TTT
*
89920849 ATATTTTTT
1 ATAATTTTT
89920858 ATAATTTT
1 ATAATTTT
89920866 CTTACGACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 22 0.55
10 9 0.22
11 9 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
ATAATTTTT
Found at i:89920857 original size:19 final size:19
Alignment explanation
Indices: 89920810--89920860 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
89920800 TTTTGGTATG
*
89920810 ATAATTTTTATAATTTTTTT
1 ATAATTTTTAT-ATTTCTTT
*
89920830 ATAAATTTTATATTTCTTT
1 ATAATTTTTATATTTCTTT
*
89920849 ATATTTTTTATA
1 ATAATTTTTATA
89920861 ATTTTCTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATAATTTTTATATTTCTTT
Found at i:89932249 original size:26 final size:25
Alignment explanation
Indices: 89932220--89932292 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
89932210 TTTCAACCTT
89932220 TTTTAAATTTGTTATTTATTTATTCA
1 TTTTAAATTT-TTATTTATTTATTCA
* *
89932246 TTTTAATAGTTTTATATA-TTATTCA
1 TTTTAA-ATTTTTATTTATTTATTCA
89932271 TTTTAAACTATTTTATTTATTT
1 TTTTAAA-T-TTTTATTTATTT
89932293 TAAATTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.33
26 20 0.51
27 5 0.13
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTAAATTTTTATTTATTTATTCA
Found at i:89932304 original size:44 final size:44
Alignment explanation
Indices: 89932238--89932371 Score: 117
Period size: 44 Copynumber: 2.9 Consensus size: 44
89932228 TTGTTATTTA
* * *
89932238 TTTATTCATTTTAATAGTTTTATATATTATTCATTTTAAACT-AT
1 TTTATTTATTTTAA-ATTTTTATATATTATTTATTTTAAACTGAT
* * * *
89932282 TTTATTTATTTTAAATTCTTTATACACTATTTATATTAAACTGCT
1 TTTATTTATTTTAAATT-TTTATATATTATTTATTTTAAACTGAT
*
89932327 TTATATTATTCATTTTAAATTGTTTTAGATATTATTTATTTTAAA
1 TT-TA-T-TT-ATTTTAAA-T-TTTTATATATTATTTATTTTAAA
89932372 TTGTTTCATA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.03
44 33 0.46
45 3 0.04
46 2 0.03
47 1 0.01
48 2 0.03
49 8 0.11
50 19 0.27
51 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (44 bp):
TTTATTTATTTTAAATTTTTATATATTATTTATTTTAAACTGAT
Found at i:89932367 original size:26 final size:26
Alignment explanation
Indices: 89932283--89932578 Score: 200
Period size: 26 Copynumber: 11.5 Consensus size: 26
89932273 TTAAACTATT
*
89932283 TTATTTATTTTAAATT-CTTTATACA
1 TTATTTATTTTAAATTGCTTTATATA
* * *
89932308 CTATTTATATTAAACTGC-TT-TATA
1 TTATTTATTTTAAATTGCTTTATATA
* * *
89932332 TTATTCATTTTAAATTGTTTTAGATA
1 TTATTTATTTTAAATTGCTTTATATA
*
89932358 TTATTTATTTTAAATTGTTTCATATATA
1 TTATTTATTTTAAATTGCTT--TATATA
* *
89932386 TTATTTATTTTGAACTGCTTTATATA
1 TTATTTATTTTAAATTGCTTTATATA
*
89932412 TTATTTTATTTTAAA--ACTGTTATATA
1 TTA-TTTATTTTAAATTGCT-TTATATA
* * **
89932438 GTATTTATTTTAGATTTTTTTATTACATA
1 TTATTTATTTTAAATTGCTTTA-T--ATA
* * *
89932467 TTATTTCTTTTAAAAATGCTGTATATA
1 TTATTTATTTT-AAATTGCTTTATATA
*
89932494 TTATTTATTTTAAATTGC-TT-TAGA
1 TTATTTATTTTAAATTGCTTTATATA
* ** * * *
89932518 TTATTTATTTCAAACGGTTTTGTATT
1 TTATTTATTTTAAATTGCTTTATATA
*
89932544 TTATTTATGTT-AATT--TTT-TATA
1 TTATTTATTTTAAATTGCTTTATATA
*
89932566 TTGTTTATTTTAA
1 TTATTTATTTTAA
89932579 CCATTTTTTA
Statistics
Matches: 210, Mismatches: 45, Indels: 34
0.73 0.16 0.12
Matches are distributed among these distances:
22 12 0.06
23 4 0.02
24 33 0.16
25 34 0.16
26 61 0.29
27 25 0.12
28 22 0.10
29 13 0.06
30 6 0.03
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGCTTTATATA
Found at i:89932437 original size:54 final size:50
Alignment explanation
Indices: 89932239--89932578 Score: 204
Period size: 54 Copynumber: 6.8 Consensus size: 50
89932229 TGTTATTTAT
* * * *
89932239 TTATTCATTTTAATAGTTTTATATATTATTCATTTTAAA---C-TAT-T-
1 TTATTTATTTTAATTGCTTTATATATTATTTATTTTAAACTGCTTATATA
* * *
89932283 TTATTTATTTTAAATT-CTTTATACACTATTTATATTAAACTGCTT-TATA
1 TTATTTATTTT-AATTGCTTTATATATTATTTATTTTAAACTGCTTATATA
* * * * *
89932332 TTATTCATTTTAAATTGTTTTAGATATTATTTATTTTAAATTGTTTCATATATA
1 TTATTTATTTT-AATTGCTTTATATATTATTTATTTTAAACTG---CTTATATA
*
89932386 TTATTTATTTTGAACTGCTTTATATATTATTTTATTTTAAAACTG-TTATATA
1 TTATTTATTTT-AATTGCTTTATATATTA-TTTATTTT-AAACTGCTTATATA
* ** * *
89932438 GTATTTATTTTAGATTTTTTTATTACATATTATTTCTTTTAAAAATGCTGTATATA
1 TTATTTATTTTA-ATTGCTTTA-T--ATATTATTTATTTT-AAACTGCT-TATATA
* * * * * *
89932494 TTATTTATTTTAAATTGC-TT-TAGATTATTTATTTCAAACGGTTTTGTATT
1 TTATTTATTTT-AATTGCTTTATATATTATTTATTTTAAACTG-CTTATATA
* *
89932544 TTATTTATGTTAATT--TTT-TATATTGTTTATTTTAA
1 TTATTTATTTTAATTGCTTTATATATTATTTATTTTAA
89932579 CCATTTTTTA
Statistics
