Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 46 of 185
Found at i:12907229 original size:45 final size:45
Alignment explanation
Indices: 12907173--12908030 Score: 1036
Period size: 45 Copynumber: 19.1 Consensus size: 45
12907163 AGAGTAGGTT
* *
12907173 GAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
12907218 GAAGTTAGCAGATCTTGTCTCCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
12907263 GAAGATAGTAGGTCTTGTCTTCCTGTATTGGTAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
12907308 GAAGTTAGCAGATCTTGTCTTCCGGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
12907353 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
12907398 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
12907443 GAAGATAGCAGATCTTATCTTCCTATATTAGCAGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
12907488 GAAGATAGCAGATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
12907533 GAAGATAGCAGATCTTGTCTTCCTATACTGGCAGCAAAGTATATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
12907578 GAAGATAGCAAATCTTGTCTTTCTGTACTAGTAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *** * * * *
12907623 GAAGATACCAG-CCTTATCTTCCTG-AGCAGCAGTGGAGTAGGTT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
12907666 GAAAATAGTAGATCTTGTCTTCATATACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
** *
12907711 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAATGAAGTATATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
12907756 GAAGATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
12907801 GAAGATAGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATA
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
12907846 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
12907891 CAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
12907936 GAAGATAGCATATCTTGTCTTCCTATATTGACAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
12907981 GAAGATAACGGATCTTGTCTTCCTATACTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
12908026 GAAGA
1 GAAGA
12908031 CGGCGAGTCT
Statistics
Matches: 691, Mismatches: 120, Indels: 4
0.85 0.15 0.00
Matches are distributed among these distances:
43 19 0.03
44 19 0.03
45 653 0.95
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:12908162 original size:44 final size:44
Alignment explanation
Indices: 12908114--12908293 Score: 114
Period size: 44 Copynumber: 4.1 Consensus size: 44
12908104 AGAATAGGTT
* *
12908114 GAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * * * *
12908158 GAAGATGGTAAATCTTATCTTCCC-AAGGTAGTAG-GGAAGTAGATT
1 GAAGATTGTAGATCCTATC-TCCCTAA-GCAGTAGTGG-AGCAGATC
* ***** * * * * *
12908203 TAAGCCACCAG-TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTT
1 GAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
12908246 GAAAATTGTAGATCCTGTCTCCCTAAGTAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
12908290 GAAG
1 GAAG
12908294 GCAGCAAATC
Statistics
Matches: 97, Mismatches: 33, Indels: 12
0.68 0.23 0.08
Matches are distributed among these distances:
43 20 0.21
44 57 0.59
45 20 0.21
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
GAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:12908466 original size:132 final size:132
Alignment explanation
Indices: 12908038--12908441 Score: 587
Period size: 132 Copynumber: 3.1 Consensus size: 132
12908028 AGACGGCGAG
* * *
12908038 TCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACCAATCTTATCTCACTGAGCAGCAG
1 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAG
* * * * * *
12908103 TAGAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTA
66 TAGAGTAGGTTGAAAATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCA
12908168 AA
131 AA
* *
12908170 TCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAG
1 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAG
* * * *
12908235 TGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGGCAGCA
66 TAGAGTAGGTTGAAAATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCA
12908300 AA
131 AA
* * *
12908302 TCCTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACCAATCCCT-TCTCCCTGAG-ATAC
1 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAAT-CCTATCTCCCTGAGCA-GC
* *
12908365 AGTAGAGTAGGTTGAAAATTGTAGATCATGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGGTAG
64 AGTAGAGTAGGTTGAAAATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAG
*
12908430 CGAA
129 CAAA
12908434 TCTTATCT
1 TCTTATCT
12908442 CCTTGGCATT
Statistics
Matches: 245, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 241 0.98
133 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAG
TAGAGTAGGTTGAAAATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCA
AA
Found at i:12908589 original size:44 final size:43
Alignment explanation
Indices: 12908538--12908695 Score: 147
Period size: 44 Copynumber: 3.6 Consensus size: 43
12908528 ATAACCAACC
*
12908538 TTATCTCCCTGAAGTTACAGTGGAGTCGGTTGAAGATATCAATA
1 TTATCTCCCTGAAGTTACAGTGGAGTCGATTGAAGATA-CAATA
* * * * *
12908582 TTATCTCCTTGAAGTTGCAGTGG-GGCAGATTGAAGTTACAAGTC
1 TTATCTCCCTGAAGTTACAGTGGAGTC-GATTGAAGATACAA-TA
* * * * *
12908626 TTATCTCCCTGCAGTTACAGTGGAGTAGACTGACGATGACGAATT
1 TTATCTCCCTGAAGTTACAGTGGAGTCGATTGAAGAT-AC-AATA
* *
12908671 TTGTCTCCCTGAAGTTGCAGTGGAG
1 TTATCTCCCTGAAGTTACAGTGGAG
12908696 CATATTAAAG
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
43 5 0.05
44 58 0.64
45 26 0.29
46 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTACAGTGGAGTCGATTGAAGATACAATA
Found at i:12909100 original size:19 final size:19
Alignment explanation
Indices: 12909076--12909129 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
12909066 AATCTTGAAG
*
12909076 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
12909095 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
*
12909114 GATATGCAATTTTAGA
1 GATATGCAATCTTAGA
12909130 AGATAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:12909155 original size:22 final size:22
Alignment explanation
Indices: 12909076--12909152 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 22
12909066 AATCTTGAAG
*
12909076 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAA
12909095 GATATGCAATCTT---AGATAA
1 GATATGCAATCTTAGAAGATAA
*
12909114 GATATGCAATTTTAGAAGATAA
1 GATATGCAATCTTAGAAGATAA
* *
12909136 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
12909153 GATTTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 30 0.61
22 8 0.16
23 11 0.22
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAA
Found at i:12910451 original size:25 final size:24
Alignment explanation
Indices: 12910423--12910559 Score: 149
Period size: 25 Copynumber: 5.7 Consensus size: 24
12910413 GAACTTTAGT
12910423 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTG-TTATTAGCACATCA
*
12910448 GTGCTCTCTGATTATTAGCA-AGTTA
1 GTGCTCTCTG-TTATTAGCACA-TCA
* *
12910473 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTG-TTATTAGCACATCA
*
12910498 GTGCTCTCTG-T-TTAGCACATCT
1 GTGCTCTCTGTTATTAGCACATCA
*
12910520 GTGCTCTCTG-TA-TAGCACTTCA
1 GTGCTCTCTGTTATTAGCACATCA
12910542 GTGCTCTCTGTTCATTAG
1 GTGCTCTCTGTT-ATTAG
12910560 TGCATAACAA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
22 37 0.38
23 2 0.02
24 2 0.02
25 56 0.58
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (24 bp):
GTGCTCTCTGTTATTAGCACATCA
Found at i:12911548 original size:26 final size:26
Alignment explanation
Indices: 12911500--12911587 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 26
12911490 ACTCACCTAC
* *
12911500 AATAGTCCTTGCGGACTTATACTTGA
1 AATAGTCCTTGTGGACTCATACTTGA
* *
12911526 AATAGTCCTTGTGGACTCCTACTTGCT
1 AATAGTCCTTGTGGACTCATACTTG-A
* * * *
12911553 AACAATTCTTGTAGACTCATACTTGA
1 AATAGTCCTTGTGGACTCATACTTGA
12911579 AATAG-CCTT
1 AATAGTCCTT
12911588 TGCAGAATCT
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
25 3 0.06
26 25 0.52
27 20 0.42
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (26 bp):
AATAGTCCTTGTGGACTCATACTTGA
Found at i:12911659 original size:28 final size:27
Alignment explanation
Indices: 12911595--12911794 Score: 96
Period size: 28 Copynumber: 7.1 Consensus size: 27
12911585 CTTTGCAGAA
* * *
12911595 TCTTGCTTGAAAGATACTCCATGTGAAA
1 TCTTGCTTGAAAGATAATCCATGCG-AC
* *
12911623 TCCTACTTGAAAGATAATCCATGCAGAC
1 TCTTGCTTGAAAGATAATCCATGC-GAC
* * * **
12911651 TATTGCTTGAAAGGTAGTTTATGCAGAC
1 TCTTGCTTGAAAGATAATCCATGC-GAC
** * * * *
12911679 TCTTAATTGAAGGATAGTCCATGTGGTC
1 TCTTGCTTGAAAGATAATCCATG-CGAC
* * *
12911707 TCTTGCTTGATAGGTAATCCATGCGAAA
1 TCTTGCTTGAAAGATAATCCATGCG-AC
* * ** *
12911735 TATTACTTGAAAGATTGTCCATGCGAAA
1 TCTTGCTTGAAAGATAATCCATGCG-AC
*
12911763 TCTTGCTTGAAA-AGTAATCCATACGGAC
1 TCTTGCTTGAAAGA-TAATCCATGC-GAC
12911791 TCTT
1 TCTT
12911795 ACTTCTTGCG
Statistics
Matches: 125, Mismatches: 42, Indels: 10
0.71 0.24 0.06
Matches are distributed among these distances:
27 2 0.02
28 121 0.97
29 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (27 bp):
TCTTGCTTGAAAGATAATCCATGCGAC
Found at i:12914884 original size:28 final size:28
Alignment explanation
Indices: 12914852--12914923 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
12914842 TTTAATAAGT
*
12914852 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* * *
12914880 TCGCACACTTAGTGCTTGACCATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
12914908 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
12914924 AATCTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:12929886 original size:96 final size:94
Alignment explanation
Indices: 12929676--12930019 Score: 235
Period size: 95 Copynumber: 3.7 Consensus size: 94
12929666 CAAATAGTAT
* *
12929676 CCACTG-AGGGGTGTCTACTTT-AAATTATTGAAATTTGGCTAAGT-CCTTTTAGAGACTAGTTG
1 CCACTGAAGGGGT-TCTACTTTAAAATTATTGAAATTTGGCTAAGTGCCTTATAGAGACTAATTG
* * **
12929738 TGTTTATTTTATTAACTTAGCGAGCAATGT
65 TGTTTATTTTATTAACTTAACAAGCAATAC
**
12929768 CCACT-AAGGGGCGTT-TGTTTTAAAATTATTGAAATTTGGCTAAGTGCCTTAATA-AG-CTAAC
1 CCACTGAA-GGG-GTTCTACTTTAAAATTATTGAAATTTGGCTAAGTGCCTT-ATAGAGACT-A-
* *
12929829 ATT-TTTTTTTTTGCTATTAACTTAACAAGCAATAC
61 ATTGTGTTTATTT--TATTAACTTAACAAGCAATAC
* * * *
12929864 CCACTGAAGGGGTTCTACTTTAACATTACTGAAATTTGGCTAAGTG-CTT-TAGGAGGCTAGTAA
1 CCACTGAAGGGGTTCTACTTTAAAATTATTGAAATTTGGCTAAGTGCCTTATA-GAGACTA--AT
* * * * * * * *
12929927 CGTTTTTCTTCTATTAACTTAGCAAGTAGTAT
63 TGTGTTTATTTTATTAACTTAACAAGCAATAC
* * * * * * *
12929959 CCACTTAA-GGGTGTCTGCTTTAAAATTACTAAAATTTCGCTAAGTACCTTA-AGAGGCTAAT
1 CCACTGAAGGGGT-TCTACTTTAAAATTATTGAAATTTGGCTAAGTGCCTTATAGAGACTAAT
12930020 AGTATTTCTA
Statistics
Matches: 202, Mismatches: 30, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
92 10 0.05
93 32 0.16
94 20 0.10
95 72 0.36
96 59 0.29
97 9 0.04
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (94 bp):
