Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 32 of 161
Found at i:9867933 original size:52 final size:51
Alignment explanation
Indices: 9867862--9868070 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
9867852 ATCAAGTGAT
* * *
9867862 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
9867914 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
9867965 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
9868012 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
9868064 ATAAGTG
1 A-AAGTG
9868071 GCTACACTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 92 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:9867984 original size:98 final size:97
Alignment explanation
Indices: 9867848--9868070 Score: 231
Period size: 98 Copynumber: 2.3 Consensus size: 97
9867838 TTTGAGTACT
* * *
9867848 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTAC-ACT-TATCTGATCAAGTGA-CAA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATAGCTACGACTATA-CTGATC---TGATCAA
* * *
9867910 GTG-GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
61 GAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * * *
9867946 TCTGATCAAGTGACAAGTGAAAAGTGATAAG-TGATAGCTTCGGCTATACTTATCTGATCAAGAG
1 TCTGATCAAGTGACAAGTGATAAGTGAT-AGCT-ATAGCTACGACTATACTGATCTGATCAAGAG
*
9868010 ACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
64 ACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
9868044 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGAC-AAGTGATAAGTG
9868071 GCTACACTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
96 3 0.03
97 18 0.17
98 64 0.61
99 18 0.17
100 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAGCTATAGCTACGACTATACTGATCTGATCAAGAGAC
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:9868060 original size:46 final size:44
Alignment explanation
Indices: 9867966--9868181 Score: 190
Period size: 37 Copynumber: 5.3 Consensus size: 44
9867956 TGACAAGTGA
*
9867966 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
9868012 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
9868058 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
* *
9868095 AAAGTGATAA--G-T-G---GCTACACTTATGTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
9868132 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
9868168 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
9868182 CATACGTAAG
Statistics
Matches: 158, Mismatches: 7, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 87 0.55
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:9868078 original size:37 final size:37
Alignment explanation
Indices: 9868034--9868179 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
9868024 GATAGCTTTA
*
9868034 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
9868071 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
9868108 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
9868145 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
9868180 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:9869118 original size:14 final size:15
Alignment explanation
Indices: 9869095--9869135 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
9869085 TTTCGGTATA
9869095 TCTA-TTTTCTTT-T
1 TCTATTTTTCTTTCT
9869108 TCTATTTTTCTTTCT
1 TCTATTTTTCTTTCT
9869123 T-TATTTTT-TTTCT
1 TCTATTTTTCTTTCT
9869136 CTTTTCGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.35
14 15 0.58
15 2 0.08
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (15 bp):
TCTATTTTTCTTTCT
Found at i:9869134 original size:13 final size:13
Alignment explanation
Indices: 9869095--9869137 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
9869085 TTTCGGTATA
9869095 TCTATTTTCTTTT-
1 TCTATTTT-TTTTC
9869108 TCTATTTTTCTTTC
1 TCTATTTTT-TTTC
*
9869122 TTTATTTTTTTTC
1 TCTATTTTTTTTC
9869135 TCT
1 TCT
9869138 TTTCGAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 17 0.65
14 8 0.31
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTATTTTTTTTC
Found at i:9869902 original size:5 final size:5
Alignment explanation
Indices: 9869892--9869921 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9869882 TACCTTTTTA
9869892 TATAT TATAT TATAT TATA- TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
9869922 TCTTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:9873803 original size:131 final size:131
Alignment explanation
Indices: 9872892--9873763 Score: 1406
Period size: 131 Copynumber: 6.7 Consensus size: 131
9872882 TCGGTGAAAT
* *
9872892 CACAAGTCCTATGTCCTTGACCAGCAGTGGAATAGGTTGGAAA-TGACAGATCTTGTCTCCCTAA
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTG-CAGATCTTGTCTCCCTAA
9872956 GCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAA
65 GCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAA
9873021 GC
130 GC
9873023 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
* * *
9873088 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAG
9873153 C
131 C
9873154 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
* *
9873219 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAATAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAG
9873284 C
131 C
* *
9873285 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATGGCAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
* * * **
9873350 CAGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTTCTCCGGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAG
9873415 C
131 C
* * *
9873416 CACACGTCTTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
* * *
9873481 CAGTAGCGGAGTAGATCAAAGACGGCGAATCTTATCTTCCCCAAGAGTACGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAG
9873546 C
131 C
* *
9873547 CACAAGTCCTATGTCCCTGACCAGTAGTGGAATAGGTT-GAAAATTACAGATCTTGTCTCCCTAA
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAG-AAATTGCAGATCTTGTCTCCCTAA
* * * **
9873611 GTAGTAGCGGAGCAGATTGAAGATGGCGAATCTTATCTTCCCCGGGAGTAGGGAAACAGATTTAA
65 GCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAA
9873676 GC
130 GC
* * *
9873678 CACACGTCTTATGTCCCTGACCAGTAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
** * *
9873743 CAACAGTGGAGCAGATTGAAG
66 CAGTAGCGGAGCAGATCGAAG
9873764 CTAGAAATCT
Statistics
Matches: 688, Mismatches: 50, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 684 0.99
132 3 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (131 bp):
CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGCAGATCTTGTCTCCCTAAG
CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAG
C
Found at i:9873805 original size:44 final size:44
Alignment explanation
Indices: 9873745--9874131 Score: 300
Period size: 44 Copynumber: 8.3 Consensus size: 44
9873735 TCCCTAAGCA
9873745 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * *
9873789 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * ** *
9873833 ATAGTAGAGCAGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTT
1 ACAGTGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
*
9873877 ACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGT---G--GA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* *