Matches: 230, Mismatches: 43, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
44 28 0.12
45 3 0.01
47 2 0.01
48 18 0.08
49 19 0.08
50 38 0.17
51 13 0.06
52 22 0.10
53 4 0.02
54 41 0.18
55 17 0.07
56 24 0.10
57 1 0.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (50 bp):
TTATTTATTTTAATTGCTTTATATATTATTTATTTTAAACTGCTTATATA
Found at i:89932449 original size:80 final size:78
Alignment explanation
Indices: 89932284--89932527 Score: 216
Period size: 80 Copynumber: 3.1 Consensus size: 78
89932274 TAAACTATTT
* * * * *
89932284 TATTTATTTTAAATTCTT-TATACACTATTTATATTAAACTGC-TT-TATATTATTCATTTT-AA
1 TATTTATTTTAAATTTTTATATATATTATTTATTTTAAACTGCTTTATATATTATTTATTTTAAA
* *
89932345 ATTGTTTTAGATAT
66 ACTG-TTTAGATAG
*
89932359 TATTTATTTTAAATTGTTTCATATATATTATTTATTTTGAACTGCTTTATATATTATTTTATTTT
1 TATTTATTTTAAATT-TTT-ATATATATTATTTATTTTAAACTGCTTTATATATTA-TTTATTTT
*
89932424 AAAACTG-TTATATAG
63 AAAACTGTTTAGATAG
* * * * *
89932439 TATTTATTTTAGATTTTTTTATTACATATTATTTCTTTTAAAAATGCTGTATATATTATTTATTT
1 TATTTATTTTA-A-ATTTTTA-TATATATTATTTATTTT-AAACTGCTTTATATATTATTTATTT
*
89932504 T-AAATTGCTTTAGAT--
62 TAAAACTG-TTTAGATAG
89932519 TATTTATTT
1 TATTTATTT
89932528 CAAACGGTTT
Statistics
Matches: 139, Mismatches: 17, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
75 15 0.11
76 2 0.01
78 20 0.14
79 2 0.01
80 39 0.28
81 34 0.24
82 27 0.19
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (78 bp):
TATTTATTTTAAATTTTTATATATATTATTTATTTTAAACTGCTTTATATATTATTTATTTTAAA
ACTGTTTAGATAG
Found at i:89932560 original size:22 final size:22
Alignment explanation
Indices: 89932535--89932578 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
89932525 TTTCAAACGG
*
89932535 TTTTGTATTTTATTTATGTTAA
1 TTTTGTATATTATTTATGTTAA
* * *
89932557 TTTTTTATATTGTTTATTTTAA
1 TTTTGTATATTATTTATGTTAA
89932579 CCATTTTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTGTATATTATTTATGTTAA
Found at i:89934531 original size:29 final size:29
Alignment explanation
Indices: 89934462--89934536 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
89934452 AACATATGTA
*
89934462 TGACCAAAATATTAAATTTAATAACGTTAG
1 TGACCAAAATA-AAAATTTAATAACGTTAG
* *
89934492 TGACTAAAATAGAAAATTTTA-AAC-TTAAG
1 TGACCAAAATA-AAAATTTAATAACGTT-AG
89934521 TGACCAAAATAAAAAT
1 TGACCAAAATAAAAAT
89934537 ACACTAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 7 0.18
29 15 0.38
30 17 0.44
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.29
Consensus pattern (29 bp):
TGACCAAAATAAAAATTTAATAACGTTAG
Found at i:89935431 original size:5 final size:5
Alignment explanation
Indices: 89935421--89935447 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
89935411 TTGCATTTTA
89935421 CATAC CATAC CATAC CATAC CATAC CA
1 CATAC CATAC CATAC CATAC CATAC CA
89935448 CTTTACAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (5 bp):
CATAC
Found at i:89939907 original size:14 final size:14
Alignment explanation
Indices: 89939888--89939914 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89939878 ACAAACTGGG
89939888 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
89939902 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
89939915 TAAGACTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:89941092 original size:17 final size:16
Alignment explanation
Indices: 89941070--89941105 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
89941060 ATTATAAAAA
89941070 TATATTTAATAATTTTT
1 TATATTTAA-AATTTTT
*
89941087 TATATTTTAAATTTTT
1 TATATTTAAAATTTTT
89941103 TAT
1 TAT
89941106 TCATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATTTAAAATTTTT
Found at i:89946689 original size:6 final size:6
Alignment explanation
Indices: 89946678--89946706 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
89946668 AGGTGGATTG
89946678 AGAATT AGAATT AGAATT AGAATT AGAAT
1 AGAATT AGAATT AGAATT AGAATT AGAAT
89946707 CCCACTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (6 bp):
AGAATT
Found at i:89948061 original size:31 final size:32
Alignment explanation
Indices: 89948021--89948088 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
89948011 GACTAATATG
* *
89948021 TCTATTTTTTAAGTAAAAAG-ACAAAATACAA
1 TCTAATTTTTAACTAAAAAGAACAAAATACAA
*
89948052 TCTAATTTTTAACTAAAAAGAATAAAATACAA
1 TCTAATTTTTAACTAAAAAGAACAAAATACAA
89948084 TCTAA
1 TCTAA
89948089 CTCCTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.32
Consensus pattern (32 bp):
TCTAATTTTTAACTAAAAAGAACAAAATACAA