CCACTGAAGGGGTTCTACTTTAAAATTATTGAAATTTGGCTAAGTGCCTTATAGAGACTAATTGT
GTTTATTTTATTAACTTAACAAGCAATAC
Found at i:12933088 original size:13 final size:13
Alignment explanation
Indices: 12933070--12933100 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12933060 TCAACTATTT
12933070 TTCTTTTCTCTTC
1 TTCTTTTCTCTTC
*
12933083 TTCTTTTCTTTTC
1 TTCTTTTCTCTTC
12933096 TTCTT
1 TTCTT
12933101 ATTTTTAGAA
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTTCTCTTC
Found at i:12934489 original size:2 final size:2
Alignment explanation
Indices: 12934482--12934509 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12934472 GAAGGGAATA
12934482 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12934510 TCACTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12935419 original size:2 final size:2
Alignment explanation
Indices: 12935412--12935440 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12935402 GTCTAAAGTT
12935412 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12935441 ACATTATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12939999 original size:27 final size:27
Alignment explanation
Indices: 12939969--12940037 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
12939959 TGGCATTTTA
*
12939969 ATAGCCTATGTGGCAAACTCTGAAAGG
1 ATAGCCTTTGTGGCAAACTCTGAAAGG
* *
12939996 ATAGCCTTTGTGGCGAACTCTGAATGG
1 ATAGCCTTTGTGGCAAACTCTGAAAGG
12940023 ATTA-CCTTTGTGGCA
1 A-TAGCCTTTGTGGCA
12940038 TACCCTGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (27 bp):
ATAGCCTTTGTGGCAAACTCTGAAAGG
Found at i:12942865 original size:23 final size:22
Alignment explanation
Indices: 12942839--12942887 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
12942829 AGTTAAACTG
*
12942839 CCAATATAAGTGCAGACAATCCA
1 CCAATAT-AGTGCAGACAAGCCA
*
12942862 CC-A-ATAGTGTAGACAAGCCA
1 CCAATATAGTGCAGACAAGCCA
12942882 CCAATA
1 CCAATA
12942888 ACGATAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
20 15 0.68
21 3 0.14
22 2 0.09
23 2 0.09
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (22 bp):
CCAATATAGTGCAGACAAGCCA
Found at i:12942875 original size:20 final size:20
Alignment explanation
Indices: 12942847--12942887 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12942837 TGCCAATATA
*
12942847 AGTGCAGACAATCCACCAAT
1 AGTGCAGACAAGCCACCAAT
*
12942867 AGTGTAGACAAGCCACCAAT
1 AGTGCAGACAAGCCACCAAT
12942887 A
1 A
12942888 ACGATAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.27, G:0.17, T:0.15
Consensus pattern (20 bp):
AGTGCAGACAAGCCACCAAT
Found at i:12947744 original size:6 final size:6
Alignment explanation
Indices: 12947733--12947780 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
12947723 TTATCTTATC
* * * *
12947733 CATCTT CATCTT CACCTT GAGCTC CATCTT CATCTT CATCTT CATCTT
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT
12947781 GTTCCTCCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.35, G:0.04, T:0.44
Consensus pattern (6 bp):
CATCTT
Found at i:12949909 original size:17 final size:17
Alignment explanation
Indices: 12949887--12949920 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12949877 AAAATTAGAG
12949887 AATTGAGAGAATGGATA
1 AATTGAGAGAATGGATA
*
12949904 AATTGAGAGAATTGATA
1 AATTGAGAGAATGGATA
12949921 GAACTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (17 bp):
AATTGAGAGAATGGATA
Found at i:12954724 original size:10 final size:10
Alignment explanation
Indices: 12954664--12954776 Score: 53
Period size: 9 Copynumber: 11.6 Consensus size: 10
12954654 ATTAAATTAT
12954664 AATTAT-AAA
1 AATTATAAAA
12954673 AATTATAAAA
1 AATTATAAAA
*
12954683 GAATT-TATAA
1 -AATTATAAAA
*
12954693 AA-TATATAGA
1 AATTATA-AAA
*
12954703 AATATAGAAAAA
1 AAT-TA-TAAAA
12954715 AATTAT--AA
1 AATTATAAAA
* *
12954723 AATTTTATAA
1 AATTATAAAA
* *
12954733 AGTTGTAAGAA
1 AATTATAA-AA
12954744 AATTATAAAA
1 AATTATAAAA
*
12954754 AA-T-GAAAA
1 AATTATAAAA
12954762 AATTAT-AAA
1 AATTATAAAA
12954771 AATTAT
1 AATTAT
12954777 TATACCAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
8 14 0.18
9 21 0.27
10 21 0.27
11 14 0.18
12 7 0.09
13 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (10 bp):
AATTATAAAA
Found at i:12954771 original size:8 final size:9
Alignment explanation
Indices: 12954664--12954776 Score: 52
Period size: 10 Copynumber: 11.7 Consensus size: 9
12954654 ATTAAATTAT
12954664 AATTATAAA
1 AATTATAAA
12954673 AATTATAAAA
1 AATTAT-AAA
12954683 GAATT-TATAA
1 -AATTATA-AA
12954693 AATATATAGAA
1 AAT-TATA-AA
* *
12954704 ATATAGAAAAA
1 A-AT-TATAAA
12954715 AATTAT-AA
1 AATTATAAA
*
12954723 AATTTTATAA
1 AATTATA-AA
* *
12954733 AGTTGTAAGAA
1 AATTAT-A-AA
12954744 AATTATAAAA
1 AATTAT-AAA
*
12954754 AATGA-AAA
1 AATTATAAA
12954762 AATTATAAA
1 AATTATAAA
12954771 AATTAT
1 AATTAT
12954777 TATACCAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
8 14 0.17
9 20 0.25
10 21 0.26
11 21 0.26
12 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:12955057 original size:28 final size:28
Alignment explanation
Indices: 12954991--12955089 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
12954981 ATTTTACACT
** *
12954991 TTTTTATATTTTT-TTACAATTATTATTA
1 TTTTTATATTTTTATTA-AAAAATTAATA
* *
12955019 TCTCTA-ATTTTTATTAAAAAATTAATA
1 TTTTTATATTTTTATTAAAAAATTAATA
*
12955046 TTTTTATATTTTTTATT-AAAATTTAATAA
1 TTTTTATA-TTTTTATTAAAAAATTAAT-A
12955075 TTTCTTAT-TTTTTAT
1 TTT-TTATATTTTTAT
12955090 CTTTATCATT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
27 18 0.31
28 24 0.41
29 12 0.21
30 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTATATTTTTATTAAAAAATTAATA
Found at i:12955062 original size:29 final size:28
Alignment explanation
Indices: 12955026--12955089 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
12955016 TTATCTCTAA
*
12955026 TTTTTATTAAAAAATTAAT-ATTTTTATAT
1 TTTTTATT-AAAAATTAATAATTTCT-TAT
*
12955055 TTTTTATTAAAATTTAATAATTTCTTAT
1 TTTTTATTAAAAATTAATAATTTCTTAT
12955083 TTTTTAT
1 TTTTTAT
12955090 CTTTATCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTTATTAAAAATTAATAATTTCTTAT
Found at i:12969599 original size:45 final size:45
Alignment explanation
Indices: 12969535--12969624 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
12969525 TGGTCAACAG
* * *
12969535 CACGATGGATCAAACAAAGTGGTGCTGATTTACTCGGGAATTCTA
1 CACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCTA
12969580 CACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCTA
1 CACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCTA
12969625 AGTATTGGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (45 bp):
CACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCTA
Found at i:12991471 original size:16 final size:16
Alignment explanation
Indices: 12991447--12991480 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12991437 AACCTGTAAC
*
12991447 CACGTTTACTTTTCAT
1 CACGCTTACTTTTCAT
12991463 CACGCTTACTTTTCAT
1 CACGCTTACTTTTCAT
12991479 CA
1 CA
12991481 ACCCTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (16 bp):
CACGCTTACTTTTCAT
Found at i:12993887 original size:30 final size:28
Alignment explanation
Indices: 12993830--12993899 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
12993820 TGATTTTTCC
*
12993830 CTTAAAATTTTTAGAAAACTTTAATTAAGCT
1 CTTAAAA-TTTTAGAAAACTCTAATTAA--T
* *
12993861 CTTAAAATTTTAGAAAAGTCTCATTAAT
1 CTTAAAATTTTAGAAAACTCTAATTAAT
*
12993889 CTCAAAATTTT
1 CTTAAAATTTT
12993900 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.31
30 17 0.49
31 7 0.20
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (28 bp):
CTTAAAATTTTAGAAAACTCTAATTAAT
Found at i:13000375 original size:19 final size:19
Alignment explanation
Indices: 13000353--13000399 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
13000343 TATTTAAAAC
13000353 TTATAAAAAATAAAAATAT
1 TTATAAAAAATAAAAATAT
** *
13000372 TTATAAAATTTTAAAATAT
1 TTATAAAAAATAAAAATAT
*
13000391 ATATAAAAA
1 TTATAAAAA
13000400 TTGACAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTATAAAAAATAAAAATAT
Found at i:13020733 original size:44 final size:44
Alignment explanation
Indices: 13020625--13021375 Score: 439
Period size: 44 Copynumber: 16.9 Consensus size: 44
13020615 GATTCATCGT
* * *
13020625 TTTAATC-AGCTCCACTGCAACTTTAGGGAGAT-AGATTAGTAGC
1 TTTAATCTA-CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * * *
13020668 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGACTATTGGC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
*
13020712 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA-T-TTGTC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * *
13020754 ATCTTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGACTTGTTATAGTAGA
1 -T-TT-AATCTACTCCACTGCAACTTCAGGGAGATAAGA----TTAT--TGGC
* * * * * * *
13020807 TTTAATCCGAC-CTACTGTAACTTCAGAGG-TATAGGATTCA-TCGT
1 TTTAAT-CTACTCCACTGCAACTTCAG-GGAGATAAGATT-ATTGGC
* * ** **
13020851 TTTAATCCACTCTACTGCAACTTCAGGGAGATAAGATTGGTATC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * * * **
13020895 ATTAGTTTGCTCCACTGTAACTTCAGGGAGATAAGATT-TGTAAC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAT-TGGC
* * *
13020939 TTTAAT-TCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGC
1 TTTAATCT-ACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
*****
13020983 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATA
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-ATTGGC
* * * * * * *
13021028 TTCAGTTTGCCCCACTGCAACTTCAGGGGGATAAGACTATTGGC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * **
13021072 TTTAATCTTCTTCACTGCAACTTCAAGGAGATAAGATT-TGTAAC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAT-TGGC
** * *
13021116 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGA
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* *****
13021160 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-ATTGGC
* * * * * *
13021205 TTTAGTCTACCCCACTGTAATTTCAGAGG-GATAAGACTTGCTT-TC
1 TTTAATCTACTCCACTGCAACTTCAG-GGAGATAAGA-TT-ATTGGC
* * * * * **
13021250 TTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-GTAAC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTATTGGC
* ** * * *
13021294 TTTAATTTGTTCCATTGCAACTTTAGGGAGATATGATTATTGGC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * *
13021338 TTTAATTTACTCCACTGTAACTTTAAGGAGATAAGATT
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
13021376 TGCCATCTTC
Statistics
Matches: 544, Mismatches: 132, Indels: 63
0.74 0.18 0.09
Matches are distributed among these distances:
42 4 0.01
43 38 0.07
44 339 0.62
45 126 0.23
46 6 0.01
47 1 0.00
50 20 0.04
51 8 0.01
52 1 0.00
53 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
Found at i:13020883 original size:226 final size:224
Alignment explanation
Indices: 13020532--13021244 Score: 738