9873931 ACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* ** *
9873975 ACAGTGGAGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTT
1 ACAGTGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
* *
9874019 ACAGTAGAGTAGATCGCATCAGATTGAAACCAGAAATCTTATCTCCCTGAGATT
1 ACAGT---G--GA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * *
9874073 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
*
9874117 ACAGTGGAGCGGATT
1 ACAGTGGAGCAGATT
9874132 AAAATAAAGG
Statistics
Matches: 272, Mismatches: 39, Indels: 64
0.73 0.10 0.17
Matches are distributed among these distances:
42 2 0.01
43 10 0.04
44 180 0.66
47 3 0.01
49 8 0.03
51 4 0.01
54 52 0.19
55 9 0.03
56 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
Found at i:9873977 original size:98 final size:97
Alignment explanation
Indices: 9873798--9873979 Score: 215
Period size: 98 Copynumber: 1.9 Consensus size: 97
9873788 TACAGCGGAG
* * * * * *
9873798 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTATAGTAGAGCAGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTAGAGCAGATTAAAAT-AAGAATCCT
*
9873863 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * **
9873896 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTAGAGCAGATT-AAAATAAG-AATCC
9873960 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
9873980 GGAGCGGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.06
98 63 0.90
99 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:9874010 original size:142 final size:142
Alignment explanation
Indices: 9873754--9874182 Score: 786
Period size: 142 Copynumber: 3.0 Consensus size: 142
9873744 AACAGTGGAG
*
9873754 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
9873819 ATCTCCTTGAGATTATAGTAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
9873884 AGTAGATCGCAT
131 AGTAGATCGCAT
*
9873896 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
9873961 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
9874026 AGTAGATCGCAT
131 AGTAGATCGCAT
*
9874038 CAGATTGAAACCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
9874103 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
9874168 AGTAGATCACAT
131 AGTAGATCGCAT
9874180 CAG
1 CAG
9874183 GTCTTATCTC
Statistics
Matches: 278, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 278 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:9874119 original size:98 final size:97
Alignment explanation
Indices: 9873940--9874121 Score: 215
Period size: 98 Copynumber: 1.9 Consensus size: 97
9873930 TACAGTGGAG
* * * * * * *
9873940 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAACCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
9874005 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
9874038 CAGATTGAAACCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAACCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCC
9874102 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
9874122 GGAGCGGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.06
98 63 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (97 bp):
CAGATTGAAACCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:9874150 original size:44 final size:42
Alignment explanation
Indices: 9874054--9874209 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 42
9874044 GAAACCAGAA
* ** *
9874054 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG-G
* *
9874098 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT--AGG
* * * * *
9874142 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCACATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AGG
9874184 -TCTTATCTCCCTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
9874210 ATAGACTGAA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 22 0.24
42 4 0.04
43 8 0.09
44 56 0.61
45 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGG
Found at i:9883574 original size:17 final size:17
Alignment explanation
Indices: 9883552--9883591 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9883542 TAAAAAGAAA
9883552 GATAAAAA-AAATAAAAT
1 GATAAAAAGAAA-AAAAT
9883569 GATAAAAAGAAAAAAAT
1 GATAAAAAGAAAAAAAT
*
9883586 AATAAA
1 GATAAA
9883592 CTCAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (17 bp):
GATAAAAAGAAAAAAAT
Found at i:9883662 original size:28 final size:27
Alignment explanation
Indices: 9883624--9883677 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
9883614 AAGGTAATTG
* *
9883624 TAATAATAATAGTAAAAAATATTAAAAA
1 TAATAAAAATAGCAAAAAA-ATTAAAAA
*
9883652 TAATAAAAATAGCATAAAAATTAAAA
1 TAATAAAAATAGCAAAAAAATTAAAA
9883678 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (27 bp):
TAATAAAAATAGCAAAAAAATTAAAAA
Found at i:9898066 original size:114 final size:112
Alignment explanation
Indices: 9897863--9898416 Score: 543
Period size: 114 Copynumber: 4.9 Consensus size: 112
9897853 TAACCATTCC
* * * * *
9897863 CGGCGTTT-TTGAGAAAGCGCCGCAAAAAACCT-AGCGCAACGACGCCGTTTCCCCAGCATTC-G
1 CGGCGTTTCTTG-GAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAG
*
9897925 GTGATTTAGTGGCGTTTTTCAGT-AAGCGCCGCTAATGCTCAAGGCTTTAG
65 G-GATTTAGCGGCGTTTTT-A-TAAAGCGCCGCTAATGCTCAAGGCTTTAG
* *
9897975 CGGCGTTTCTAGGAAAGCGCCGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAG
1 CGGCGTTTCTTGGAAAGCGCCGCAAAAA-AACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAG
* * *
9898040 GGATTTAGCGGCGCTTTCTATAAAGCGCCGCTAATGGT-TAGGTCTTTAG
65 GGATTTAGCGGCG-TTTTTATAAAGCGCCGCTAATGCTCAAGG-CTTTAG
* ** * * * *
9898089 CAGCGTTTC-TGGAAAAGCGCCGCTATTTAAAACT-AGCACAATGACGTCGTCTCCCGAGCTTTT
1 CGGCGTTTCTTGG-AAAGCGCCGC-A-AAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTC
* * *
9898152 AGGGATTTAGCGGCGCTTTTATAGAAAGCGCCGCTAATGCTGAAGTCTTTAG
63 AGGGATTTAGCGGCG-TTTT-TATAAAGCGCCGCTAATGCTCAAGGCTTTAG
* * * * * *
9898204 CGGCGTTT-TTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTG-GCTTTCGG
1 CGGCGTTTCTTG-GAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAG
* * *
9898267 GGATTTTAGCGGCGTTTTTGTAAAGCGCCGCTAATGTTC-AGTCTTTAG
65 GGA-TTTAGCGGCGTTTTTATAAAGCGCCGCTAATGCTCAAGGCTTTAG
* * * * * * *
9898315 CGGCGTTTTTTGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGTCGTCGTTTTCTGTGCTTTTGA
1 CGGCGTTTCTTGGAAAGCGCCGC-AAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGC-TTTCA
*
9898380 GGGATTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATG
64 GGGATTTAGCGGCGTTTTTA-TAAAGCGCCGCTAATG
9898417 ATCAGGGATT
Statistics
Matches: 370, Mismatches: 51, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
111 27 0.07
112 72 0.19
113 46 0.12
114 167 0.45
115 54 0.15
116 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (112 bp):
CGGCGTTTCTTGGAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAGG
GATTTAGCGGCGTTTTTATAAAGCGCCGCTAATGCTCAAGGCTTTAG
Found at i:9898711 original size:7 final size:7
Alignment explanation
Indices: 9898701--9898762 Score: 70
Period size: 7 Copynumber: 8.4 Consensus size: 7
9898691 AGAGTTAAGA
9898701 TTTAGGG
1 TTTAGGG
9898708 TTTATGGG
1 TTTA-GGG
9898716 TTTAGTGG
1 TTTAG-GG
9898724 TTTAGGG
1 TTTAGGG