Found at i:89948507 original size:13 final size:12
Alignment explanation
Indices: 89948491--89948537 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
89948481 TTTATTTTTG
89948491 TATTGTTTTTTAA
1 TATT-TTTTTTAA
*
89948504 TATTTATTTTT-G
1 TATTT-TTTTTAA
89948516 TATTGTTTTTTAA
1 TATT-TTTTTTAA
89948529 TATTTTTTT
1 TATTTTTTT
89948538 CAAAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 15 0.52
13 14 0.48
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TATTTTTTTTAA
Found at i:89948507 original size:25 final size:25
Alignment explanation
Indices: 89948479--89948537 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
89948469 TAGTGAGTTG
89948479 TATTTATTTTTGTATTGTTTTTTAA
1 TATTTATTTTTGTATTGTTTTTTAA
89948504 TATTTATTTTTGTATTGTTTTTTAA
1 TATTTATTTTTGTATTGTTTTTTAA
89948529 TATTT-TTTT
1 TATTTATTTT
89948538 CAAAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.75
Consensus pattern (25 bp):
TATTTATTTTTGTATTGTTTTTTAA
Found at i:89948526 original size:12 final size:12
Alignment explanation
Indices: 89948476--89948519 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
89948466 TTTTAGTGAG
89948476 TTGTATTTATTT
1 TTGTATTTATTT
89948488 TTGTATTGT-TTT
1 TTGTATT-TATTT
*
89948500 TTAATATTTATTT
1 TT-GTATTTATTT
89948513 TTGTATT
1 TTGTATT
89948520 GTTTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (12 bp):
TTGTATTTATTT
Found at i:89953441 original size:12 final size:13
Alignment explanation
Indices: 89953418--89953446 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
89953408 CAAATGAATA
89953418 ATTTCTCATTTCC
1 ATTTCTCATTTCC
89953431 ATTTC-CATTTCC
1 ATTTCTCATTTCC
89953443 ATTT
1 ATTT
89953447 TGAGAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTCTCATTTCC
Found at i:89953509 original size:43 final size:45
Alignment explanation
Indices: 89953433--89953535 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 45
89953423 TCATTTCCAT
**
89953433 TTCCA-TT-TCCATTTTGAGAAAACCACATTCATTTCCAAATG-A
1 TTCCATTTCTCCATTTTGAGAAAACCACAACCATTTCCAAATGTA
* *
89953475 TTCCATTTCTCCATTTTG-GAAAA-CATCAACCATTTCTAAATGTT
1 TTCCATTTCTCCATTTTGAGAAAACCA-CAACCATTTCCAAATGTA
* *
89953519 TTACATTTCTTCATTTT
1 TTCCATTTCTCCATTTT
89953536 TATTCATTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 7 0.14
43 20 0.39
44 24 0.47
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (45 bp):
TTCCATTTCTCCATTTTGAGAAAACCACAACCATTTCCAAATGTA
Found at i:89958042 original size:14 final size:14
Alignment explanation
Indices: 89958025--89958063 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
89958015 TATACATTGT
*
89958025 TTTATTTAATAATA
1 TTTATTTAATAAAA
*
89958039 TTTATTTCATAAAA
1 TTTATTTAATAAAA
89958053 TTTA-TTAATAA
1 TTTATTTAATAA
89958064 CTTTCCATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTATTTAATAAAA
Found at i:89958574 original size:13 final size:13
Alignment explanation
Indices: 89958556--89958586 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
89958546 CACCATCCAT
89958556 CTCTGATCTTGAC
1 CTCTGATCTTGAC
89958569 CTCTGATCTTGAC
1 CTCTGATCTTGAC
*
89958582 TTCTG
1 CTCTG
89958587 TTGATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (13 bp):
CTCTGATCTTGAC
Found at i:89969863 original size:14 final size:14
Alignment explanation
Indices: 89969844--89969873 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89969834 TGTTACCATT
89969844 TTACTATTATATTG
1 TTACTATTATATTG
*
89969858 TTACTATTTTATTG
1 TTACTATTATATTG
89969872 TT
1 TT
89969874 GTTGTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
TTACTATTATATTG
Found at i:89971602 original size:43 final size:42
Alignment explanation
Indices: 89971536--89971661 Score: 153
Period size: 43 Copynumber: 3.0 Consensus size: 42
89971526 AGGAGTTTCT
* * * *
89971536 GTTTAACCCTAATAGGTTTCCGTTCATCTCTTTTGAGCTTCA
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCA
*
89971578 GTTTAACCCTTATTGGGTTTCCGTTCAGCTCTTATGAGCTTCT
1 GTTTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGCTTCA
* * * * *
89971621 GTTAAACCCTTATGGGTTTCCATTTAGCACTTATGTGCTTC
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
89971662 TGTGCAGTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCA
Found at i:89971654 original size:42 final size:42
Alignment explanation
Indices: 89971532--89971664 Score: 167
Period size: 42 Copynumber: 3.1 Consensus size: 42
89971522 TCATAGGAGT
* * * *
89971532 TTCTGTTTAACCCTAATAGGTTTCCGTTCATCTCTTTTGAGC
1 TTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