Period size: 226 Copynumber: 3.2 Consensus size: 224
13020522 ATTTGTGGTT
* * * *
13020532 TTAGTCTACTCCACTGCAACTTTAAGGAGATATGACTTGTTATGGTAGATTTAATCCGACCTACT
1 TTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATAGTAGATTTAATCCGACCTACT
* * *
13020597 GCAACTTCAAAGGTATAGGATTCATCGTTTTAAT-CAGCTCCACTGCAACTTTAGGGAGAT-AGA
66 GCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCA-CTCTACTGCAACTTCAGGGAGATAAGA
* * * *
13020660 TTAGTAGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGACTATTGGCTTTAATCTACTCC
130 TTAGTAACTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TATTGGCTTTAATCTGCTCC
*
13020725 ACTGCAACTTCAGGGAGATAAGATTTGTCATC
193 ACTGCAACTTCAGGGAGATAAGATTTGCCATC
*
13020757 TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGACTTGTTATAGTAGATTTAATCCGACCTAC
1 TT-AGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATAGTAGATTTAATCCGACCTAC
*
13020822 TGTAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCTACTGCAACTTCAGGGAGATAAGA
65 TGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCTACTGCAACTTCAGGGAGATAAGA
* * * * * *
13020887 TTGGTATCATTAGTTTGCTCCACTGTAACTTCAGGGAGATAAGAT-TTGTAACTTTAAT-TCGCT
130 TTAGTAAC-TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTG--GCTTTAATCT-GCT
* * *
13020950 CCACTGCAACTTCAAGGAGATAGGATTATTGGC-T-
191 CCACTGCAACTTCAGGGAGATAAGA-T-TTGCCATC
* *** * *
13020984 TTAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCACCATATTCAG-TTT--GCC--CC-A
1 TTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTTATAGT-AGATTTAATCCGACCTA
* * * * * * ** *
13021042 CTGCAACTTCAGGGGGATAAGACT-ATTGGCTTTAATCTTCT-TCACTGCAACTTCAAGGAGATA
64 CTGCAACTTCAGAGGTATAGGATTCA-TCGTTTTAATCCACTCT-ACTGCAACTTCAGGGAGATA
* * * *
13021105 AGATTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGATTTAATCTGC
127 AGATTAGTAAC-TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TATTGGCTTTAATCTGC
*
13021170 TCCACTGCAACTTCAGGGAGATAAGATTCGCCATC
190 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATC
* * *
13021205 TTTAGTCTACCCCACTGTAATTTCAGAGG-GATAAGACTTG
1 -TTAGTCTACTCCACTGCAACTTCAG-GGAGATAAGACTTG
13021245 CTTTCTTCAG
Statistics
Matches: 410, Mismatches: 57, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
219 3 0.01
220 4 0.01
221 121 0.30
222 32 0.08
223 7 0.02
224 2 0.00
225 7 0.02
226 151 0.37
227 75 0.18
228 4 0.01
229 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (224 bp):
TTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATAGTAGATTTAATCCGACCTACT
GCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCTACTGCAACTTCAGGGAGATAAGAT
TAGTAACTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTGGCTTTAATCTGCTCCACT
GCAACTTCAGGGAGATAAGATTTGCCATC
Found at i:13020956 original size:88 final size:88
Alignment explanation
Indices: 13020625--13021377 Score: 574
Period size: 88 Copynumber: 8.5 Consensus size: 88
13020615 GATTCATCGT
* * * * *
13020625 TTTAATCAGCTCCACTGCAACTTTAGGGAGAT-AGATTAGTAGCTTCAA-TCTGCTCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATTC-GCTCCACTGCAA
* * *
13020688 CTTCAAGAAGATAAGACTATTGGC
65 CTTCAGGGAGATAAGATTATTGGC
* * * * *
13020712 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCA-TCTTCAGTCTACTCCACTGCA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACT-TTAATTC-GCTCCACTGCA
* * *
13020776 ACCTCAGGGAGATAAGACTTGTTATAGTAGA
64 ACTTCAGGGAGATAAGA----TTAT--TGGC
* * * * * ** *** * * *
13020807 TTTAATCCGAC-CTACTGTAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCACTCTACTGCA
1 TTTAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTTAATTCGCTCCACTGCA
** **
13020870 ACTTCAGGGAGATAAGATTGGTATC
64 ACTTCAGGGAGATAAGATTATTGGC
* * * *
13020895 ATTAGTTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTTAATTCGCTCCACTGCAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATTCGCTCCACTGCAAC
* *
13020960 TTCAAGGAGATAGGATTATTGGC
66 TTCAGGGAGATAAGATTATTGGC
* * * * * *
13020983 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT-CACCATATTCAGTTTGCCCCACTGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC-T-TT-AATTCGCTCCACTGC
* *
13021046 AACTTCAGGGGGATAAGACTATTGGC
63 AACTTCAGGGAGATAAGATTATTGGC
* * * *
13021072 TTTAATCTTCTTCACTGCAACTTCAAGGAGATAAGATTTGTAACTTTAATCCGCTCCACTGCAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATTCGCTCCACTGCAAC
* *
13021137 TTCAGGGAGATAGGATTATTGGA
66 TTCAGGGAGATAAGATTATTGGC
* * * * *
13021160 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCTAC-C-CCACTGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTAAT-T-CGCTCCACTGC
* * *
13021223 AATTTCAGAGG-GATAAGACTTGCTT-TC
63 AACTTCAG-GGAGATAAGA-TT-ATTGGC
* * * * * * *
13021250 TTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGTTCCATTGCAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATTCGCTCCACTGCAAC
* *
13021315 TTTAGGGAGATATGATTATTGGC
66 TTCAGGGAGATAAGATTATTGGC
* * * * *
13021338 TTTAATTTACTCCACTGTAACTTTAAGGAGATAAGATTTG
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
13021378 CCATCTTCTT
Statistics
Matches: 516, Mismatches: 121, Indels: 57
0.74 0.17 0.08
Matches are distributed among these distances:
86 2 0.00
87 38 0.07
88 212 0.41
89 146 0.28
90 45 0.09
91 5 0.01
93 3 0.01
94 26 0.05
95 35 0.07
96 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATTCGCTCCACTGCAAC
TTCAGGGAGATAAGATTATTGGC
Found at i:13021093 original size:133 final size:132
Alignment explanation
Indices: 13020633--13021375 Score: 529
Period size: 133 Copynumber: 5.6 Consensus size: 132
13020623 GTTTTAATCA
* * * * *
13020633 GCTCCACTGCAACTTTAGGGAGAT-AGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAAGAA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTATTAGCTTTAATCTGCTCCACTGCAACTTCAAGGA
* * * *
13020697 GATAAGACTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAG
66 GATAAGATTATTGGCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGA-TTGCCATATTCAG
*
13020762 TCT
130 TTT
* * * * * *
13020765 ACTCCACTGCAACCTCAGGGAGATAAGACTTGTTATAGTAGATTTAATCCGAC-CTACTGTAACT
1 GCTCCACTGCAACTTCAGGGAGATAAGAC----TAT--TAGCTTTAATCTG-CTCCACTGCAACT
* * * * * **
13020829 TCAGAGG-TATAGGATTCA-TCGTTTTAATCCACTCTACTGCAACTTCAGGGAGATAAGATTGGT
59 TCA-AGGAGATAAGATT-ATTGGCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTGCC
13020892 ATCATT-AGTTT
122 AT-ATTCAGTTT
* * *
13020903 GCTCCACTGTAACTTCAGGGAGATAAGA-TTTGTAACTTTAAT-TCGCTCCACTGCAACTTCAAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAT-TAGCTTTAATCT-GCTCCACTGCAACTTCAAG
* * *
13020966 GAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTC
64 GAGATAAGATTATTGGCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATT-GCCATATTC
13021031 AGTTT
128 AGTTT
* * * * *
13021036 GCCCCACTGCAACTTCAGGGGGATAAGACTATTGGCTTTAATCTTCTTCACTGCAACTTCAAGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTATTAGCTTTAATCTGCTCCACTGCAACTTCAAGGA
** * * ***** * *
13021101 GATAAGATT-TGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGATTTAA
66 GATAAGATTAT-TGGCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTGCCATATTCAG
*
13021165 TCT
130 TTT
* *** * * * * * *
13021168 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCTACCCCACTGTAATTTCAGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACT-ATTAGCTTTAATCTGCTCCACTGCAACTTCA-AG
* * * * ** * *
13021233 G-GATAAGACTTGCTT-TCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTG-TA-AC
64 GAGATAAGA-TT-ATTGGCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGA-TTGCCATA-
* *
13021294 TTTAATTT
125 TTCAGTTT
* * * * * * * * * *
13021302 GTTCCATTGCAACTTTAGGGAGATATGATTATTGGCTTTAATTTACTCCACTGTAACTTTAAGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTATTAGCTTTAATCTGCTCCACTGCAACTTCAAGGA
13021367 GATAAGATT
66 GATAAGATT
13021376 TGCCATCTTC
Statistics
Matches: 486, Mismatches: 97, Indels: 56
0.76 0.15 0.09
Matches are distributed among these distances:
131 5 0.01
132 132 0.27
133 165 0.34
134 74 0.15
135 3 0.01
136 1 0.00
137 2 0.00
138 34 0.07
139 66 0.14
140 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (132 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTATTAGCTTTAATCTGCTCCACTGCAACTTCAAGGA
GATAAGATTATTGGCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTGCCATATTCAGT
TT
Found at i:13021096 original size:177 final size:176
Alignment explanation
Indices: 13020864--13021375 Score: 636
Period size: 177 Copynumber: 2.9 Consensus size: 176
13020854 AATCCACTCT
* * * * * *
13020864 ACTGCAACTTCAG-GGAGATAAGA-TTGGTATCATTAGTTTGCTCCACTGTAACTTCAGGGAGAT
1 ACTGCAACTTCAGAGG-GATAAGACTTGCTTTAATCAGTCT-CT-CACTGCAACTTCAGGGAGAT
*
13020927 AAGATTTGTAACTTTAATTCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTA
63 AAGATTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
* *
13020992 CTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTTTGCCCC
128 CTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTCTACCCC
* * *
13021041 ACTGCAACTTCAGGGGGATAAGACTATTGGCTTTAATC-TTCT-TCACTGCAACTTCAAGGAGAT
1 ACTGCAACTTCAGAGGGATAAGAC--TT-GCTTTAATCAGTCTCTCACTGCAACTTCAGGGAGAT
* * *
13021104 AAGATTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGATTTAATCTG
63 AAGATTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
* * *
13021169 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCTACCCC
128 CTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTCTACCCC
* * **
13021218 ACTGTAATTTCAGAGGGATAAGACTTGCTTTCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGGGATAAGACTTGCTTTAATCAGTCT-CTC-ACTGCAACTTCAGGGAGATA
* * * * * * *
13021283 AGACTTGTAACTTTAATTTGTTCCATTGCAACTTTAGGGAGATATGATTATTGGCTTTAATTTAC
64 AGATTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTAC
* * *
13021348 TCCACTGTAACTTTAAGGAGATAAGATT
129 TCCACTGCAACTTCAGGGAGATAAGATT
13021376 TGCCATCTTC
Statistics
Matches: 289, Mismatches: 37, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
174 7 0.02
175 5 0.02
177 166 0.57
178 102 0.35
180 4 0.01
181 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (176 bp):
ACTGCAACTTCAGAGGGATAAGACTTGCTTTAATCAGTCTCTCACTGCAACTTCAGGGAGATAAG
ATTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTC
CACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTCTACCCC
Found at i:13022696 original size:31 final size:30
Alignment explanation
Indices: 13022632--13022696 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
13022622 GGCCTCTCCA
* * *
13022632 TTTTTTATGACTCAAAGCACCTTTTACGTG
1 TTTTTTAGGACTCAAAGCACCCTTTACGGG
* *
13022662 TTTTTTAGGGACTCAAGGCACCCTTTGCGGG
1 TTTTTTA-GGACTCAAAGCACCCTTTACGGG
13022693 TTTT
1 TTTT
13022697 CACCTTGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (30 bp):
TTTTTTAGGACTCAAAGCACCCTTTACGGG
Found at i:13024604 original size:48 final size:48
Alignment explanation
Indices: 13024549--13024647 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