9898731 TTTAGGG
1 TTTAGGG
*
9898738 TTTATGGA
1 TTTA-GGG
**
9898746 TTTCTGG
1 TTTAGGG
9898753 TTTAGGG
1 TTTAGGG
9898760 TTT
1 TTT
9898763 GAACGGTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
7 27 0.59
8 19 0.41
ACGTcount: A:0.13, C:0.02, G:0.35, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:9898731 original size:15 final size:15
Alignment explanation
Indices: 9898701--9898762 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
9898691 AGAGTTAAGA
9898701 TTTAGGGTTTATGGG
1 TTTAGGGTTTATGGG
9898716 TTTAGTGGTTTA-GGG
1 TTTAG-GGTTTATGGG
*
9898731 TTTAGGGTTTATGGA
1 TTTAGGGTTTATGGG
**
9898746 TTTCTGGTTTA-GGG
1 TTTAGGGTTTATGGG
9898760 TTT
1 TTT
9898763 GAACGGTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 11 0.27
15 24 0.59
16 6 0.15
ACGTcount: A:0.13, C:0.02, G:0.35, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTATGGG
Found at i:9898741 original size:22 final size:22
Alignment explanation
Indices: 9898699--9898762 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
9898689 TAAGAGTTAA
9898699 GATTTAGGGTTTATGGGTTTAGTG
1 GATTTAGGGTTTA-GGGTTTA-TG
9898723 G-TTTAGGGTTTAGGGTTTATG
1 GATTTAGGGTTTAGGGTTTATG
**
9898744 GATTTCTGGTTTAGGGTTT
1 GATTTAGGGTTTAGGGTTT
9898763 GAACGGTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.08
22 22 0.59
23 11 0.30
24 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (22 bp):
GATTTAGGGTTTAGGGTTTATG
Found at i:9899902 original size:9 final size:9
Alignment explanation
Indices: 9899888--9899913 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9899878 GCTTTAAGGG
9899888 TTTAGGGGA
1 TTTAGGGGA
9899897 TTTAGGGGA
1 TTTAGGGGA
9899906 TTTAGGGG
1 TTTAGGGG
9899914 TTATGGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (9 bp):
TTTAGGGGA
Found at i:9899918 original size:40 final size:40
Alignment explanation
Indices: 9899825--9899918 Score: 138
Period size: 39 Copynumber: 2.4 Consensus size: 40
9899815 TAATTGGAAT
9899825 GATTTAGGGGTTATGCTTTAGGGGTTAGGGAGATTTAGGG
1 GATTTAGGGGTTATGCTTTAGGGGTTAGGGAGATTTAGGG
* * *
9899865 G-TTTATGGTTTATGCTTTAAGGGTTTAGGG-GATTTAGGG
1 GATTTAGGGGTTATGCTTT-AGGGGTTAGGGAGATTTAGGG
9899904 GATTTAGGGGTTATG
1 GATTTAGGGGTTATG
9899919 GGTTAGGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 25 0.53
40 22 0.47
ACGTcount: A:0.19, C:0.02, G:0.39, T:0.39
Consensus pattern (40 bp):
GATTTAGGGGTTATGCTTTAGGGGTTAGGGAGATTTAGGG
Found at i:9903166 original size:12 final size:12
Alignment explanation
Indices: 9903026--9903186 Score: 66
Period size: 12 Copynumber: 14.0 Consensus size: 12
9903016 TTAATAATAA
*
9903026 AATTA-TATTAA
1 AATTATTATTAT
9903037 AATTATTATTA-
1 AATTATTATTAT
9903048 AA-TATTATTAAT
1 AATTATTATT-AT
9903060 AATTA-TATTAGT
1 AATTATTATTA-T
*
9903072 AA-TGTTATTA-
1 AATTATTATTAT
9903082 AATTA-TA-TAT
1 AATTATTATTAT
*
9903092 TATT-TTATTA-
1 AATTATTATTAT
**
9903102 AATTGTACTTAACAAT
1 AA-T-TA-TT-ATTAT
*
9903118 AATTA-TATTAA
1 AATTATTATTAT
9903129 AATTATTATTA-
1 AATTATTATTAT
9903140 AA-TATTATTAAT
1 AATTATTATT-AT
9903152 AATTA-TATTAGT
1 AATTATTATTA-T
*
9903164 AA-TGTTATTA-
1 AATTATTATTAT
9903174 AATTATATATTAT
1 AATTAT-TATTAT
9903187 TTTATTAAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 48
0.66 0.06 0.28
Matches are distributed among these distances:
9 2 0.02
10 26 0.23
11 28 0.25
12 45 0.39
13 4 0.04
14 4 0.04
15 3 0.03
16 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (12 bp):
AATTATTATTAT
Found at i:9903172 original size:34 final size:36
Alignment explanation
Indices: 9903115--9903185 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 36
9903105 TGTACTTAAC
9903115 AATAATTATATTAAAATTATTATTAAA-TAT-TATT
1 AATAATTATATTAAAATTATTATTAAATTATATATT
* *
9903149 AATAATTATATTAGTAA-TGTTATTAAATTATATATT
1 AATAATTATATTA-AAATTATTATTAAATTATATATT
9903185 A
1 A
9903186 TTTTATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 22 0.69
35 5 0.16
36 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (36 bp):
AATAATTATATTAAAATTATTATTAAATTATATATT
Found at i:9903183 original size:92 final size:92
Alignment explanation
Indices: 9903026--9903233 Score: 391
Period size: 92 Copynumber: 2.3 Consensus size: 92
9903016 TTAATAATAA
9903026 AATTATATTAAAATTATTATTAAATATTATTAATAATTATATTAGTAATGTTATTAAATTATATA
1 AATTATATTAAAATTATTATTAAATATTATTAATAATTATATTAGTAATGTTATTAAATTATATA
9903091 TTATTTTATTAAATTGTACTTAACAAT
66 TTATTTTATTAAATTGTACTTAACAAT
9903118 AATTATATTAAAATTATTATTAAATATTATTAATAATTATATTAGTAATGTTATTAAATTATATA
1 AATTATATTAAAATTATTATTAAATATTATTAATAATTATATTAGTAATGTTATTAAATTATATA
9903183 TTATTTTATTAAATTGTACTTAACAAT
66 TTATTTTATTAAATTGTACTTAACAAT
* *
9903210 AATTATGTTAAAA-TATAATTAAAT
1 AATTATATTAAAATTATTATTAAAT
9903234 TATTTATTTT
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 10 0.09
92 104 0.91
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (92 bp):
AATTATATTAAAATTATTATTAAATATTATTAATAATTATATTAGTAATGTTATTAAATTATATA
TTATTTTATTAAATTGTACTTAACAAT
Found at i:9903372 original size:43 final size:43
Alignment explanation
Indices: 9903317--9903400 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
9903307 CTGAACAACT
* *
9903317 CAAAACTTACATAACCTAAATAACCTACATAACTTACATAATA
1 CAAAACTCACATAACCTAAATAACCTACACAACTTACATAATA
* ** *
9903360 CAAAACTCACATAACTTAAATCTCTTACACAACTTACATAA
1 CAAAACTCACATAACCTAAATAACCTACACAACTTACATAA
9903401 CCTTCATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (43 bp):
CAAAACTCACATAACCTAAATAACCTACACAACTTACATAATA
Found at i:9903461 original size:26 final size:26
Alignment explanation
Indices: 9903405--9903706 Score: 409
Period size: 26 Copynumber: 11.4 Consensus size: 26
9903395 ACATAACCTT
*
9903405 CATAATACAT-TTAACTTACATAACTTA
1 CATAATACATAATAACTTAC--AACTTA
9903432 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
9903458 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
9903484 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
9903510 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
9903536 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
9903562 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
9903588 CATAATACATAATAACTTACAACTTA
1 CATAATACATAATAACTTACAACTTA
* *
9903614 CAT-A-ACATACATTACTTTGATAACTTA
1 CATAATACATA-ATAAC-TT-ACAACTTA
*
9903641 CATAACTTACTTACATAACTTACATAACTTA
1 CATAA--TACATA-ATAACTTAC--AACTTA
*
9903672 CATAACTAACATTAT-AC--ACAACTTA
1 CATAA-T-ACATAATAACTTACAACTTA
9903697 CATAATACAT
1 CATAATACAT
9903707 TACTTACATA
Statistics
Matches: 255, Mismatches: 9, Indels: 26
0.88 0.03 0.09
Matches are distributed among these distances:
23 4 0.02
24 6 0.02
25 16 0.06
26 167 0.65
27 22 0.09
28 9 0.04
29 3 0.01
30 5 0.02
31 23 0.09
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (26 bp):
CATAATACATAATAACTTACAACTTA
Found at i:9903652 original size:13 final size:13
Alignment explanation
Indices: 9903636--9903663 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9903626 TACTTTGATA
9903636 ACTTACATAACTT
1 ACTTACATAACTT
9903649 ACTTACATAACTT
1 ACTTACATAACTT
9903662 AC
1 AC
9903664 ATAACTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTACATAACTT
Found at i:9903694 original size:25 final size:23
Alignment explanation
Indices: 9903661--9903708 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
9903651 TTACATAACT
*
9903661 TACATAACTTACATAACTAACATTA
1 TACACAACTTACATAA-T-ACATTA
9903686 TACACAACTTACATAATACATTA
1 TACACAACTTACATAATACATTA
9903709 CTTACATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 1 0.05
25 15 0.68
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (23 bp):
TACACAACTTACATAATACATTA
Found at i:9909293 original size:66 final size:65
Alignment explanation
Indices: 9909172--9909337 Score: 190
Period size: 66 Copynumber: 2.5 Consensus size: 65
9909162 TGAGCAAATT
* * * * * *
9909172 ACACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAAAGAAGATATGAAGAACTCCA
1 ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCA
*
9909237 ACTACAATTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTC
1 AC-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTC
9909301 CA
64 CA
* * * * *
9909303 GCAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAG
1 ACA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
9909338 TAGAGGCGGC
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
65 3 0.04
66 78 0.92
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (65 bp):
ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCA
Found at i:9909348 original size:21 final size:21
Alignment explanation
Indices: 9909322--9909365 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9909312 TAGAGCAGAT
*
9909322 GCGGCAGCAAGAGAAGTAGAG
1 GCGGCAGCAAGAGAAGTACAG
*
9909343 GCGGCAGCGAGAGAAGTACAG
1 GCGGCAGCAAGAGAAGTACAG
9909364 GC
1 GC
9909366 TGCTAAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.43, T:0.05
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGTACAG
Found at i:9909413 original size:20 final size:20
Alignment explanation
Indices: 9909372--9909426 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
9909362 AGGCTGCTAA
9909372 GAGGGAAGCAGAGGCTAAAGC
1 GAGGGAAGCAGA-GCTAAAGC
* *
9909393 GAGGGAAGTAGAGCTACAGC
1 GAGGGAAGCAGAGCTAAAGC
9909413 GAGGGAAGCAGAGC
1 GAGGGAAGCAGAGC
9909427 AGCGTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.36, C:0.15, G:0.44, T:0.05
Consensus pattern (20 bp):
GAGGGAAGCAGAGCTAAAGC
Found at i:9909888 original size:43 final size:43
Alignment explanation
Indices: 9909841--9909940 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
9909831 TTTCGGTCAC
* *
9909841 AAACGCCACTAAAGACCCT-GATCTATAGCGGCGCTTTTACCAA
1 AAACGCCGCTAAAGACCCTAG-TCTATAGCGGCGCTTATACCAA
9909884 AAACGCCGCTAAAGACCCTAGTCTATAGCGGCGCTTATACCAA
1 AAACGCCGCTAAAGACCCTAGTCTATAGCGGCGCTTATACCAA
9909927 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
9909941 GTATTACTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
43 53 0.98
44 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTAGTCTATAGCGGCGCTTATACCAA
Found at i:9909957 original size:43 final size:43
Alignment explanation
Indices: 9909867--9910001 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 43
9909857 CCTGATCTAT
* * * *
9909867 AGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTAGTCTAT-
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCT-TC
* *
9909910 AGCGGCGCTTATACCAAAAACGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
* * * * * *
9909953 AGCGGTGCTTCTA-CTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
9909995 AGCGGCG
1 AGCGGCG
9910002 TTTGTGATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 31 0.40
43 46 0.60
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
Found at i:9912377 original size:41 final size:41
Alignment explanation
Indices: 9912315--9912490 Score: 298
Period size: 41 Copynumber: 4.3 Consensus size: 41
9912305 AATTTGACAT
* *
9912315 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
9912356 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
9912397 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
9912438 ATTCAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
9912479 ATTCAGATCACC
1 ATTCAGATCACC
9912491 AATTCCAAAC
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 126 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:9912717 original size:41 final size:41
Alignment explanation
Indices: 9912660--9912836 Score: 291
Period size: 41 Copynumber: 4.3 Consensus size: 41
9912650 TTCGTTCCTT
* *
9912660 TGATTCAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACC
*
9912701 TGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACC
* * * *
9912742 TGATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACC
9912783 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACC
9912824 TGATTCAGATCAC
1 TGATTCAGATCAC
9912837 AAATTTCAAT
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACC
Found at i:9919541 original size:22 final size:24
Alignment explanation
Indices: 9919516--9919562 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
9919506 CACAAGACAT
*
9919516 AAAGAAACTCAATAAA-A-CTTCG
1 AAAGAAACTAAATAAAGATCTTCG
*
9919538 AAAGAAATTAAATAAAGATCTTCG
1 AAAGAAACTAAATAAAGATCTTCG
9919562 A
1 A
9919563 TTTTGAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (24 bp):
AAAGAAACTAAATAAAGATCTTCG
Found at i:9923747 original size:29 final size:29
Alignment explanation
Indices: 9923705--9923765 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
9923695 GCTAGTGTTA
9923705 GTCCTCCAGTTTTATGTGTCAGTATTGAC
1 GTCCTCCAGTTTTATGTGTCAGTATTGAC
9923734 GTCCTCCAGTTTTATGTGTCAGTATTGAC
1 GTCCTCCAGTTTTATGTGTCAGTATTGAC
9923763 GTC
1 GTC
9923766 ATCTTCACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (29 bp):
GTCCTCCAGTTTTATGTGTCAGTATTGAC
Found at i:9928040 original size:15 final size:17
Alignment explanation
Indices: 9928019--9928059 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
9928009 TAATCTTTTA
9928019 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
9928035 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
9928051 AAAATTATA
1 AAAATTATA
9928060 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:9930729 original size:30 final size:30
Alignment explanation
Indices: 9930695--9930763 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
9930685 AAATATCTTA
9930695 ATTAAATTT-TT-AAACCAAATAAGTAGAGAG
1 ATTAAATTTCTTGAAA-CAAA-AAGTAGAGAG
* **
9930725 ATT-AATTTCTTGGAATTAAAAGTAGAGAG
1 ATTAAATTTCTTGAAACAAAAAGTAGAGAG
9930754 ATTAAATTTC
1 ATTAAATTTC
9930764 AAAAGTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 18 0.55
30 13 0.39
31 2 0.06
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (30 bp):
ATTAAATTTCTTGAAACAAAAAGTAGAGAG
Found at i:9931255 original size:20 final size:18
Alignment explanation
Indices: 9931216--9931255 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
9931206 AATTTAAATC
*
9931216 TTAAAATTTTTATTATTT
1 TTAAAATTTTTATAATTT
9931234 TTAATAATTTTATATAATTT
1 TTAA-AATTTT-TATAATTT
9931254 TT
1 TT
9931256 TACTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAAAATTTTTATAATTT
Found at i:9931331 original size:21 final size:21
Alignment explanation