*
89971574 TTCAGTTTAACCCTTATTGGGTTTCCGTTCAGCTCTTATGAGC
1 TTCTGTTTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGC
* * * * *
89971617 TTCTGTTAAACCCTTATGGGTTTCCATTTAGCACTTATGTGC
1 TTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
89971659 TTCTGT
1 TTCTGT
89971665 GCAGTCTTCA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 42 0.53
43 37 0.47
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
Found at i:89973871 original size:19 final size:20
Alignment explanation
Indices: 89973838--89973881 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
89973828 TGGTAATTTG
* *
89973838 AATTTTTTTAAAATATAATAT
1 AATTTTTTT-AAATAAAATAA
89973859 AATTTTTTT-AATAAAATAA
1 AATTTTTTTAAATAAAATAA
89973878 AATT
1 AATT
89973882 AACTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTTTTTAAATAAAATAA
Found at i:89983310 original size:40 final size:40
Alignment explanation
Indices: 89983266--89983363 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
89983256 TTACAGTACC
*
89983266 ACTTGGTGTGTAGGGTTGGATGAGTCGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGTTGGATGAGTCGACTTTATCCCCAT
* *
89983306 ACTTGGTGTGTAGGGCTGGATGGGTCGACTTTATCCCCAT
1 ACTTGGTGTGTAGGGTTGGATGAGTCGACTTTATCCCCAT
89983346 A--TGGTGTGTTA-GGTTGGA
1 ACTTGGTGTG-TAGGGTTGGA
89983364 CGGAGATGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
38 13 0.25
39 2 0.04
40 38 0.72
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGTTGGATGAGTCGACTTTATCCCCAT
Found at i:89995521 original size:21 final size:21
Alignment explanation
Indices: 89995496--89995548 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
89995486 CAACACATAA
89995496 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
89995517 GTGCCTGATACGACACACGAG
1 GTGCCTGAAATGACACACGAG
89995538 GTGCCTGAAAT
1 GTGCCTGAAAT
89995549 ACGACACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:89995550 original size:23 final size:23
Alignment explanation
Indices: 89995496--89995579 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
89995486 CAACACATAA
89995496 GTGCCTGAAAT--GACACACGAG
1 GTGCCTGAAATACGACACACGAG
89995517 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
** *
89995538 GTGCCTGAAATACGACACATAAA
1 GTGCCTGAAATACGACACACGAG
*
89995561 GTGCCTGATATACGACACA
1 GTGCCTGAAATACGACACA
89995580 TAAAGTGCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.04
21 24 0.44
23 29 0.53
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.17
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:89995555 original size:21 final size:21
Alignment explanation
Indices: 89995496--89995578 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
89995486 CAACACATAA
89995496 GTGCCTGAAATGAC-ACACGAG
1 GTGCCTGAAAT-ACGACACGAG
89995517 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACG--ACACGAG
* *
89995538 GTGCCTGAAATACGACACATAAA
1 GTGCCTGAAATACGACAC--GAG
*
89995561 GTGCCTGATATACGACAC
1 GTGCCTGAAATACGACAC
89995579 ATAAAGTGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
21 25 0.48
23 23 0.44
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (21 bp):
GTGCCTGAAATACGACACGAG
Found at i:89995565 original size:44 final size:43
Alignment explanation
Indices: 89995496--89995579 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
89995486 CAACACATAA
* *
89995496 GTGCCTGAAATGACACACGAGGTGCCTG-ATACGACACACGAG
1 GTGCCTGAAATGACACACAAAGTGCCTGAATACGACACACGAG
*
89995538 GTGCCTGAAATACGACACATAAAGTGCCTGATATACGACACA
1 GTGCCTGAAAT--GACACACAAAGTGCCTGA-ATACGACACA
89995580 TAAAGTGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 11 0.31
44 14 0.40
46 10 0.29
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.17
Consensus pattern (43 bp):
GTGCCTGAAATGACACACAAAGTGCCTGAATACGACACACGAG
Found at i:89995580 original size:23 final size:22
Alignment explanation
Indices: 89995488--89995587 Score: 98
Period size: 23 Copynumber: 4.6 Consensus size: 22
89995478 TCAGTGTGCA
*
89995488 ACACAT-AAGTGCCTGAA-ATG
1 ACACATAAAGTGCCTGAATACG
** *
89995508 ACACACGAGGTGCCTG-ATACG
1 ACACATAAAGTGCCTGAATACG
** *
89995529 ACACACGAGGTGCCTGAAATACG
1 ACACATAAAGTGCCTG-AATACG
89995552 ACACATAAAGTGCCTGATATACG
1 ACACATAAAGTGCCTGA-ATACG
89995575 ACACATAAAGTGC
1 ACACATAAAGTGC
89995588 TTGATCGGCA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.09
21 26 0.38
22 1 0.01
23 36 0.52
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (22 bp):
ACACATAAAGTGCCTGAATACG