13024539 AATTATTTGT
*
13024549 ATAGTATGATTATGAATGAAAGAATGATTTGGAAGAAAATCCAAAAGA
1 ATAGTATGATTATAAATGAAAGAATGATTTGGAAGAAAATCCAAAAGA
13024597 ATAGTATGATTATAAATGAAAGAATGATTTGGAAGAAAATCCAAAAGA
1 ATAGTATGATTATAAATGAAAGAATGATTTGGAAGAAAATCCAAAAGA
13024645 ATA
1 ATA
13024648 AAAGAAACAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (48 bp):
ATAGTATGATTATAAATGAAAGAATGATTTGGAAGAAAATCCAAAAGA
Found at i:13024636 original size:23 final size:23
Alignment explanation
Indices: 13024563--13024636 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
13024553 TATGATTATG
13024563 AATGAAAGAATGATTTGGAAGAA
1 AATGAAAGAATGATTTGGAAGAA
* * **
13024586 AATCCAAAAGAAT-AGTAT-GATTATA
1 AAT--GAAAGAATGA-TTTGGAAGA-A
13024611 AATGAAAGAATGATTTGGAAGAA
1 AATGAAAGAATGATTTGGAAGAA
13024634 AAT
1 AAT
13024637 CCAAAAGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
23 16 0.43
24 8 0.22
25 13 0.35
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (23 bp):
AATGAAAGAATGATTTGGAAGAA
Found at i:13024644 original size:25 final size:25
Alignment explanation
Indices: 13024567--13024646 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
13024557 ATTATGAATG
13024567 AAAGAATGATTTGGAAGAAAATCCA
1 AAAGAATGATTTGGAAGAAAATCCA
* ** *
13024592 AAAGAAT-AGTAT-GATTATAAAT--G
1 AAAGAATGA-TTTGGAAGA-AAATCCA
13024615 AAAGAATGATTTGGAAGAAAATCCA
1 AAAGAATGATTTGGAAGAAAATCCA
13024640 AAAGAAT
1 AAAGAAT
13024647 AAAAGAAACA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
23 13 0.32
24 8 0.20
25 20 0.49
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.23
Consensus pattern (25 bp):
AAAGAATGATTTGGAAGAAAATCCA
Found at i:13029389 original size:4 final size:4
Alignment explanation
Indices: 13029375--13029410 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
13029365 ATGATAATAA
*
13029375 TAAT AAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
13029411 AGCAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
TAAT
Found at i:13031778 original size:20 final size:19
Alignment explanation
Indices: 13031741--13031780 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13031731 AATTTTAAAA
*
13031741 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATAATTTTT
*
13031760 TATTTTTAAAATAAATTTT
1 TATTTTTAAAATAATTTTT
13031779 TA
1 TA
13031781 GTGTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTTAAAATAATTTTT
Found at i:13031787 original size:20 final size:19
Alignment explanation
Indices: 13031745--13031787 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13031735 TTAAAATATT
** *
13031745 TTTAAAATACTTTTTTATT
1 TTTAAAATAAATTTTTATG
13031764 TTTAAAATAAATTTTTAGTG
1 TTTAAAATAAATTTTTA-TG
13031784 TTTA
1 TTTA
13031788 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTAAAATAAATTTTTATG
Found at i:13037012 original size:4 final size:4
Alignment explanation
Indices: 13037003--13037042 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
13036993 TTCTTAATTT
*
13037003 ACAA ACAA ACAA ATAA ACAA ACAA ACAA ACAA A-AA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA A
13037043 TGTTTTGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.78, C:0.20, G:0.00, T:0.03
Consensus pattern (4 bp):
ACAA
Found at i:13038360 original size:24 final size:24
Alignment explanation
Indices: 13038328--13038373 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13038318 TATAACTTTT
13038328 TTTTTATTTACCAAAAAATATATA
1 TTTTTATTTACCAAAAAATATATA
*
13038352 TTTTTATTTACCAAAATATATA
1 TTTTTATTTACCAAAAAATATA
13038374 AAAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTTATTTACCAAAAAATATATA
Found at i:13038456 original size:27 final size:27
Alignment explanation
Indices: 13038414--13038466 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
13038404 TGATCAGGCC
13038414 AATTAAATTGGCGGCACCAAAGGTGCA
1 AATTAAATTGGCGGCACCAAAGGTGCA
* *
13038441 AATTAAATTGGTGGCACCAATGGTGC
1 AATTAAATTGGCGGCACCAAAGGTGC
13038467 CAAAGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (27 bp):
AATTAAATTGGCGGCACCAAAGGTGCA
Found at i:13038477 original size:27 final size:28
Alignment explanation
Indices: 13038417--13038497 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
13038407 TCAGGCCAAT
* *
13038417 TAAATTGGCGGCACCAAAGGTG-CAAAT
1 TAAATTGGCGGCACCAATGGTGCCAAAG
*
13038444 TAAATTGGTGGCACCAATGGTGCCAAAG
1 TAAATTGGCGGCACCAATGGTGCCAAAG
* * *
13038472 T-CATTGGCAGCACC-ATGGAGCCAAAG
1 TAAATTGGCGGCACCAATGGTGCCAAAG
13038498 GAAAAAAAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 11 0.24
27 30 0.65
28 5 0.11
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (28 bp):
TAAATTGGCGGCACCAATGGTGCCAAAG
Found at i:13038603 original size:18 final size:19
Alignment explanation
Indices: 13038558--13038632 Score: 98
Period size: 19 Copynumber: 4.0 Consensus size: 19
13038548 TATTCTCCTT
* *
13038558 TAACTCTTTTTTTATTTAA
1 TAACTCTATTTTAATTTAA
13038577 TAACTCTATTTTAATTTAA
1 TAACTCTATTTTAATTTAA
* * *
13038596 TAA-ACTATTCTCATTTAA
1 TAACTCTATTTTAATTTAA
13038614 TAACTCTATTTTAATTTAA
1 TAACTCTATTTTAATTTAA
13038633 AAAAATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 15 0.32
19 32 0.68
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (19 bp):
TAACTCTATTTTAATTTAA
Found at i:13038615 original size:37 final size:37
Alignment explanation
Indices: 13038571--13038641 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
13038561 CTCTTTTTTT
* *
13038571 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAAAAAAATATTCTC
13038608 ATTTAATAACTCTATTTTAATTTAAAAAAATATT
1 ATTTAATAACTCTATTTTAATTTAAAAAAATATT
13038642 AAGTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAAAAAAATATTCTC
Found at i:13038668 original size:19 final size:17
Alignment explanation
Indices: 13038624--13038662 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
13038614 TAACTCTATT
13038624 TTAA-TTTAAAAAAATA
1 TTAAGTTTAAAAAAATA
13038640 TTAAGTTTAAAAAAATA
1 TTAAGTTTAAAAAAATA
13038657 TTAAGT
1 TTAAGT
13038663 ACTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TTAAGTTTAAAAAAATA
Found at i:13038996 original size:27 final size:27
Alignment explanation
Indices: 13038960--13039015 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
13038950 AATGACTTTA
* *
13038960 GCACCATTGGTGCCACTAATTTACTTG
1 GCACCATTGGTGCCACCAATTTAATTG
* *
13038987 GCACCTTTGGTGCCGCCAATTTAATTG
1 GCACCATTGGTGCCACCAATTTAATTG
13039014 GC
1 GC
13039016 CTGATCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (27 bp):
GCACCATTGGTGCCACCAATTTAATTG
Found at i:13043096 original size:5 final size:5
Alignment explanation
Indices: 13043086--13043110 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13043076 AAACAATACC
13043086 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
13043111 AGAATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:13044582 original size:38 final size:36
Alignment explanation
Indices: 13044496--13044589 Score: 125
Period size: 38 Copynumber: 2.6 Consensus size: 36
13044486 GTTTTCTAGC
13044496 ATAATGGTTTGTCATGGGATATCTCTAGTTTTAAGG
1 ATAATGGTTTGTCATGGGATATCTCTAGTTTTAAGG
* * *
13044532 ATAGTAGCTTGTCATGGGATACGTCTCTAGTTTTAAGG
1 ATAATGGTTTGTCATGGGATA--TCTCTAGTTTTAAGG
* *
13044570 TTAATGGTTTGTCATAGGAT
1 ATAATGGTTTGTCATGGGAT
13044590 GTAAGCCTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 18 0.38
38 30 0.62
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (36 bp):
ATAATGGTTTGTCATGGGATATCTCTAGTTTTAAGG
Found at i:13045354 original size:16 final size:15
Alignment explanation
Indices: 13045329--13045358 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13045319 ATTAAGTTAA
13045329 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
13045344 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
13045359 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:13049062 original size:55 final size:55
Alignment explanation
Indices: 13048978--13049087 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
13048968 AAATACCAAG
13048978 AATGCTAAGGCCAATGTTGTTCTAGTTGAAGAAGATAAGAGAGAACCCGAGACAT
1 AATGCTAAGGCCAATGTTGTTCTAGTTGAAGAAGATAAGAGAGAACCCGAGACAT
13049033 AATGCTAAGGCCAATGTTGTTCTAGTTGAAGAAGATAAGAGAGAACCCGAGACAT
1 AATGCTAAGGCCAATGTTGTTCTAGTTGAAGAAGATAAGAGAGAACCCGAGACAT
13049088 TTGAGGAAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (55 bp):
AATGCTAAGGCCAATGTTGTTCTAGTTGAAGAAGATAAGAGAGAACCCGAGACAT
Found at i:13051327 original size:27 final size:27
Alignment explanation
Indices: 13051278--13051330 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
13051268 AAAGGTAGAA
* *
13051278 TTTTAATTTTAGAGTGTATATTTAATC
1 TTTTAATTTTAGAATGTACATTTAATC
*
13051305 TTTTAATTTTAGAATGTCCATTTAAT
1 TTTTAATTTTAGAATGTACATTTAAT
13051331 TTTATTTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (27 bp):
TTTTAATTTTAGAATGTACATTTAATC
Found at i:13058092 original size:46 final size:45
Alignment explanation
Indices: 13058039--13058166 Score: 168
Period size: 45 Copynumber: 2.8 Consensus size: 45
13058029 CTAAACAATA
* * * *
13058039 ATGCTCCTAAGTACAAGCTTAAATTGTTCATCCAAAATAAATGATG
1 ATGCTCCTAAGCACGAGCTTAAACTGTTCATCCAAAAT-AATGATC
*
13058085 ATGCTCCTAAGCACGAGCTTAAACTGTT-AGCACAAAATAATGATC
1 ATGCTCCTAAGCACGAGCTTAAACTGTTCATC-CAAAATAATGATC
* *
13058130 ATACTCCTAAGCACGAGTTTAAACTGTTCATCCAAAA
1 ATGCTCCTAAGCACGAGCTTAAACTGTTCATCCAAAA
13058167 ACAGATGCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 39 0.54
46 33 0.46
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (45 bp):
ATGCTCCTAAGCACGAGCTTAAACTGTTCATCCAAAATAATGATC
Found at i:13058972 original size:43 final size:43
Alignment explanation
Indices: 13058925--13059040 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
13058915 TCGACGACTA
*
13058925 TTGAAGCGAAC-ATCATTGATTCAAGATCAAGTCTCAATGACCC
1 TTGAAGCAAACTA-CATTGATTCAAGATCAAGTCTCAATGACCC
* *
13058968 TTGAAGCAAACTACATTGATTCAAGATCAAGTCTCGATTACCC
1 TTGAAGCAAACTACATTGATTCAAGATCAAGTCTCAATGACCC
* * *
13059011 TTAAAGCAAACTATATT-ATCCCAAGATCAA
1 TTGAAGCAAACTACATTGAT-TCAAGATCAA
13059041 ATCTTGACAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 2 0.03
43 62 0.95
44 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (43 bp):
TTGAAGCAAACTACATTGATTCAAGATCAAGTCTCAATGACCC
Found at i:13062875 original size:12 final size:12
Alignment explanation
Indices: 13062858--13062887 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13062848 GAGTCGTAGG
*
13062858 CACGACTATTGC
1 CACGACTATTGA
13062870 CACGACTATTGA
1 CACGACTATTGA
13062882 CACGAC
1 CACGAC
13062888 AGAAATTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (12 bp):
CACGACTATTGA
Found at i:13078112 original size:6 final size:6
Alignment explanation
Indices: 13078103--13078131 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13078093 ATCCTTTGCC