Indices: 9931293--9931332 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9931283 TCTTATAATC
** *
9931293 TATTTTTTTATTATAAATTTT
1 TATTTTTTTAAAAGAAATTTT
9931314 TATTTTTTTAAAAGAAATT
1 TATTTTTTTAAAAGAAATT
9931333 CAGATGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTTTTAAAAGAAATTTT
Found at i:9934416 original size:18 final size:18
Alignment explanation
Indices: 9934390--9934425 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
9934380 TTTAATTAAG
9934390 AAAAATA-TTAAAATAAA
1 AAAAATATTTAAAATAAA
9934407 AAAAATTATTTAAAATAAA
1 AAAAA-TATTTAAAATAAA
9934426 TTTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 2 0.12
19 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATATTTAAAATAAA
Found at i:9936311 original size:16 final size:16
Alignment explanation
Indices: 9936290--9936329 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9936280 AAATCCCAAC
*
9936290 GAATATATATGTATAT
1 GAATATATATATATAT
*
9936306 GAATATATGTATATAT
1 GAATATATATATATAT
*
9936322 GAAAATAT
1 GAATATAT
9936330 CAAAAATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (16 bp):
GAATATATATATATAT
Found at i:9936417 original size:24 final size:26
Alignment explanation
Indices: 9936360--9936417 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
9936350 TATTTAAGTA
9936360 ATAATATATAAAAACTTAAGATAACGCC
1 ATAATA-ATAAAAAC-TAAGATAACGCC
*
9936388 AT-ATAATAAAAA-TAATATAA-GCC
1 ATAATAATAAAAACTAAGATAACGCC
9936411 ATAATAA
1 ATAATAA
9936418 AATTAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 5 0.18
24 11 0.39
26 7 0.25
27 3 0.11
28 2 0.07
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (26 bp):
ATAATAATAAAAACTAAGATAACGCC
Found at i:9937136 original size:11 final size:11
Alignment explanation
Indices: 9937122--9937147 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9937112 GAAAACAGAG
9937122 AAAAAAGAAAA
1 AAAAAAGAAAA
9937133 AAAAAAGAAAA
1 AAAAAAGAAAA
9937144 AAAA
1 AAAA
9937148 TCAAACGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:9938316 original size:19 final size:19
Alignment explanation
Indices: 9938292--9938350 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
9938282 TCAAATTTTT
*
9938292 TATCATTTTCTATAAGGTG
1 TATCATTTTCTATAAAGTG
* ** *
9938311 TATCATTTGCTCA-AATTTT
1 TATCATTTTCT-ATAAAGTG
9938330 TATCATTTTCTATAAAGTG
1 TATCATTTTCTATAAAGTG
9938349 TA
1 TA
9938351 GGACATATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (19 bp):
TATCATTTTCTATAAAGTG
Found at i:9938339 original size:38 final size:39
Alignment explanation
Indices: 9938272--9938350 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 39
9938262 CAATGTGCCT
*
9938272 TATCATTTACTCAAATTTTTTATCATTTTCTATAAGGTG
1 TATCATTTACTCAAATTTTTTATCATTTTCTATAAAGTG
*
9938311 TATCATTTGCTCAAA-TTTTTATCATTTTCTATAAAGTG
1 TATCATTTACTCAAATTTTTTATCATTTTCTATAAAGTG
9938349 TA
1 TA
9938351 GGACATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 24 0.63
39 14 0.37
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.51
Consensus pattern (39 bp):
TATCATTTACTCAAATTTTTTATCATTTTCTATAAAGTG
Found at i:9940430 original size:17 final size:17
Alignment explanation
Indices: 9940408--9940444 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9940398 GGTGATAAAT
9940408 ATAAAA-AAATTAAAGAA
1 ATAAAAGAAATTAAA-AA
9940425 ATAAAAGAAATTAAAAA
1 ATAAAAGAAATTAAAAA
9940442 ATA
1 ATA
9940445 CCTAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
ATAAAAGAAATTAAAAA
Found at i:9944271 original size:38 final size:38
Alignment explanation
Indices: 9944220--9944295 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
9944210 AAACTTTTTC
*
9944220 ATGAAACACAAAGAACAAGTCCGATGGGTTGTCATGCA
1 ATGAAACACAAAGAACAAGTCCGACGGGTTGTCATGCA
9944258 ATGAAACACAAAGAACAAGTCCGACGGGTTGTCATGCA
1 ATGAAACACAAAGAACAAGTCCGACGGGTTGTCATGCA
9944296 TACGGATTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (38 bp):
ATGAAACACAAAGAACAAGTCCGACGGGTTGTCATGCA
Found at i:9946635 original size:179 final size:178
Alignment explanation
Indices: 9946335--9946695 Score: 555
Period size: 179 Copynumber: 2.0 Consensus size: 178
9946325 ACAACCACAT
* * **
9946335 AGAGTTTGATTTTAGAAACTCACCAGAAAAATACCTGAAATGTGGTACTAATTACATTTACTTAG
1 AGAGTTTGAGTTTAGAAACTCACCAGAAAAATACCTGAAATGTGGTACCAATTACACCTACTTAG
*
9946400 CTTTTCCTTATCACTTGAGCCTCCTCACTCTCGGTTAGCTAAACATAATAATCATATCAAGATAA
66 CTTTTCCTTATCACTTGAGCCTCCTCACTCTCGATTAGCTAAACATAATAATCATATCAAGAT-A
* * * *
9946465 AAAAAGATGGATTTTAAATGTAAGAAAATCATAATTCATTTGCATGCGG
130 AAAAAGAAGGATTTCAAATGTAAGAAAACCATAATTCATTTGCATGCAG
* * *
9946514 AGAGTTTGAGTTTAGAAACTCACCAGCAAAATACCTGAAA-GTAGGTACCGATTACACCTGCTTA
1 AGAGTTTGAGTTTAGAAACTCACCAGAAAAATACCTGAAATGT-GGTACCAATTACACCTACTTA
*
9946578 GCTTTTCCTTATCACTTGAGCCTCCTC-CTTCTCGATTAGCTAAACATAATAATCATATCAATAT
65 GCTTTTCCTTATCACTTGAGCCTCCTCAC-TCTCGATTAGCTAAACATAATAATCATATCAAGAT
*
9946642 AAAAAAGAAGGCTTTCAAATGTAAGAAAACCATAATTCATTTGCATGCAG
129 AAAAAAGAAGGATTTCAAATGTAAGAAAACCATAATTCATTTGCATGCAG
9946692 AGAG
1 AGAG
9946696 AATTTAAATT
Statistics
Matches: 166, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
178 52 0.31
179 114 0.69
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (178 bp):
AGAGTTTGAGTTTAGAAACTCACCAGAAAAATACCTGAAATGTGGTACCAATTACACCTACTTAG
CTTTTCCTTATCACTTGAGCCTCCTCACTCTCGATTAGCTAAACATAATAATCATATCAAGATAA
AAAAGAAGGATTTCAAATGTAAGAAAACCATAATTCATTTGCATGCAG
Found at i:9954549 original size:12 final size:12
Alignment explanation
Indices: 9954532--9954557 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9954522 GTAATAGAAG
9954532 TCTTGAGAGCAT
1 TCTTGAGAGCAT
9954544 TCTTGAGAGCAT
1 TCTTGAGAGCAT
9954556 TC
1 TC
9954558 ACTCAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (12 bp):
TCTTGAGAGCAT
Found at i:9962437 original size:17 final size:17
Alignment explanation
Indices: 9962415--9962470 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
9962405 TTCTTTTCTT
9962415 TTATTTTCTAAATACAA
1 TTATTTTCTAAATACAA
* *
9962432 TTATTTTCTAAAAAAAA
1 TTATTTTCTAAATACAA
*
9962449 TTATTTTTTAAATACAA
1 TTATTTTCTAAATACAA
9962466 TTATT
1 TTATT
9962471 CACCGATGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTTTCTAAATACAA
Found at i:9965969 original size:21 final size:21
Alignment explanation
Indices: 9965944--9965986 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9965934 CACTAAAAAC
9965944 TACTTTACAAAATAATCTTAT
1 TACTTTACAAAATAATCTTAT
9965965 TACTTTACAAAATAATCTTAT
1 TACTTTACAAAATAATCTTAT
9965986 T
1 T
9965987 TAACAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (21 bp):
TACTTTACAAAATAATCTTAT
Found at i:9968848 original size:18 final size:17
Alignment explanation
Indices: 9968802--9968855 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
9968792 TTTCCAATTC
*
9968802 TCAATTCAAATTCACTT
1 TCAATTCAAATTAACTT
* *
9968819 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTAACTT
9968837 TCAATATCAAATTAACTT
1 TCAAT-TCAAATTAACTT
9968855 T
1 T
9968856 TTCATTCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTAACTT
Found at i:9970027 original size:33 final size:32
Alignment explanation