Found at i:89996474 original size:14 final size:15
Alignment explanation
Indices: 89996441--89996473 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
89996431 TTGCGAATGG
89996441 CTTTTGCTATTCTTT
1 CTTTTGCTATTCTTT
89996456 CTTTTGCT-TTCTTT
1 CTTTTGCTATTCTTT
89996470 -TTTT
1 CTTTT
89996474 TATTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 6 0.33
15 8 0.44
ACGTcount: A:0.03, C:0.18, G:0.06, T:0.73
Consensus pattern (15 bp):
CTTTTGCTATTCTTT
Found at i:89996535 original size:12 final size:12
Alignment explanation
Indices: 89996520--89996547 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
89996510 GTTAATAATG
89996520 ATAATAATTATA
1 ATAATAATTATA
89996532 ATAATAATTATA
1 ATAATAATTATA
89996544 ATAA
1 ATAA
89996548 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:90003464 original size:32 final size:32
Alignment explanation
Indices: 90003421--90003481 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
90003411 AAATGAAGAT
* *
90003421 TAACTCTCTTTTTTATGTTTACGTTAAACTAA
1 TAACTCCCTTTTTTATATTTACGTTAAACTAA
*
90003453 TAACTCCCTTTTTTATATTTATGTTAAAC
1 TAACTCCCTTTTTTATATTTACGTTAAAC
90003482 CAATCACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (32 bp):
TAACTCCCTTTTTTATATTTACGTTAAACTAA
Found at i:90004105 original size:30 final size:30
Alignment explanation
Indices: 90004071--90004133 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
90004061 ACTTATTTTA
90004071 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
90004101 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
90004131 TTG
1 TTG
90004134 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:90011723 original size:5 final size:5
Alignment explanation
Indices: 90011700--90011755 Score: 55
Period size: 5 Copynumber: 11.6 Consensus size: 5
90011690 AAGTATTTGC
* * *
90011700 TTATA TTATAA GTAAA TTATA TTATA TTATA TTATA -T-TA TTATA ATATA
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
90011749 TTA-A TTA
1 TTATA TTA
90011756 AATAAAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
3 2 0.05
4 6 0.14
5 31 0.74
6 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
TTATA
Found at i:90011759 original size:13 final size:14
Alignment explanation
Indices: 90011717--90011759 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
90011707 ATAAGTAAAT
*
90011717 TATATTATATTATAT
1 TATATTA-ATTATAA
90011732 TATATT-ATTATAA
1 TATATTAATTATAA
90011745 TATATTAATTA-AA
1 TATATTAATTATAA
90011758 TA
1 TA
90011760 AAGGATGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 16 0.62
14 4 0.15
15 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTAATTATAA
Found at i:90011851 original size:20 final size:20
Alignment explanation
Indices: 90011826--90011864 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
90011816 TACGAATAGC
* *
90011826 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAAAAAAAAGGAAAA
90011846 AGGGAAAAAAAAAAGGAAA
1 AGGGAAAAAAAAAAGGAAA
90011865 TTTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGGGAAAAAAAAAAGGAAAA
Found at i:90022511 original size:26 final size:25
Alignment explanation
Indices: 90022482--90022534 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
90022472 GATGGAATAC
* *
90022482 AAATTCAGGGACCAACTTAATAAAAA
1 AAATT-AGAGACCAACTAAATAAAAA
* *
90022508 AAATTAGAGATCAACTAAATACAAA
1 AAATTAGAGACCAACTAAATAAAAA
90022533 AA
1 AA
90022535 GATAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.19
Consensus pattern (25 bp):
AAATTAGAGACCAACTAAATAAAAA
Found at i:90030168 original size:37 final size:35
Alignment explanation
Indices: 90030118--90030187 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
90030108 ATTCCAAAAA
*
90030118 AATATTATTTTAATAGT-TTAATATTAAATTTAATGT
1 AATATTATCTTAATAGTATT-ATATT-AATTTAATGT
*
90030154 AATACTTATCTTAATAGTATTTTATTAATTTAAT
1 AATA-TTATCTTAATAGTATTATATTAATTTAAT
90030188 ATTAAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 12 0.40
37 16 0.53
38 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (35 bp):
AATATTATCTTAATAGTATTATATTAATTTAATGT
Found at i:90030291 original size:20 final size:19
Alignment explanation
Indices: 90030266--90030306 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
90030256 TAATAAGATT
90030266 TAATATTAAATTTAATCTAA
1 TAATATTAAA-TTAATCTAA
* *
90030286 TAATATTATATTAATTTAA
1 TAATATTAAATTAATCTAA
90030305 TA
1 TA
90030307 TTAAAGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATATTAAATTAATCTAA
Found at i:90035496 original size:17 final size:18
Alignment explanation
Indices: 90035465--90035498 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90035455 TTAGATTTTA
*
90035465 TTATATTTATGTTTTATC
1 TTATATTTATATTTTATC
90035483 TTAT-TTTATATTTTAT
1 TTATATTTATATTTTAT
90035499 AATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATATTTATATTTTATC
Found at i:90036749 original size:49 final size:49
Alignment explanation
Indices: 90036672--90036778 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 49
90036662 ATTCACTGTG
* * * ** *
90036672 GTTATACGGTCATGGGTTGAAGTATAACTAGGGCTCCTAGTTGATAGTA
1 GTTATGCGGCCATGAGTTGAAGTATAACTAGGGAGCCTAGTTGACAGTA
* *
90036721 GTTATGCGGCCATGAGTTGGAGTATAACTCGGGAGCCTAGTTGACAGTA
1 GTTATGCGGCCATGAGTTGAAGTATAACTAGGGAGCCTAGTTGACAGTA
90036770 GTTATGCGG
1 GTTATGCGG
90036779 TCACGGTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (49 bp):
GTTATGCGGCCATGAGTTGAAGTATAACTAGGGAGCCTAGTTGACAGTA
Found at i:90037425 original size:49 final size:49
Alignment explanation
Indices: 90037321--90037425 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 49
90037311 ACCTATAACT
**
90037321 GTATAACCACCGTCAACTAGGGACCCAAGTTATACTTCAACCTGTGACC
1 GTATAACCACCGTCAACTAGGGACCCAAGTTATACTTCAACCCATGACC
* * *
90037370 GCATAACCACCGTCAACT-GGGAGCCCTAGTTATACTTCAACCCATGATC
1 GTATAACCACCGTCAACTAGGGA-CCCAAGTTATACTTCAACCCATGACC
90037419 GTATAAC
1 GTATAAC
90037426 AATCGTGAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
48 4 0.08
49 45 0.92
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (49 bp):
GTATAACCACCGTCAACTAGGGACCCAAGTTATACTTCAACCCATGACC
Found at i:90037444 original size:49 final size:49
Alignment explanation
Indices: 90037323--90037444 Score: 120
Period size: 49 Copynumber: 2.5 Consensus size: 49
90037313 CTATAACTGT
* * * **
90037323 ATAACCACCGTCAACTAG-GGACCCAAGTTATACTTCAACCTGTGACCGC
1 ATAACAACCGTCAACTAGAAG-CCCTAGTTATACTTCAACCCATGACCGC
* * * * *
90037372 ATAACCACCGTCAACTGGGAGCCCTAGTTATACTTCAACCCATGATCGT
1 ATAACAACCGTCAACTAGAAGCCCTAGTTATACTTCAACCCATGACCGC
* *
90037421 ATAACAATCGTGAACTAGAAGCCC
1 ATAACAACCGTCAACTAGAAGCCC
90037445 AAATAGCAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 59 0.98
50 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (49 bp):
ATAACAACCGTCAACTAGAAGCCCTAGTTATACTTCAACCCATGACCGC
Found at i:90040897 original size:25 final size:25
Alignment explanation
Indices: 90040859--90040926 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
90040849 AGTCAAAAAA
*
90040859 AATCTC-T-AGAAATTTT-TTGAAAT
1 AATCTCTTCAGAAATTTTCTAG-AAT
90040882 AATCTCTTCAGAAATTTTCTAGAAT
1 AATCTCTTCAGAAATTTTCTAGAAT
*
90040907 AATCCCTTCAGAAATTTTCT
1 AATCTCTTCAGAAATTTTCT
90040927 CTCTACAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 31 0.77
26 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (25 bp):
AATCTCTTCAGAAATTTTCTAGAAT
Found at i:90041097 original size:62 final size:62
Alignment explanation
Indices: 90041028--90041162 Score: 198
Period size: 62 Copynumber: 2.2 Consensus size: 62
90041018 ACTTAATCAC
** *
90041028 TTTAATATTAAATCTTATTAAAATAATAGAATGTTTATCTACAAAATAAAGATTAAATTAAA
1 TTTAATATTAAATCTTATTAAAATAATAGAATAATTATCTACAAAATAAACATTAAATTAAA
* * * * *
90041090 TTTAATATTATATCTTATTAAAATAATAGATTAATTATTTACAAGATGAACATTAAATTAAA
1 TTTAATATTAAATCTTATTAAAATAATAGAATAATTATCTACAAAATAAACATTAAATTAAA
90041152 TTTAATATTAA
1 TTTAATATTAA
90041163 GATAATCAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (62 bp):
TTTAATATTAAATCTTATTAAAATAATAGAATAATTATCTACAAAATAAACATTAAATTAAA
Found at i:90041690 original size:9 final size:9
Alignment explanation
Indices: 90041670--90041709 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
90041660 AAAATATCAT
90041670 ATTAATTTTA
1 ATTAA-TTTA
*
90041680 ATTGATTTA
1 ATTAATTTA
90041689 ATTAATTTA
1 ATTAATTTA
90041698 ATTAATTTA
1 ATTAATTTA
90041707 ATT
1 ATT
90041710 TTACTTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:90042890 original size:15 final size:15
Alignment explanation
Indices: 90042866--90042897 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
90042856 TATGCATGCA
*
90042866 AAATATAAAAGACAT
1 AAATACAAAAGACAT
90042881 AAATACAAAAGACAT
1 AAATACAAAAGACAT
90042896 AA
1 AA
90042898 TAGTGAAATG
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:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:90045603 original size:31 final size:33
Alignment explanation
Indices: 90045536--90045596 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