13078103 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
13078132 TATAGTGTGA
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:13079921 original size:16 final size:16
Alignment explanation
Indices: 13079902--13079985 Score: 50
Period size: 16 Copynumber: 5.4 Consensus size: 16
13079892 CCCGAATCTA
13079902 AAATGATCTAAACATG
1 AAATGATCTAAACATG
* * *
13079918 AAATGAATCGAATC-TA
1 AAATG-ATCTAAACATG
* *
13079934 AAATGATCCAAACTTG
1 AAATGATCTAAACATG
* *
13079950 AACA--ATC-AGACTTG
1 AA-ATGATCTAAACATG
*
13079964 AAATGACCTAAACATG
1 AAATGATCTAAACATG
13079980 AAATGA
1 AAATGA
13079986 CCCGAGAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
13 1 0.02
14 8 0.15
15 11 0.21
16 25 0.48
17 7 0.13
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (16 bp):
AAATGATCTAAACATG
Found at i:13079923 original size:32 final size:32
Alignment explanation
Indices: 13079887--13079990 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 32
13079877 CCAACACCGT
13079887 AATGACCCGAATCTAAAATGATCTAAACATGA
1 AATGACCCGAATCTAAAATGATCTAAACATGA
** * *
13079919 AATGAATCGAATCTAAAATGATCCAAACTTGA
1 AATGACCCGAATCTAAAATGATCTAAACATGA
* * * * *
13079951 ACA--ATCAGACT-TGAAATGACCTAAACATGA
1 A-ATGACCCGAATCTAAAATGATCTAAACATGA
13079981 AATGACCCGA
1 AATGACCCGA
13079991 GAATAACTAG
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
29 1 0.02
30 16 0.29
31 8 0.15
32 29 0.53
33 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (32 bp):
AATGACCCGAATCTAAAATGATCTAAACATGA
Found at i:13083297 original size:23 final size:23
Alignment explanation
Indices: 13083249--13083298 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13083239 AATAAAATTT
* *
13083249 AATTTAAATGGTAAGTAAATTGA
1 AATTTAAATGGTAAATAAATTCA
*
13083272 AATTTAAATAGGTAAATACA-TCA
1 AATTTAAAT-GGTAAATAAATTCA
13083295 AATT
1 AATT
13083299 AAGAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (23 bp):
AATTTAAATGGTAAATAAATTCA
Found at i:13099362 original size:11 final size:11
Alignment explanation
Indices: 13099336--13099370 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
13099326 CGAAATAGGG
13099336 GAAAAGAAAGAA
1 GAAAAGAAA-AA
13099348 GAAAAGAAAAA
1 GAAAAGAAAAA
13099359 GAAAAGGAAAAA
1 GAAAA-GAAAAA
13099371 CTAGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:13100554 original size:23 final size:23
Alignment explanation
Indices: 13100527--13100617 Score: 89
Period size: 23 Copynumber: 4.1 Consensus size: 23
13100517 AACTTTGCCG
**
13100527 ATCAGGCATTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
13100550 ATCAGGAACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* * *
13100573 TTTAGGCACCTCATGTGTCGT-T
1 ATCAGGCACCTTATGTGTCGTAT
*
13100595 -TCAGACA-CTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
13100616 AT
1 AT
13100618 TGATCAGGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.20
21 6 0.11
22 2 0.04
23 37 0.66
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:13102965 original size:26 final size:27
Alignment explanation
Indices: 13102899--13102967 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
13102889 CTTAAACAAA
*
13102899 ACTTTTTAAAAGTA-TTTCTTAAAAAC
1 ACTTTTTAAAAGTACTTTCTGAAAAAC
** **
13102925 ACTTTTCCACGGTACTTT-TGAAAAAC
1 ACTTTTTAAAAGTACTTTCTGAAAAAC
13102951 ACTTTTTAAAAGTACTT
1 ACTTTTTAAAAGTACTT
13102968 CTAAACTAGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (27 bp):
ACTTTTTAAAAGTACTTTCTGAAAAAC
Found at i:13121789 original size:27 final size:26
Alignment explanation
Indices: 13121749--13121824 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
13121739 CATGCGGCCT
* * *
13121749 ATTTCTATTTAAACTTCTTGGCTGCCC
1 ATTTCCATTAAAACTT-GTGGCTGCCC
13121776 ATTTCCATTAAAACATTGTGGCTGCCC
1 ATTTCCATTAAAAC-TTGTGGCTGCCC
* *
13121803 ATATCCATTAACACTTTGTGGC
1 ATTTCCATTAAAAC-TTGTGGC
13121825 CCAATTGCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (26 bp):
ATTTCCATTAAAACTTGTGGCTGCCC
Found at i:13124208 original size:28 final size:28
Alignment explanation
Indices: 13124155--13124211 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13124145 TTTCAACATC
*
13124155 TTCTCTTTTGTCTTCTCTGCAATCTCTT
1 TTCTCTTTTGTCTTCTCTACAATCTCTT
* **
13124183 TTCTCTTTTGTTTTCTCTACCTTCTCTT
1 TTCTCTTTTGTCTTCTCTACAATCTCTT
13124211 T
1 T
13124212 CATTTTCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.05, C:0.28, G:0.05, T:0.61
Consensus pattern (28 bp):
TTCTCTTTTGTCTTCTCTACAATCTCTT
Found at i:13124281 original size:16 final size:16
Alignment explanation
Indices: 13124260--13124290 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13124250 TTCACTTCTT
*
13124260 CATTTTCTATCTCCTA
1 CATTTTCCATCTCCTA
13124276 CATTTTCCATCTCCT
1 CATTTTCCATCTCCT
13124291 TCACATCTCC
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:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (16 bp):
CATTTTCCATCTCCTA
Found at i:13125104 original size:45 final size:45
Alignment explanation
Indices: 13125055--13125140 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
13125045 TAAATTGTCC
*
13125055 ATCAAAATACAACCAT-TAGAATGATTCAACAAAATAAAACCGTCT
1 ATCAAAATACAACCATCTA-AATGATCCAACAAAATAAAACCGTCT
*
13125100 ATCAAAATACATCCATCTAAATGATCCAACAAAATAAAACC
1 ATCAAAATACAACCATCTAAATGATCCAACAAAATAAAACC
13125141 ATCCATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.21
Consensus pattern (45 bp):
ATCAAAATACAACCATCTAAATGATCCAACAAAATAAAACCGTCT
Found at i:13125147 original size:31 final size:28
Alignment explanation
Indices: 13125109--13125167 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
13125099 TATCAAAATA
13125109 CATCCATCTAAATGATCCAACAAAATAAAAC
1 CATCCATC-AAATG-T-CAACAAAATAAAAC
* *
13125140 CATCCATCATATGTTAACAAAATAAAAC
1 CATCCATCAAATGTCAACAAAATAAAAC
13125168 TATCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 1 0.04
30 4 0.15
31 8 0.31
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (28 bp):
CATCCATCAAATGTCAACAAAATAAAAC
Found at i:13127805 original size:20 final size:21
Alignment explanation
Indices: 13127780--13127828 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13127770 CAAGGAGTAA
*
13127780 TTTGGAACAAAGC-AAAAAAT
1 TTTGGAACAAAACTAAAAAAT
*
13127800 TTTGGAA-AAAACTTAAAAAT
1 TTTGGAACAAAACTAAAAAAT
*
13127820 TTTGAAACA
1 TTTGGAACA
13127829 GGGGTCACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 19 0.79
21 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (21 bp):
TTTGGAACAAAACTAAAAAAT
Found at i:13130084 original size:21 final size:21
Alignment explanation
Indices: 13130044--13130084 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13130034 TATTTAAACA
* *
13130044 TTAATATTTCTCAACCAAATT
1 TTAATATTACTCAAACAAATT
*
13130065 TTAATATTACTCAAATAAAT
1 TTAATATTACTCAAACAAAT
13130085 AATAAAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATATTACTCAAACAAATT
Found at i:13130191 original size:30 final size:30
Alignment explanation
Indices: 13130155--13130215 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13130145 TGAAAACAAG
13130155 CTGTTACACTTACAGTTAACCTTATTTGCT
1 CTGTTACACTTACAGTTAACCTTATTTGCT
*
13130185 CTGTTACAGTTACAGTTAACCTTATTTGCT
1 CTGTTACACTTACAGTTAACCTTATTTGCT
13130215 C
1 C
13130216 ATTCTCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (30 bp):
CTGTTACACTTACAGTTAACCTTATTTGCT
Found at i:13130986 original size:25 final size:28
Alignment explanation
Indices: 13130951--13131002 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
13130941 ACATACATAC
13130951 ATAAACAGTAATA-AACA-ATAATATAT
1 ATAAACAGTAATATAACACATAATATAT
*
13130977 ATAAA-AGTAATATACCACATAATATA
1 ATAAACAGTAATATAACACATAATATA
13131003 CATACATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.27
Consensus pattern (28 bp):
ATAAACAGTAATATAACACATAATATAT
Found at i:13131009 original size:4 final size:4
Alignment explanation
Indices: 13131000--13131231 Score: 173
Period size: 4 Copynumber: 57.8 Consensus size: 4
13130990 ACCACATAAT
13131000 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
13131048 ATAC ATAC ATAC ATAC ATAC ATAC ATAAC AATAAT ATAC A-AC ATAAC
1 ATAC ATAC ATAC ATAC ATAC ATAC AT-AC -AT-AC ATAC ATAC AT-AC
* * * * *
13131095 ATAC ATAAT ATAC ATAC ATTA- A-AC ATGAT AGAA ATTC AT-C A-AC AGTA-
1 ATAC AT-AC ATAC ATAC A-TAC ATAC AT-AC ATAC ATAC ATAC ATAC A-TAC
* * * *
13131142 ATA- A-AC ATA- ATGTAC ATAAT ATAC ATAC ATA- AGA- ATA- ATAT ACCAC
1 ATAC ATAC ATAC A--TAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC
13131188 ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
13131232 ACAATAATAT
Statistics
Matches: 190, Mismatches: 17, Indels: 42
0.76 0.07 0.17
Matches are distributed among these distances:
2 2 0.01
3 20 0.11
4 136 0.72
5 27 0.14
6 5 0.03
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:13131278 original size:13 final size:13
Alignment explanation
Indices: 13131262--13131380 Score: 80
Period size: 12 Copynumber: 9.5 Consensus size: 13
13131252 CATAATGTTT
13131262 ATACATAACAGAC
1 ATACATAACAGAC
*
13131275 ATACATAACAGTGAT
1 ATACATAACA--GAC
*
13131290 ATAC-T-ACATAAC
1 ATACATAACA-GAC
13131302 ATAC-TAACAGAC
1 ATACATAACAGAC
13131314 ATATTCATAAC--AC
1 ATA--CATAACAGAC
13131327 --ACATAACAGAC
1 ATACATAACAGAC
13131338 ATAC-TAACA-AGC
1 ATACATAACAGA-C
*
13131350 ATACATAACAAAC
1 ATACATAACAGAC
13131363 ATA-ATAACA-AC
1 ATACATAACAGAC
13131374 ATACATA
1 ATACATA
13131381 GCAGTAGTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 29
0.73 0.03 0.24
Matches are distributed among these distances:
9 6 0.07
11 9 0.10
12 31 0.35
13 29 0.33
14 3 0.03
15 10 0.11
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.20
Consensus pattern (13 bp):
ATACATAACAGAC
Found at i:13131346 original size:36 final size:34
Alignment explanation
Indices: 13131300--13131366 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
13131290 ATACTACATA
*
13131300 ACATACTAAC-AGACATATTCATAACACACATAACAG
1 ACATACTAACAAG-CATA--CATAACAAACATAACAG
13131336 ACATACTAACAAGCATACATAACAAACATAA
1 ACATACTAACAAGCATACATAACAAACATAA
13131367 TAACAACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 13 0.45
36 14 0.48
37 2 0.07
ACGTcount: A:0.54, C:0.24, G:0.04, T:0.18
Consensus pattern (34 bp):
ACATACTAACAAGCATACATAACAAACATAACAG
Found at i:13131503 original size:20 final size:18
Alignment explanation
Indices: 13131478--13131523 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
13131468 CCCAATTTCC
13131478 AAAATAATTAAACAGTCCAA
1 AAAATAATTAAA-AG-CCAA
*
13131498 AAAATAAATTACAAGCCAA
1 AAAAT-AATTAAAAGCCAA
13131517 AAAATAA
1 AAAATAA
13131524 AAAAACCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 7 0.29
21 6 0.25
ACGTcount: A:0.65, C:0.13, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAATAATTAAAAGCCAA
Found at i:13133075 original size:35 final size:35
Alignment explanation