Indices: 9969979--9970050 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
9969969 TATTTATCAT
9969979 ATAAAA-ATCTTTTACTAATTAGTA-ATAAATA
1 ATAAAATATCTTTTACTAATTA-TATATAAATA
9970010 ATAAAATATCTTTTTACTAATTATATATAAATA
1 ATAAAATATC-TTTTACTAATTATATATAAATA
9970043 ATACAAAT
1 ATA-AAAT
9970051 GTACTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 5 0.14
33 22 0.59
34 4 0.11
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (32 bp):
ATAAAATATCTTTTACTAATTATATATAAATA
Found at i:9970132 original size:8 final size:8
Alignment explanation
Indices: 9970119--9970171 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
9970109 AATTTATTTC
*
9970119 ATAATATA
1 ATAATAAA
*
9970127 ATAATATA
1 ATAATAAA
**
9970135 ATCAATTTA
1 AT-AATAAA
9970144 ATATATAAA
1 ATA-ATAAA
9970153 ATAATAAA
1 ATAATAAA
9970161 ATAATAAA
1 ATAATAAA
9970169 ATA
1 ATA
9970172 TTTTACTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
8 27 0.68
9 13 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAATAAA
Found at i:9970189 original size:123 final size:123
Alignment explanation
Indices: 9970052--9970299 Score: 460
Period size: 123 Copynumber: 2.0 Consensus size: 123
9970042 AATACAAATG
*
9970052 TACTCATTTAAATTAATACACTTGTATTTTATTTTTACCTTACACTTGTCTTTTCTTAATTTATT
1 TACTCATTTAAATTAATACACTTGTATTTTATTTTTACCTTACACTTCTCTTTTCTTAATTTATT
9970117 TCATAATATAATAATATAATCAATTTAATATATAAAATAATAAAATAATAAAATATTT
66 TCATAATATAATAATATAATCAATTTAATATATAAAATAATAAAATAATAAAATATTT
*
9970175 TACTCATTTAAATTAATACATTTGTATTTTATTTTTACCTTACACTTCTCTTTTCTTAATTTATT
1 TACTCATTTAAATTAATACACTTGTATTTTATTTTTACCTTACACTTCTCTTTTCTTAATTTATT
* *
9970240 TCATAATATAATAATATAATCAATTTAATTTATAATATAATAAAATAATAAAATATTT
66 TCATAATATAATAATATAATCAATTTAATATATAAAATAATAAAATAATAAAATATTT
9970298 TA
1 TA
9970300 TGATTAATTT
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (123 bp):
TACTCATTTAAATTAATACACTTGTATTTTATTTTTACCTTACACTTCTCTTTTCTTAATTTATT
TCATAATATAATAATATAATCAATTTAATATATAAAATAATAAAATAATAAAATATTT
Found at i:9970274 original size:29 final size:29
Alignment explanation
Indices: 9970232--9970288 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9970222 CTCTTTTCTT
*
9970232 AATTTATTTCATAATATAATAATATAATC
1 AATTTATTTCATAATATAATAAAATAATC
9970261 AATTTAATTT-ATAATATAATAAAATAAT
1 AATTT-ATTTCATAATATAATAAAATAAT
9970289 AAAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTATTTCATAATATAATAAAATAATC
Found at i:9971126 original size:58 final size:57
Alignment explanation
Indices: 9971063--9971172 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
9971053 GTGAAATAGA
* * *
9971063 GAAATAGGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATAAAAATGGC
1 GAAATA-GAAACATTTGAAAATGAATATGATTTTCTCCAAAATAAAAATAAAAATGGC
** * *
9971121 GAAATAGAATTATTTGGAAATGAATGTGATTTTCTCCAAAATAAAAATAAAA
1 GAAATAGAAACATTTGAAAATGAATATGATTTTCTCCAAAATAAAAATAAAA
9971173 TGAATAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 39 0.87
58 6 0.13
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.29
Consensus pattern (57 bp):
GAAATAGAAACATTTGAAAATGAATATGATTTTCTCCAAAATAAAAATAAAAATGGC
Found at i:9972942 original size:110 final size:110
Alignment explanation
Indices: 9972748--9972971 Score: 340
Period size: 110 Copynumber: 2.0 Consensus size: 110
9972738 AGGAAGATTA
* * * * *
9972748 ACTCACTTTAGGGTTTGTAAATAACTTCGAATTAGGGTTTTAGGGTGGATTAGTTATCGATTAAC
1 ACTCACTTCAGGGTTTGTAAATAACTTCAAATTAGGGTTTTAGAGTGGATTAGCTATCAATTAAC
* *
9972813 CAATTATTACCTCTCGGCCTCTAATTAACTCATCAATTAGTCGAT
66 AAATTATTACCTCTCGGCCTCTAATTAACTAATCAATTAGTCGAT
* *
9972858 ACTCACTTCAGGGTTTGTAACTAACTTCAAATTAGGGTTTTAGAGTGGATTAGCTATCAATTAAT
1 ACTCACTTCAGGGTTTGTAAATAACTTCAAATTAGGGTTTTAGAGTGGATTAGCTATCAATTAAC
* * *
9972923 AAATTATTACCTCTTGGCCTCTAATTAACTAATCAATTGGTTGAT
66 AAATTATTACCTCTCGGCCTCTAATTAACTAATCAATTAGTCGAT
9972968 ACTC
1 ACTC
9972972 GCTATCTTCC
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (110 bp):
ACTCACTTCAGGGTTTGTAAATAACTTCAAATTAGGGTTTTAGAGTGGATTAGCTATCAATTAAC
AAATTATTACCTCTCGGCCTCTAATTAACTAATCAATTAGTCGAT
Found at i:9976347 original size:9 final size:9
Alignment explanation
Indices: 9976330--9976384 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
9976320 TGAGTTTTCA
9976330 AATTCGAAT
1 AATTCGAAT
*
9976339 AAGTCGAAT
1 AATTCGAAT
9976348 AATTCGAAT
1 AATTCGAAT
*
9976357 AACTCGAAT
1 AATTCGAAT
9976366 AATTCGAAT
1 AATTCGAAT
9976375 AATTCGAAT
1 AATTCGAAT
9976384 A
1 A
9976385 TCAAACTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9978304 original size:26 final size:26
Alignment explanation
Indices: 9978268--9978319 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9978258 GTTTGGTAAG
*
9978268 TTGGGGCTCGCCAGTTAAGTTACGAA
1 TTGGGGCTCGCCAGGTAAGTTACGAA
* *
9978294 TTGGGGTTCGCCAGGTAAGTTGCGAA
1 TTGGGGCTCGCCAGGTAAGTTACGAA
9978320 CTAGGGATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (26 bp):
TTGGGGCTCGCCAGGTAAGTTACGAA
Found at i:9981790 original size:9 final size:9
Alignment explanation
Indices: 9981775--9981804 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9981765 CCTAATCTGA
9981775 AACAATTAT
1 AACAATTAT
*
9981784 GACAATTAT
1 AACAATTAT
9981793 AACAATTAT
1 AACAATTAT
9981802 AAC
1 AAC
9981805 CCTAATATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (9 bp):
AACAATTAT
Found at i:9985635 original size:21 final size:21
Alignment explanation
Indices: 9985609--9985659 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9985599 TAGGAATTTT
9985609 TTTATTTTTAATTTTAGGAAA
1 TTTATTTTTAATTTTAGGAAA
* ***
9985630 TTTATTTTTATTTTTTTTAAA
1 TTTATTTTTAATTTTAGGAAA
9985651 TTTATTTTT
1 TTTATTTTT
9985660 CTTCTCTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTATTTTTAATTTTAGGAAA
Found at i:9989009 original size:13 final size:13
Alignment explanation
Indices: 9988991--9989015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9988981 ATTTTCAAGA
9988991 AAATTCTTTAATC
1 AAATTCTTTAATC
9989004 AAATTCTTTAAT
1 AAATTCTTTAAT
9989016 TGAACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:9990737 original size:34 final size:34
Alignment explanation
Indices: 9990694--9990761 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9990684 GTAAAATGAA
9990694 GTGGGAGCTTTCCATTTACTTGTTTATTACATGC
1 GTGGGAGCTTTCCATTTACTTGTTTATTACATGC
9990728 GTGGGAGCTTTCCATTTACTTGTTTATTACATGC
1 GTGGGAGCTTTCCATTTACTTGTTTATTACATGC
9990762 TTAGGTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (34 bp):
GTGGGAGCTTTCCATTTACTTGTTTATTACATGC
Found at i:9991347 original size:22 final size:22
Alignment explanation
Indices: 9991300--9991350 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
9991290 GGTGGCTTAA
*
9991300 AATTAAAAAAAGATTAGTAAGTT
1 AATT-AAAAAAGATTAGTAAGAT
*
9991323 AATTAAAAAAGATTAATTAA-AT
1 AATTAAAAAAGATT-AGTAAGAT
9991345 AATTAA
1 AATTAA
9991351 TTATAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (22 bp):
AATTAAAAAAGATTAGTAAGAT
Found at i:9992000 original size:18 final size:18
Alignment explanation
Indices: 9991977--9992012 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9991967 ACACATCTCT
9991977 CCACTAAAACTGAGACTC