90045526 TTGACTCAAA
90045536 TATATCATGTTATAAAAATATTATTATATTAAT
1 TATATCATGTTATAAAAATATTATTATATTAAT
*
90045569 TATAT-ATGTTA-AATAATAATTA-TATATT
1 TATATCATGTTATAAAAAT-ATTATTATATT
90045597 TTTTATACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.42
32 10 0.38
33 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (33 bp):
TATATCATGTTATAAAAATATTATTATATTAAT
Found at i:90049624 original size:13 final size:13
Alignment explanation
Indices: 90049606--90049630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90049596 ATATTCTTAA
90049606 TTTTTTTTTTCTC
1 TTTTTTTTTTCTC
90049619 TTTTTTTTTTCT
1 TTTTTTTTTTCT
90049631 TCTCCATCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:90068684 original size:4 final size:4
Alignment explanation
Indices: 90068675--90068707 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
90068665 TTTGAGTTCA
*
90068675 ATAC ATAC ATAC ATAC ACAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
90068708 CGATTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAC
Found at i:90068698 original size:16 final size:16
Alignment explanation
Indices: 90068677--90068708 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90068667 TGAGTTCAAT
90068677 ACATACATACATACAC
1 ACATACATACATACAC
90068693 ACATACATACATACAC
1 ACATACATACATACAC
90068709 GATTTGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
ACATACATACATACAC
Found at i:90071669 original size:29 final size:30
Alignment explanation
Indices: 90071635--90071698 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
90071625 TAATAATATT
* * *
90071635 TATTTATTTTAAATAAAAATAAA-TTAATA
1 TATTTATCTCAAATAAAAATAAATTTAAAA
* *
90071664 TATTTATCTCAATTGAAAATAAATTTAAAA
1 TATTTATCTCAAATAAAAATAAATTTAAAA
90071694 TATTT
1 TATTT
90071699 CATATGTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
TATTTATCTCAAATAAAAATAAATTTAAAA
Found at i:90081455 original size:20 final size:20
Alignment explanation
Indices: 90081430--90081475 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
90081420 AAATTTATAT
*
90081430 ATTTTTTATATTTTTAAAGTA
1 ATTTTTTAT-TATTTAAAGTA
90081451 ATTTTTTATTATTTAAAGTA
1 ATTTTTTATTATTTAAAGTA
90081471 ATTTT
1 ATTTT
90081476 AAAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
ATTTTTTATTATTTAAAGTA
Found at i:90081881 original size:21 final size:19
Alignment explanation
Indices: 90081842--90081881 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
90081832 ATTTACTTTT
*
90081842 AATATAATAATTCAAAATA
1 AATATAATAATTAAAAATA
90081861 AATATAATAATATTAAAAATA
1 AATATAAT-A-ATTAAAAATA
90081882 CATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAATTAAAAATA
Found at i:90083096 original size:17 final size:18
Alignment explanation
Indices: 90083043--90083168 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
90083033 AATCATATCT
*
90083043 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
90083062 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
90083080 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
90083097 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
90083115 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
90083132 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
90083151 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
90083169 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:90083101 original size:35 final size:35
Alignment explanation
Indices: 90083043--90083160 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
90083033 AATCATATCT
90083043 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
90083080 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
90083115 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
90083151 TCTAAGATTG
1 TCTAAGATTG
90083161 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:90083176 original size:17 final size:18
Alignment explanation
Indices: 90083043--90083165 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
90083033 AATCATATCT
* *
90083043 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
90083062 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
90083080 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
90083097 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
90083115 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
90083132 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
90083151 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