Indices: 13133000--13133075 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
13132990 ATGTGTTTTT
* * *
13133000 ATTTATAATTTATATACACATACATCGTGTATATA
1 ATTTACAATTTATATACACATACATCATATATATA
* * *
13133035 TTTTACAATTTATATACATATATA-CATATATATA
1 ATTTACAATTTATATACACATACATCATATATATA
13133069 CATTTAC
1 -ATTTAC
13133076 GTATATCTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 8 0.24
35 25 0.76
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.45
Consensus pattern (35 bp):
ATTTACAATTTATATACACATACATCATATATATA
Found at i:13133630 original size:71 final size:70
Alignment explanation
Indices: 13133514--13133718 Score: 329
Period size: 70 Copynumber: 2.9 Consensus size: 70
13133504 TCCTTTCAAA
** ** *
13133514 CTCAAGTTTTAAATGATCTCGGGAATTAAGAGGAGATTGTGTCCTAACTTACTGGGCATGATCAT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATC-C
13133579 TTTTTT
65 TTTTTT
*
13133585 CTCAAGCTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
13133650 TTTTT
66 TTTTT
* *
13133655 CTAAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
13133719 CCCTTTTTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
70 67 0.54
71 58 0.46
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (70 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
TTTTT
Found at i:13144962 original size:85 final size:83
Alignment explanation
Indices: 13144829--13145405 Score: 410
Period size: 85 Copynumber: 6.7 Consensus size: 83
13144819 AAACCAATCC
* * * * * *
13144829 TATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAAACACAAATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAA-ACCAATCTTATCTCCCTGAAGTTGCAGTA
*
13144894 GAGCAGATCGCATTCAGTCT
64 GAGCAGATCGCATCCAGTCT
* * * *
13144914 TACCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACA-AA-AAACCAATCTTATCTCCCTGAAGTTGCAGTA
* *** *
13144979 GAGCGGATTAAAAACACAGATCT
64 GAGCAGA-TCGCATC-CAG-TCT
* * * * * * * *
13145002 CATCTCTCTGAAGTTGGAGTAGAGCAGATC--ACATCCAGTCTTATCTCCCTGAAGTTGTAGTAC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAAACCAATCTTATCTCCCTGAAGTTGCAGT--
* * * * * *
13145065 AACAGACAGA-AGAAACCAATCC
63 -AGAG-CAGATCGCATCCAGTCT
* ** *
13145087 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACTGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAA-ACCAATCTTATCTCCCTGAAGTTGCAGTA
* * *
13145152 GAGCTGATCGCATCCAATCC
64 GAGCAGATCGCATCCAGTCT
* ** * *
13145172 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAAAC-CA-ATCTTATCTCCCTGAAGTTGCAGTA
13145237 GAGCAGATCGCATCCAGTCT
64 GAGCAGATCGCATCCAGTCT
* * *
13145257 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCATATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACA-AA-AAACCAATCTTATCTCCCTGAAGTTGCAGTA
** *** *
13145322 GAGTGGATTAAAAACACAGATCT
64 GAGCAGA-TCGCATC-CAG-TCT
* ** *
13145345 TATCTCTCTGAAGTTGCAGTAGG-GCAGATC--GCAACCAATCTTATCTCCTTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT-GGAGCAGA-CAAAAAACCAATCTTATCTCCCTGAAGTTGCAGT
13145406 GGAGTGGATT
Statistics
Matches: 393, Mismatches: 76, Indels: 46
0.76 0.15 0.09
Matches are distributed among these distances:
83 2 0.01
84 9 0.02
85 268 0.68
86 14 0.04
87 17 0.04
88 76 0.19
89 7 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTAGA
GCAGATCGCATCCAGTCT
Found at i:13144966 original size:129 final size:129
Alignment explanation
Indices: 13144786--13145199 Score: 621
Period size: 129 Copynumber: 3.2 Consensus size: 129
13144776 CACAGATCTC
* * * * * *
13144786 ATCTCTCTAAAGTTGCTGTGGGGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
* *
13144851 AGCGGATTAAAAACACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATTCAGTCTT
66 AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
*
13144915 ACCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
* * *
13144980 AGCGGATTAAAAACACAGATCTCATCTCTCTGAAGTTGGAGTAGAGCAGATCACATCCAGTCTT
66 AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
* ** * *
13145044 ATCTCCCTGAAGTTGTAGTACAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
* * * * *
13145109 AGCAGATTAAAAACACTGATCTTATCTCTCTGAAGTTGCAGTAGAGCTGATCGCATCCAATCCT
66 AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
*
13145173 ATCTCCTTGAAGTTGCAGTGGAGCAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA
13145200 TTAAAAACAC
Statistics
Matches: 254, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 254 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
Found at i:13145186 original size:214 final size:213
Alignment explanation
Indices: 13144736--13145419 Score: 788
Period size: 214 Copynumber: 3.2 Consensus size: 213
13144726 TGAAACTACA
* ** *
13144736 AATCTTATCTCCCTGAAGTTTTAGTGAAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAA---G
* ** * * * * *
13144801 CTGTGGGGTAGA-CAGAAGA-AACCAATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTA-AA-
63 -T-TGGAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-CAGAAG
* * * * *** ** * *
13144862 AACACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATTCA-G-TCTTACCTCCCTGA
125 AA-ACCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACGATCTTATCTCTCTGA
* *
13144925 AGTTGCAGTGGAGCAGACAGA-AGAAACC
189 AGTTGCAGT--AG-AG-CAGATCGCAACC
* *
13144953 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
* *
13145018 GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTACAACAGACAGAAGAAACCA
66 GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAACCA
*
13145083 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACTGATCTTATCTCTCTGAAGTTGC
131 ATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAC-GATCTTATCTCTCTGAAGTTGC
* *
13145148 AGTAGAGCTGATCGCATCC
195 AGTAGAGCAGATCGCAACC
* * *
13145167 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
* * * * *
13145232 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCA
66 GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAACCA
**
13145297 ATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGC
131 ATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAC-GATCTTATCTCTCTGAAGTTGC
*
13145362 AGTAGGGCAGATCGCAACC
195 AGTAGAGCAGATCGCAACC
* * *
13145381 AATCTTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
13145420 TGATGAATAC
Statistics
Matches: 408, Mismatches: 51, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
212 8 0.02
213 10 0.02
214 307 0.75
215 4 0.01
216 1 0.00
217 78 0.19
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (213 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAACCA
ATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACGATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATCGCAACC
Found at i:13145220 original size:129 final size:129
Alignment explanation
Indices: 13144781--13145324 Score: 614
Period size: 129 Copynumber: 4.2 Consensus size: 129
13144771 AAAAACACAG
* * * * * * *
13144781 ATCTCATCTCTCTAAAGTTGCTGTGGGGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* * * *
13144846 AGTAGAGCGGATTAAAAACACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATTCA
66 AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* * *
13144910 GTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* * * *
13144975 AGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTGAAGTTGGAGTAGAGCAGATCACATCCA
66 AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* * ** *
13145039 GTCTTATCTCCCTGAAGTTGTAGTACAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
13145104 AGTGGAGCAGATTAAAAACACTGATCTTATCTCTCTGAAGTTGCAGTAGAGCTGATCGCATCCA
66 AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* * ** * * *
13145168 ATCCTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAA-AAACACAGATCTTATCTCTCTAAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCCTATCTCCCTGAAGTT
* *** * * * *
13145231 GCAGTAGAGCAGA-TCGCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGA
64 GCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG-CAGATCGC
*
13145292 AACCA
125 ATCCA
*
13145297 ATCATATCTCCCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
13145325 TGGATTAAAA
Statistics
Matches: 358, Mismatches: 51, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
126 22 0.06
127 6 0.02
128 9 0.03
129 318 0.89
130 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
Found at i:13145331 original size:129 final size:129
Alignment explanation
Indices: 13145165--13145410 Score: 411
Period size: 129 Copynumber: 1.9 Consensus size: 129
13145155 CTGATCGCAT
* *
13145165 CCAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
1 CCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
* *
13145230 TGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
66 TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
** *
13145294 CCAATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACACAGATCTTATCTCTCTGAAGT
1 CCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
* *
13145359 TGCAGTAGGGCAGATCGCAACCAATCTTATCTCCTTGAAGTTGCAGTGGAGT
66 TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGT
13145411 GGATTAAAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 108 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (129 bp):
CCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
Found at i:13147989 original size:22 final size:23
Alignment explanation
Indices: 13147964--13148011 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
13147954 CATCAATCTC
*
13147964 TCTTATTTCCTTTTTTTCTTT-T
1 TCTTATTTCCTTTCTTTCTTTCT
* *
13147986 TCTTTTTTTCTTTCTTTCTTTCT
1 TCTTATTTCCTTTCTTTCTTTCT
13148009 TCT
1 TCT
13148012 AGAATAGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (23 bp):
TCTTATTTCCTTTCTTTCTTTCT
Found at i:13157747 original size:35 final size:35
Alignment explanation
Indices: 13157680--13157747 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
13157670 TTATTTATAA
* *
13157680 TTTATATACACATACATCGTTTATATATTTTACAG
1 TTTATATACACATACATCGTATATATAATTTACAG
* *
13157715 TTTATATACATATATA-CGTATATATACATTTAC
1 TTTATATACACATACATCGTATATATA-ATTTAC
13157748 GTATATCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (35 bp):
TTTATATACACATACATCGTATATATAATTTACAG
Found at i:13157811 original size:8 final size:8
Alignment explanation
Indices: 13157800--13157834 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
13157790 CATATATATA
*
13157800 TTTATACT
1 TTTATAAT
*
13157808 TTTATATT
1 TTTATAAT
13157816 TTTATAAT
1 TTTATAAT
13157824 TTTATAAT
1 TTTATAAT
13157832 TTT
1 TTT
13157835 GCTCATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTATAAT
Found at i:13157819 original size:16 final size:16
Alignment explanation
Indices: 13157794--13157834 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13157784 CACGTACATA
* *
13157794 TATATATTTATACTTT
1 TATATTTTTATAATTT
13157810 TATATTTTTATAATTT
1 TATATTTTTATAATTT
13157826 TATAATTTT
1 TAT-ATTTT