1 CCACTAAAACTGAGACTC
9991995 CCACTAAAACTGAGACTC
1 CCACTAAAACTGAGACTC
9992013 TTACGATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.33, G:0.11, T:0.17
Consensus pattern (18 bp):
CCACTAAAACTGAGACTC
Found at i:9998885 original size:21 final size:21
Alignment explanation
Indices: 9998859--9998902 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9998849 ACCCGCCCAT
*
9998859 ATTAAAAAAATTATACAAAAA
1 ATTAAAAAAATAATACAAAAA
* *
9998880 ATTAAAAATATAATACATAAA
1 ATTAAAAAAATAATACAAAAA
9998901 AT
1 AT
9998903 AAACTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
ATTAAAAAAATAATACAAAAA
Found at i:10003865 original size:32 final size:32
Alignment explanation
Indices: 10003829--10003895 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
10003819 CTTACGCCCC
10003829 TGCTTGGTTTTCATAGAATGAATGACTGATCG
1 TGCTTGGTTTTCATAGAATGAATGACTGATCG
10003861 TGCTTGGTTTTCATAGAATGAATGACTGATCG
1 TGCTTGGTTTTCATAGAATGAATGACTGATCG
10003893 TGC
1 TGC
10003896 CCTGGCGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.37
Consensus pattern (32 bp):
TGCTTGGTTTTCATAGAATGAATGACTGATCG
Found at i:10024450 original size:20 final size:20
Alignment explanation
Indices: 10024427--10024465 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10024417 TATTTCAATC
*
10024427 AAGTTAGAAT-TTTTGTAAAG
1 AAGTTAAAATATTTT-TAAAG
10024447 AAGTTAAAATATTTTTAAA
1 AAGTTAAAATATTTTTAAA
10024466 CATGTCAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (20 bp):
AAGTTAAAATATTTTTAAAG
Found at i:10031634 original size:50 final size:51
Alignment explanation
Indices: 10031540--10031653 Score: 176
Period size: 50 Copynumber: 2.3 Consensus size: 51
10031530 ATTTCTGATC
* *
10031540 AGTGACAAGTGATAAGTAGTAGCTTCAGCTAAACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAACTTCAGCTAAACTTATCTGATCAGGGACA
* * *
10031591 AGTGACAAGTGATAAGTGGTAACTT-AGCTACACTTATTTGATCAGGGACA
1 AGTGACAAGTGATAAGTAGTAACTTCAGCTAAACTTATCTGATCAGGGACA
10031641 AGTGACAAGTGAT
1 AGTGACAAGTGAT
10031654 CATACGTAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 35 0.60
51 23 0.40
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTAGTAACTTCAGCTAAACTTATCTGATCAGGGACA
Found at i:10033313 original size:20 final size:21
Alignment explanation
Indices: 10033288--10033339 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
10033278 TCAACTTTTA
10033288 AATCAAGTTAAAATTATT-TC
1 AATCAAGTTAAAATTATTGTC
* *
10033308 AATCAAGTTAGAATTTTTGTC
1 AATCAAGTTAAAATTATTGTC
10033329 AAT-AAGTTAAA
1 AATCAAGTTAAA
10033340 TTGTTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
AATCAAGTTAAAATTATTGTC
Found at i:10050301 original size:6 final size:6
Alignment explanation
Indices: 10050292--10050317 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10050282 TCTCCTGCTC
10050292 TCCTCT TCCTCT TCCTCT TCCTCT TC
1 TCCTCT TCCTCT TCCTCT TCCTCT TC
10050318 TTTAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTCT
Found at i:10055471 original size:16 final size:15
Alignment explanation
Indices: 10055450--10055479 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10055440 AATCTCTTTC
10055450 TAAAATTTTATATTAT
1 TAAAATTTTA-ATTAT
10055466 TAAAATTTTAATTA
1 TAAAATTTTAATTA
10055480 GATAACCTTA
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:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAAATTTTAATTAT
Found at i:10065510 original size:18 final size:17
Alignment explanation
Indices: 10065458--10065512 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
10065448 GATTATAAGG
10065458 AATAATGAGAAAT-AAA
1 AATAATGAGAAATAAAA
* *
10065474 AA-AAT-AAAAAGAAATA
1 AATAATGAGAAATAAA-A
10065490 AATAATGAGAAATAAACA
1 AATAATGAGAAATAAA-A
10065508 AATAA
1 AATAA
10065513 ACTAAATCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 5 0.17
17 3 0.10
18 13 0.43
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (17 bp):
AATAATGAGAAATAAAA
Found at i:10068997 original size:174 final size:170
Alignment explanation
Indices: 10068717--10069048 Score: 463
Period size: 174 Copynumber: 1.9 Consensus size: 170
10068707 GAAGCCAGAG
* * * *
10068717 GATCTTATCTCCCTGAGATTACAGCGGGGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTA
* *
10068782 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCTT
10068847 ATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTCA
131 ATCTCCCTGAAGA-TACAGTGGAACAGACCAAAGAATTTCA
*
10068887 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGTT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-TT
* * * *
10068950 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCA
65 ACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCA
* *
10069015 AGTCTTATTTCCCTGAAGATGCAGTGGAACAGAC
125 AGTCTTATCTCCCTGAAGATACAGTGGAACAGAC
10069049 TGAAAACAAG
Statistics
Matches: 142, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
168 1 0.01
169 28 0.20
170 41 0.29
174 69 0.49
175 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (170 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTA
CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCTT
ATCTCCCTGAAGATACAGTGGAACAGACCAAAGAATTTCA
Found at i:10070720 original size:22 final size:23
Alignment explanation
Indices: 10070695--10070740 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10070685 ATAATTGCTT
10070695 TTATAGATATATACATATA-TTA
1 TTATAGATATATACATATACTTA
* * *
10070717 TTATATATTTTTACATATACTTA
1 TTATAGATATATACATATACTTA
10070740 T
1 T
10070741 ACACATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATAGATATATACATATACTTA
Found at i:10070748 original size:22 final size:22
Alignment explanation
Indices: 10070706--10070750 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10070696 TATAGATATA
* *
10070706 TACATATATTATTATATATTTT
1 TACATATATTATTACACATTTT
10070728 TACATATACTTA-TACACATTTT
1 TACATATA-TTATTACACATTTT
10070750 T
1 T
10070751 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (22 bp):
TACATATATTATTACACATTTT
Found at i:10070869 original size:24 final size:24
Alignment explanation
Indices: 10070842--10070896 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
10070832 ATTTCTAACC
10070842 TTTATAAATATATATATACATATT
1 TTTATAAATATATATATACATATT
* * *
10070866 TTTACATATATATATGTACATATT
1 TTTATAAATATATATATACATATT
10070890 TTATATA
1 TT-TATA
10070897 TTTTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATAAATATATATATACATATT
Found at i:10075629 original size:18 final size:18
Alignment explanation
Indices: 10075606--10075640 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10075596 ATAATATTAT
*
10075606 TACAAAATATCAAAAAAA
1 TACAAAATACCAAAAAAA
*
10075624 TACAAATTACCAAAAAA
1 TACAAAATACCAAAAAA
10075641 TGAGAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (18 bp):
TACAAAATACCAAAAAAA
Found at i:10079339 original size:12 final size:12
Alignment explanation
Indices: 10079315--10079348 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10079305 TTTTTCAAAC
10079315 ATTAAGTTAATTA
1 ATTAAG-TAATTA
10079328 ATTAAGTAATTA
1 ATTAAGTAATTA
10079340 ATTAAGTAA
1 ATTAAGTAA
10079349 GTAAGGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (12 bp):