90083166 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:90084018 original size:207 final size:207
Alignment explanation
Indices: 90083566--90084274 Score: 1123
Period size: 207 Copynumber: 3.4 Consensus size: 207
90083556 TGCTTCTTCA
* * * *
90083566 ATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACACGCGAA
1 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
* * * *
90083631 AGCCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACTATCTTGGATC
66 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
* * * ** * **
90083696 -TGCTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATATGTCTTTCCTCCGTCGAATATGGAGA
131 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
* *
90083760 CACCAAACTTCG
196 CGCCAAACTTTG
* *
90083772 ATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAA
1 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
* *
90083837 AGCCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTTGGATC
66 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
90083902 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
131 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
90083967 CGCCAAACTTTG
196 CGCCAAACTTTG
*
90083979 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAA
1 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
* * * *
90084044 AGCCAAATTAGTTATGTCTTCGATTTGTTCTTTGTAAGCACAAGGATGCCAAACCATATTGGATC
66 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
* *
90084109 TTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGA
131 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
90084174 CGCCAAACTTTG
196 CGCCAAACTTTG
* * *
90084186 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAA
1 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
90084251 AGCCAAATCAGCTATGTCTTCGAT
66 AGCCAAATCAGCTATGTCTTCGAT
90084275 CTGCTCTCCG
Statistics
Matches: 465, Mismatches: 37, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
206 118 0.25
207 347 0.75
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (207 bp):
ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
CGCCAAACTTTG
Found at i:90084502 original size:43 final size:43
Alignment explanation
Indices: 90084453--90084595 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
90084443 ATCTGCTCCA
90084453 CTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACC
* * * * *
90084496 CTACTGCTTAGGG-GATTAAG-GCGAGTC-GTCGTTGATCTGTT-CC
1 CTACTGCTTAGGGAGA-TAAGATCCA--CAAT-TTTGACCTGTTACC
***
90084539 GCTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCCACAATTTTGA-CCTGTTACC
90084583 CTACTGCTTAGGG
1 CTACTGCTTAGGG
90084596 GGTTAAGGCG
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
42 5 0.06
43 40 0.51
44 30 0.38
45 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACC
Found at i:90084662 original size:84 final size:84
Alignment explanation
Indices: 90084399--90084688 Score: 397
Period size: 87 Copynumber: 3.4 Consensus size: 84
90084389 TCTGCTATAC
* *
90084399 TTTAACCTGTTACCCTACTACTTAGGGG-TTAAGGTGCA-TCTTCGATCTGCTCCACTACTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
**
90084462 AGGGAGATAAGATCCACAAT
65 AGGGAGATAAGATCTGCAAT
* * * *
90084482 TTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
*
90084547 TTAGGGAGATAAGATCTGTAAT
63 TTAGGGAGATAAGATCTGCAAT
* *
90084569 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* *
90084634 GGGAGATAAGATCTGGAAA
66 GGGAGATAAGATCTGCAAT
*
90084653 TTTAACCTGTTA-CCTATTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
90084689 CCGAATTTTG
Statistics
Matches: 182, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
83 49 0.27
84 57 0.31
85 1 0.01
86 1 0.01
87 74 0.41
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAT
Found at i:90085632 original size:1 final size:1
Alignment explanation
Indices: 90085621--90085673 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
90085611 GACCTCTCAA
* * * * * *
90085621 TTTTTTCTTTTTTTTTCTTTTTATTTTATTTTATTTTTTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
90085674 GAAATAGAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:90088191 original size:12 final size:12
Alignment explanation
Indices: 90088174--90088199 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90088164 AACCGTGACC
90088174 TTCTTTCTCTTT
1 TTCTTTCTCTTT
90088186 TTCTTTCTCTTT
1 TTCTTTCTCTTT
90088198 TT
1 TT
90088200 AACCTTAATT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTTCTCTTT
Done.