13157835 GCTCATGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTTTATAATTT
Found at i:13158388 original size:70 final size:71
Alignment explanation
Indices: 13158194--13158399 Score: 324
Period size: 71 Copynumber: 2.9 Consensus size: 71
13158184 TCCTTTCAAA
* * ** * * *
13158194 CTCAAGTTTTAAATGATCTCGCGAATTAAGAGGATATCGTGTCCTAACTTACTGTGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
13158259 TTTTTT
66 TTTTTT
*
13158265 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAAGATTGTGTCCTAATTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAG-AAAAGATTGTGTCCTAACTTACTGGGCATGATCC
13158330 -TTTTTT
65 TTTTTTT
13158336 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
13158400 CCTCTTTTAA
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
70 33 0.26
71 64 0.51
72 28 0.22
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
TTTTTT
Found at i:13158989 original size:29 final size:28
Alignment explanation
Indices: 13158950--13159012 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 28
13158940 GAATGCCAAC
13158950 AAAAAAATTAGAAGTCAGATATAATACA
1 AAAAAAATTAGAAGTCAGATATAATACA
* *
13158978 AATAAAAATTAGAAGTTAGATATAATATA
1 AA-AAAAATTAGAAGTCAGATATAATACA
13159007 AAAAAA
1 AAAAAA
13159013 CAAAAATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.63, C:0.03, G:0.10, T:0.24
Consensus pattern (28 bp):
AAAAAAATTAGAAGTCAGATATAATACA
Found at i:13159039 original size:22 final size:22
Alignment explanation
Indices: 13159004--13159045 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13158994 TAGATATAAT
13159004 ATAAAAAAACAAAAATTTGTCA
1 ATAAAAAAACAAAAATTTGTCA
* *
13159026 ATAAAATAAGAAAAATTTGT
1 ATAAAAAAACAAAAATTTGT
13159046 TTCCCCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAAAAAAACAAAAATTTGTCA
Found at i:13159093 original size:55 final size:56
Alignment explanation
Indices: 13159028--13159141 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 56
13159018 ATTTGTCAAT
** **
13159028 AAAATAAGAAAAATTTGTTTCCCCAAACCCTATGCCAA-AAAACCGAATGTTCTAAA
1 AAAATAAGAAAAAAATGTTTCCCCAAACCCTAAACCAAGAAAA-CGAATGTTCTAAA
* *
13159084 AAAAT-AGAAAAAAATGTTTCCCTAAACCCTAAACCAAGAAAACGAATGTTCTTAA
1 AAAATAAGAAAAAAATGTTTCCCCAAACCCTAAACCAAGAAAACGAATGTTCTAAA
13159139 AAA
1 AAA
13159142 CATTATCAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
55 42 0.82
56 9 0.18
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (56 bp):
AAAATAAGAAAAAAATGTTTCCCCAAACCCTAAACCAAGAAAACGAATGTTCTAAA
Found at i:13160299 original size:13 final size:13
Alignment explanation
Indices: 13160281--13160306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13160271 TGTTGACTAA
13160281 AAATATATTTGCT
1 AAATATATTTGCT
13160294 AAATATATTTGCT
1 AAATATATTTGCT
13160307 TACTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AAATATATTTGCT
Found at i:13162929 original size:25 final size:25
Alignment explanation
Indices: 13162895--13162948 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
13162885 TATGTTGCAA
13162895 ATTTAAACTAGCACTAAATACTACC
1 ATTTAAACTAGCACTAAATACTACC
*
13162920 ATTTAAACTAGCACTAAATACTGCC
1 ATTTAAACTAGCACTAAATACTACC
13162945 ATTT
1 ATTT
13162949 TCCACTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (25 bp):
ATTTAAACTAGCACTAAATACTACC
Found at i:13167541 original size:199 final size:199
Alignment explanation
Indices: 13167186--13167547 Score: 474
Period size: 199 Copynumber: 1.8 Consensus size: 199
13167176 ACGAATCTAG
* * * * **
13167186 ACTCCTAGCTGACATTCTAAGAGCTCACAGAGTTAAGATCGTAGCTCCAACACAGCTAGTAGACC
1 ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGATCACAGCTCCAACACAGCTAGTAGACC
* * * * * * * *
13167251 TACGCTCTCAGCTGATGTCATAAAGGTTTTCTGGTTTAAGATCGTAATCTCTAAAGCAGCTAGCA
66 TACGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATCGTAACCTCCAAAACAGCTAGCA
* **
13167316 GACCTACACTCCCAGCTGGCATTATAAGAGCTCGTAGACTTACAGCTCCACCACAACTAGTAGAC
131 CACCTACACTCCCAGCTAACATTATAAGAGCTCGTAGACTTACAGCTCCACCACAACTAGTAGAC
13167381 CTAC
196 CTAC
* * * *
13167385 ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGCTCACGGTTCCAACATAGCTAGT-GTAC
1 ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGATCACAGCTCCAACACAGCTAGTAG-AC
* *
13167449 CTATGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATTGTAACCTCCAAAACAGCTAGC
65 CTACGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATCGTAACCTCCAAAACAGCTAGC
** *
13167514 ACACCTACACTCTTAGCTAATATTATAAGAGCTC
130 ACACCTACACTCCCAGCTAACATTATAAGAGCTC
13167548 ACAGAGTTAA
Statistics
Matches: 136, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
198 1 0.01
199 135 0.99
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (199 bp):
ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGATCACAGCTCCAACACAGCTAGTAGACC
TACGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATCGTAACCTCCAAAACAGCTAGCA
CACCTACACTCCCAGCTAACATTATAAGAGCTCGTAGACTTACAGCTCCACCACAACTAGTAGAC
CTAC
Found at i:13171001 original size:28 final size:29
Alignment explanation
Indices: 13170950--13171028 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
13170940 CCCTTATAAT
* * *
13170950 TTAA-ATTGATTTTGATTATTAAAAATATT
1 TTAATATTAATTTTAATTA-TAAAAATATA
*
13170979 TTTAT-TTAATTTTAATTAT-AAAATATA
1 TTAATATTAATTTTAATTATAAAAATATA
*
13171006 TTAATATTAATATTAA-TATAAAA
1 TTAATATTAATTTTAATTATAAAA
13171029 TTGATAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 14 0.34
28 13 0.32
29 14 0.34
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TTAATATTAATTTTAATTATAAAAATATA
Found at i:13171013 original size:29 final size:28
Alignment explanation
Indices: 13170967--13171029 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
13170957 GATTTTGATT
* *
13170967 ATTA-AAAATATTTTTAT-TTAATTTTA
1 ATTATAAAATATATTAATATTAATTTTA
*
13170993 ATTATAAAATATATTAATATTAATATTA
1 ATTATAAAATATATTAATATTAATTTTA
13171021 A-TATAAAAT
1 ATTATAAAAT
13171030 TGATAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 19 0.59
28 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTATAAAATATATTAATATTAATTTTA
Found at i:13174237 original size:12 final size:12
Alignment explanation
Indices: 13174220--13174249 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
13174210 ACCTAGAGGA
13174220 GATGAAACTTAT
1 GATGAAACTTAT
13174232 GATGAAACTTAT
1 GATGAAACTTAT
13174244 GATGAA
1 GATGAA
13174250 TCCTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (12 bp):
GATGAAACTTAT
Found at i:13176660 original size:42 final size:43
Alignment explanation
Indices: 13176601--13176702 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
13176591 TGAGATTTAT
* * *
13176601 GTGTAAGACCATGTCTGGGACATTTGAGTCG-TATATGATTAC
1 GTGTAAGACCATGTCTGGAACAGTGGAGTCGTTATATGATTAC
* ** *
13176643 GTGTAAGACCCTGTCTGGAACAGTGGCTTCGTTATCTGATTAC
1 GTGTAAGACCATGTCTGGAACAGTGGAGTCGTTATATGATTAC
*
13176686 ATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTG
13176703 AGATGTTGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGAACAGTGGAGTCGTTATATGATTAC
Found at i:13178937 original size:22 final size:20
Alignment explanation
Indices: 13178898--13178950 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
13178888 ATCTATCTTG
*
13178898 AAAAG-AAAAAAACCAAACGA
1 AAAAGAAAAAAAAACAAAC-A
* *
13178918 AATTAGAAAAAAAAAGAAACA
1 AA-AAGAAAAAAAAACAAACA
13178939 AAAAGAAAAAAA
1 AAAAGAAAAAAA
13178951 CTAAAATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 11 0.41
21 5 0.19
22 11 0.41
ACGTcount: A:0.79, C:0.08, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAAAAACAAACA
Found at i:13183108 original size:17 final size:17
Alignment explanation
Indices: 13183082--13183118 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13183072 TCATTTAATT
*
13183082 AATTAGATTAATTTCTC
1 AATTAAATTAATTTCTC
*
13183099 AATTAAATTATTTTCTC
1 AATTAAATTAATTTCTC
13183116 AAT
1 AAT
13183119 CCAATTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:13185418 original size:23 final size:22
Alignment explanation
Indices: 13185378--13185420 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
13185368 AAAATATAAA
*
13185378 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
13185400 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
13185421 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:13185496 original size:24 final size:24
Alignment explanation
Indices: 13185452--13185498 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13185442 AAATAAATAT
*
13185452 AAATATACATATTTTAATATGTAA
1 AAATATACATATTATAATATGTAA
*
13185476 AAATATATATA-TATAAGTATGTA
1 AAATATACATATTATAA-TATGTA
13185499 TATAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
AAATATACATATTATAATATGTAA
Found at i:13185571 original size:32 final size:35
Alignment explanation
Indices: 13185515--13185578 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 35
13185505 TTATGAAACA
*
13185515 TATAAAATATATAAAAGTATGTGTACATATATATT
1 TATAAAATATATAAAAGAATGTGTACATATATATT
*
13185550 TATAAAA-AT-TAAAA-AATGTGTACGTATAT
1 TATAAAATATATAAAAGAATGTGTACATATAT
13185579 GTATATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 13 0.48
33 5 0.19
34 2 0.07
35 7 0.26
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (35 bp):
TATAAAATATATAAAAGAATGTGTACATATATATT
Found at i:13186146 original size:22 final size:22
Alignment explanation
Indices: 13186121--13186209 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
13186111 TACAAATTAA
* *
13186121 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTGC-ATATCAT
* *
13186143 ATCTTCTAATATTGCATATGAT
1 ATCTTCTAAGATTGCATATCAT
13186165 ATCTTCTAAGATTGCATATCAT
1 ATCTTCTAAGATTGCATATCAT
13186187 A---TCTAAGATTGCATATCAT
1 ATCTTCTAAGATTGCATATCAT
13186206 ATCT
1 ATCT
13186210 AAGGTTGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
19 19 0.33
22 31 0.54
23 7 0.12
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (22 bp):
ATCTTCTAAGATTGCATATCAT
Found at i:13186193 original size:19 final size:19
Alignment explanation
Indices: 13186169--13186222 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
13186159 TATGATATCT
13186169 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13186188 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13186207 TCTAAGGTTGCATATC
1 TCTAAGATTGCATATC
13186223 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13186839 original size:44 final size:45
Alignment explanation
Indices: 13186731--13186846 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 45
13186721 CTAATACGAT
* * *
13186731 CTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATC
1 CTACTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTTAATC
*
13186776 C-GCTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTTCAA-C
1 CTACTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTT-AATC
* *
13186820 CTACTCCACTGCTAC-TCAGGGAGATAA
1 CTACTCTACTGCAACTTCAGGGAGATAA
13186847 GGCTAGTGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 49 0.79
45 13 0.21
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (45 bp):
CTACTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTTAATC
Found at i:13186990 original size:132 final size:132
Alignment explanation
Indices: 13186788--13187109 Score: 536
Period size: 132 Copynumber: 2.4 Consensus size: 132
13186778 CTCTACTGCA
* *
13186788 ACTTCAGGGAGATAAAATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTAG
1 ACTT-AGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAG
13186853 TGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
65 TGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
13186918 ACT
130 ACT
* * *
13186921 ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTTCACTGTTGCTCAAGGAGATAAGGCTAGT
1 ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGT
* *
13186986 GGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTA
66 GGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
13187051 CT
131 CT
* * * *
13187053 GCTTAGGGATATAAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
1 ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
13187110 TGATTCACAA
Statistics
Matches: 175, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
132 171 0.98
133 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGT
GGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
CT
Found at i:13187126 original size:44 final size:44
Alignment explanation
Indices: 13187078--13187332 Score: 340
Period size: 44 Copynumber: 5.8 Consensus size: 44
13187068 ATATGTAATT
* *
13187078 TTCAACCTACTCCACTGCTGCTCAGGGAGATATGATTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
13187122 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGATTCACAATC
13187166 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCA-ATATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGATTCACA-ATC
** *
13187210 TTCAACCTATTCCACTGCTGAACAGGGAGATAGGATTCATAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
* * * *
13187254 TTCAATCTATTCCACTGTTGATCAGGGAGATAGAACTT-ACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGA-TTCACAATC
*
13187298 TTCAACCTATGCCACTGCT-CTCCAGGGAGATAGGA
1 TTCAACCTATTCCACTGCTGCT-CAGGGAGATAGGA
13187333 CTACTATCTT
Statistics
Matches: 192, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.01
44 186 0.97
45 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
Found at i:13187153 original size:132 final size:131
Alignment explanation
Indices: 13186793--13187285 Score: 347
Period size: 132 Copynumber: 3.7 Consensus size: 131
13186783 CTGCAACTTC
* * * ** ****
13186793 AGGGAGATAAAATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCT-AGTGGC
1 AGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATC
* * * * *
13186857 TTAAATCTGCTTCC-CTACT-ACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
65 TTCAATCT-ATTCCACTGCTGACC-AGGG-AGATAAGATTCGACGTCTTCGATCTGCTCCACTAC
*
13186920 TACTT
127 TGCTT
* * * * ** ****
13186925 AGGGAGATAAAATCTGTAATTTTCAACCTACTTCACTGTTGCTCAAGGAGATAAGGCT-AGTGGC
1 AGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATC
* * * * * *
13186989 TTAAATCTGCTTCC-CTACT-ACCTTGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTAC
65 TTCAATCT-ATTCCACTGCTGACC-AGGG-AGATAAGATTCGACGTCTTCGATCTGCTCCACTAC
13187052 TGCTT
127 TGCTT
* *
13187057 AGGGATATAAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATATGATTCACAATC
1 AGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATC
* * * * * ** *
13187122 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCAACCTATTCCACTGCTG
65 TTCAATCTATTCCACTGCTGACCAGGGAGATAAGATTCGAC-GTCTTCGATCTGCTCCACTACTG
*
13187186 AC-C
129 -CTT
* * * ** * *
13187189 AGGGAGATAGGATT-CAATATCTTCAACCTATTCCACTGCTGAACAGGGAGATAGGATTCATAAT
1 AGGGAGATAAGATTGTAAT-T-TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAAT
* *
13187253 CTTCAATCTATTCCACTGTTGATCAGGGAGATA
64 CTTCAATCTATTCCACTGCTGACCAGGGAGATA
13187286 GAACTTACAA
Statistics
Matches: 307, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
130 3 0.01
131 3 0.01
132 282 0.92
133 16 0.05
134 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (131 bp):
AGGGAGATAAGATTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATCT
TCAATCTATTCCACTGCTGACCAGGGAGATAAGATTCGACGTCTTCGATCTGCTCCACTACTGCT
T
Found at i:13187286 original size:132 final size:132
Alignment explanation
Indices: 13187078--13187332 Score: 386
Period size: 132 Copynumber: 1.9 Consensus size: 132
13187068 ATATGTAATT
** *
13187078 TTCAACCTACTCCACTGCTGCTCAGGGAGATATGATTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTACTCCACTGCTGAACAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
* * *
13187143 CCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCAAT
66 CCAGGGAGATAGAACTT-ACAATCTTCAACCTATGCCACTGCTCACCAGGGAGATAGGATTCAAT
13187207 ATC
130 ATC
* * * *
13187210 TTCAACCTATTCCACTGCTGAACAGGGAGATAGGATTCATAATCTTCAATCTATTCCACTGTTGA
1 TTCAACCTACTCCACTGCTGAACAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
* *
13187275 TCAGGGAGATAGAACTTACAATCTTCAACCTATGCCACTGCTCTCCAGGGAGATAGGA
66 CCAGGGAGATAGAACTTACAATCTTCAACCTATGCCACTGCTCACCAGGGAGATAGGA
13187333 CTACTATCTT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
132 108 0.98
133 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCTGAACAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGAACTTACAATCTTCAACCTATGCCACTGCTCACCAGGGAGATAGGATTCAATA
TC
Found at i:13191498 original size:19 final size:19
Alignment explanation
Indices: 13191456--13191499 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
13191446 CAATGGATTT
**
13191456 TAATGCATATGATGTCATG
1 TAATGCATATGATGAAATG
13191475 TAATGCATATGCATGAAATG
1 TAATGCATATG-ATGAAATG
13191495 -AATGC
1 TAATGC
13191500 CTAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (19 bp):
TAATGCATATGATGAAATG
Found at i:13193770 original size:32 final size:35
Alignment explanation
Indices: 13193714--13193777 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 35
13193704 TTATGAAACA
*
13193714 TATAAAATATATAAAAGTATGTGTACATATATATT
1 TATAAAATATATAAAAGAATGTGTACATATATATT
*
13193749 TATAAAA-AT-TAAAA-AATGTGTACGTATAT
1 TATAAAATATATAAAAGAATGTGTACATATAT
13193778 GTATATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 13 0.48
33 5 0.19
34 2 0.07
35 7 0.26
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (35 bp):
TATAAAATATATAAAAGAATGTGTACATATATATT
Found at i:13194361 original size:17 final size:17
Alignment explanation
Indices: 13194339--13194390 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
13194329 ATTACAAAAT
13194339 CATATCTTTTAAGATTG
1 CATATCTTTTAAGATTG
*
13194356 CATATCATATCTAAGATTG
1 CATATC-T-TTTAAGATTG
* *
13194375 CATATCCTTGAAGATT
1 CATATCTTTTAAGATT
13194391 ATGTTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 1 0.03
19 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATATCTTTTAAGATTG
Found at i:13195440 original size:39 final size:39
Alignment explanation
Indices: 13195383--13195457 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
13195373 TTTTCCAACA
* *
13195383 TATATTACCCAAGAATCTACGACAAATGTTAGATCTTGT
1 TATATTACCCAAGAATCTACAACAAATGCTAGATCTTGT
13195422 TATATTACCCAATG-ATCTACAACAAATGCTAGATCT
1 TATATTACCCAA-GAATCTACAACAAATGCTAGATCT
13195458 CGATATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (39 bp):
TATATTACCCAAGAATCTACAACAAATGCTAGATCTTGT
Found at i:13196042 original size:30 final size:31
Alignment explanation
Indices: 13196006--13196073 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
13195996 TTACCCGAGA
** * **
13196006 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
13196036 GTAAATACGAAAAATTTGAAGGACCAATAGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
13196067 GTAAATA
1 GTAAATA
13196074 TTTTAAGGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACGAAAAATTTGAAGGACCAATAGT
Found at i:13202201 original size:32 final size:32
Alignment explanation
Indices: 13202165--13202238 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
13202155 GTCCTTTTCC
* ** *
13202165 TATTTTTTATTTGTTTATTATTTGTTTTATTA
1 TATTTTTTATTTATTTATTAAATGTTTTATAA
* *
13202197 TATTTTATATTTATTTTTTAAATGTTTTATAA
1 TATTTTTTATTTATTTATTAAATGTTTTATAA
13202229 TATTTGTTTA
1 TATTT-TTTA
13202239 GGGTAAACTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (32 bp):
TATTTTTTATTTATTTATTAAATGTTTTATAA
Found at i:13202350 original size:31 final size:29
Alignment explanation
Indices: 13202280--13202353 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
13202270 TCCTTAGGTT
* *
13202280 ACATTTTAGTCACTTATGTTTGAATTGTT
1 ACATTTTAGTCACTTACGTTTGAATTGTA
* **
13202309 ACGTTTTAGTCACTTACGTTATCGTGTTGTA
1 ACATTTTAGTCACTTACGTT-T-GAATTGTA
13202340 ACATTTTAGTCACT
1 ACATTTTAGTCACT
13202354 GAGTCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
30 1 0.03
31 18 0.49
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAATTGTA
Found at i:13202918 original size:31 final size:29
Alignment explanation
Indices: 13202880--13202956 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
13202870 CTAACGGCTC
* *
13202880 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
13202911 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
13202940 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
13202957 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:13203027 original size:17 final size:17
Alignment explanation
Indices: 13203005--13203051 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13202995 TATTTGTTTA
13203005 TTGAAATGTTTTTTTTT
1 TTGAAATGTTTTTTTTT
* *
13203022 TTGAAA-ATTTGTTTTT
1 TTGAAATGTTTTTTTTT
13203038 TT-AAATTGTTTTTT
1 TTGAAA-TGTTTTTT
13203052 ATTTGTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.42
17 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (17 bp):
TTGAAATGTTTTTTTTT
Found at i:13203050 original size:32 final size:32
Alignment explanation
Indices: 13202996--13203056 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
13202986 AGTTTACCCT
*
13202996 ATTTGTTTATTGAAATGTTTTTTTTTTTGAAA
1 ATTTGTTTATTGAAATGTTTTTTTATTTGAAA
* *
13203028 ATTTGTTTTTTTAAAT-TGTTTTTTATTTG
1 ATTTGTTTATTGAAATGT-TTTTTTATTTG
13203057 TTTCATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.67
Consensus pattern (32 bp):
ATTTGTTTATTGAAATGTTTTTTTATTTGAAA
Found at i:13203269 original size:19 final size:19
Alignment explanation
Indices: 13203230--13203269 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13203220 TTGAATAAAC
**
13203230 AAATATTATAAAACATTTA
1 AAATATTATAAAACAAATA
13203249 AAATATTATAAAACAAATA
1 AAATATTATAAAACAAATA
13203268 AA
1 AA
13203270 TAATGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATATTATAAAACAAATA
Done.