ATTAAGTAATTA
Found at i:10081517 original size:37 final size:37
Alignment explanation
Indices: 10081409--10081517 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
10081399 GGAAATATAT
*
10081409 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
10081446 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * **
10081483 TCCGGCTAAGGCCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
10081518 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:10082753 original size:12 final size:12
Alignment explanation
Indices: 10082729--10082762 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10082719 TTTTTCAAAC
10082729 ATTAAGTTAATTA
1 ATTAAG-TAATTA
10082742 ATTAAGTAATTA
1 ATTAAGTAATTA
10082754 ATTAAGTAA
1 ATTAAGTAA
10082763 GTAAGGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (12 bp):
ATTAAGTAATTA
Found at i:10088111 original size:17 final size:17
Alignment explanation
Indices: 10088089--10088123 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10088079 AAATATATTT
10088089 TTTTTGGTTTTTTTTAG
1 TTTTTGGTTTTTTTTAG
10088106 TTTTTGGTTTTTTTTAG
1 TTTTTGGTTTTTTTTAG
10088123 T
1 T
10088124 ATAACATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.17, T:0.77
Consensus pattern (17 bp):
TTTTTGGTTTTTTTTAG
Found at i:10091825 original size:5 final size:5
Alignment explanation
Indices: 10091797--10091862 Score: 79
Period size: 5 Copynumber: 14.0 Consensus size: 5
10091787 TTTTTATGCT
10091797 TTATA -TATA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
*
10091843 TTATA TTGTA TTATA TTATA
1 TTATA TTATA TTATA TTATA
10091863 AAAGTAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 1 0.02
4 11 0.21
5 40 0.75
6 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:10092720 original size:21 final size:21
Alignment explanation
Indices: 10092678--10092731 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
10092668 AATAAAAATT
*
10092678 TTATTATTATTGTTAATATAA
1 TTATTATTATTATTAATATAA
* *
10092699 TTATTATTATTATTATTTTAA
1 TTATTATTATTATTAATATAA
* *
10092720 TGATTATAATTA
1 TTATTATTATTA
10092732 AAAGTGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TTATTATTATTATTAATATAA
Found at i:10098057 original size:289 final size:287
Alignment explanation
Indices: 10097579--10098118 Score: 780
Period size: 289 Copynumber: 1.9 Consensus size: 287
10097569 CAGGCCGAGG
10097579 CTGGGCCAAAAATGCCTTACCCGAGGCCCAACCCATTTTTTAAACGGACCTTATTTTTTTACCCA
1 CTGGGCCAAAAATGCCTTACCCGAGGCCCAACCCATTTTTTAAACGGACCTTATTTTTTTACCCA
* *
10097644 AACTCATTTTTCGAGCCTATACTTTTACCCAAACCTTCTCACTTTTCAGGCAGACCTTCGGGCCG
66 AACTCATTTTTCGAACCTATACTTTTACCCAAACCTTCTCACTTTCCAGGCAGACCTTCGGGCCG
* * * * * * *
10097709 TGCCTGGTGACCAGACCCATTAACAGTTCTAGTTCCACTTAGTTGGCCTGATCCATTTTTAGATT
131 GGCCTGGTAACCAGACCCATGAACAGATCTAGTTCCACTCAGTTGGCCCGATCCATTTTTAGACT
*
10097774 GGACCTGGCTTAAGCTTTTAATGTTAGGTTGCTTTAGGCTTACCTATTTTACTATTTTTTTGTCC
196 GAACCTGGCTTAAGCTTTTAATGTTAGGTTGCTTTAGGCTTACCTATTTTACTATTTTTTTGTCC
10097839 TTTTGTGAATTCGGGTCGGGCCTGGGC
261 TTTTGTGAATTCGGGTCGGGCCTGGGC
* * * *
10097866 CTGGGCCAAAAATGTCTTACCCGAGGCCCGACTCATTTTTTAAACGGACCTTATTTTTTTTTATC
1 CTGGGCCAAAAATGCCTTACCCGAGGCCCAACCCATTTTTTAAACGGACCTTA--TTTTTTTACC
* * * *
10097931 TAAACTCATTTTTTGAATCTATA-TTTTGACCCAAA-TTATCTCACTTTCCAGGCAGACCTTCGG
64 CAAACTCATTTTTCGAACCTATACTTTT-ACCCAAACCT-TCTCACTTTCCAGGCAGACCTTCGG
* ** * *
10097994 GTCGGGCC-GAGTAACTTGACCCATGAACAGATCTATTTTCACTCAGTTGGCCCGATCCATTTTT
127 GCCGGGCCTG-GTAACCAGACCCATGAACAGATCTAGTTCCACTCAGTTGGCCCGATCCATTTTT
* * *
10098058 GGACTGAACTTGGCTTAAGCTTTTAATGTTAGGTTGTTTTAGGCTTACCTATTTTACTATT
191 AGACTGAACCTGGCTTAAGCTTTTAATGTTAGGTTGCTTTAGGCTTACCTATTTTACTATT
10098119 CAAATTAATA
Statistics
Matches: 222, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
287 50 0.23
288 6 0.03
289 166 0.75
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (287 bp):
CTGGGCCAAAAATGCCTTACCCGAGGCCCAACCCATTTTTTAAACGGACCTTATTTTTTTACCCA
AACTCATTTTTCGAACCTATACTTTTACCCAAACCTTCTCACTTTCCAGGCAGACCTTCGGGCCG
GGCCTGGTAACCAGACCCATGAACAGATCTAGTTCCACTCAGTTGGCCCGATCCATTTTTAGACT
GAACCTGGCTTAAGCTTTTAATGTTAGGTTGCTTTAGGCTTACCTATTTTACTATTTTTTTGTCC
TTTTGTGAATTCGGGTCGGGCCTGGGC
Found at i:10103689 original size:9 final size:9
Alignment explanation
Indices: 10103677--10103784 Score: 69
Period size: 9 Copynumber: 11.4 Consensus size: 9
10103667 TTTTTATGCA
10103677 TTTTATAATTT
1 TTTTATAA--T
10103688 TTTTATAAT
1 TTTTATAAT
10103697 TTTTAT-AT
1 TTTTATAAT
*
10103705 TTTTCCTAAT
1 TTTT-ATAAT
*
10103715 TTTTAATATTT
1 TTTT-ATA-AT
10103726 TTTTATTAAT
1 TTTTA-TAAT
*
10103736 GTTTAATAAT
1 -TTTTATAAT
*
10103746 TTTTATAAA
1 TTTTATAAT
* *
10103755 TCTTATTCAT
1 TTTTA-TAAT
10103765 TTTTAT--T
1 TTTTATAAT
10103772 TTTTATAAT
1 TTTTATAAT
10103781 TTTT
1 TTTT
10103785 TGCCACATGT
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.09
8 6 0.08
9 25 0.32
10 20 0.26
11 19 0.25
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10110957 original size:10 final size:10
Alignment explanation
Indices: 10110942--10110966 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10110932 TAATTTCATG
10110942 TATATACATA
1 TATATACATA
10110952 TATATACATA
1 TATATACATA
10110962 TATAT
1 TATAT
10110967 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATACATA
Found at i:10111313 original size:31 final size:31
Alignment explanation
Indices: 10111275--10111335 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
10111265 CGTGTTTAGA
*
10111275 TTCGAGAAGGTCGTACCCTAACTTACTGGGT
1 TTCGAGAAGATCGTACCCTAACTTACTGGGT
** *
10111306 TTCGAGAAGATCGTGTCCTAACTTATTGGG
1 TTCGAGAAGATCGTACCCTAACTTACTGGG
10111336 AATGATCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (31 bp):
TTCGAGAAGATCGTACCCTAACTTACTGGGT
Found at i:10112411 original size:20 final size:20
Alignment explanation
Indices: 10112365--10112404 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10112355 ATATATTATT
*
10112365 ACTATTCATGACAGGACCCC
1 ACTATTCATGACACGACCCC
*
10112385 ACTATTCATGACTCGACCCC
1 ACTATTCATGACACGACCCC
10112405 GTTATTCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.23
Consensus pattern (20 bp):
ACTATTCATGACACGACCCC
Found at i:10114372 original size:23 final size:23
Alignment explanation
Indices: 10114346--10114434 Score: 56
Period size: 23 Copynumber: 3.8 Consensus size: 23
10114336 ATTACTTGAA
10114346 TTTTATACTTTATATATATATAT
1 TTTTATACTTTATATATATATAT
* * *
10114369 TTTT-TATCTTCATAAATACATATAC
1 TTTTATA-CTT--TATATATATATAT
** *
10114394 TTTTATGTTTTTTATATATAT-T
1 TTTTATACTTTATATATATATAT
* *
10114416 TTTGTATAGTTTTTATATA
1 TTT-TATACTTTATATATA
10114435 CCTACATAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
22 5 0.10
23 28 0.56
25 16 0.32
26 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (23 bp):
TTTTATACTTTATATATATATAT
Found at i:10114699 original size:14 final size:16
Alignment explanation
Indices: 10114675--10114706 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10114665 TAGGAAATGC
10114675 TTTAGTTTATTT-TAT
1 TTTAGTTTATTTATAT
10114690 TTTA-TTTATTTATAT
1 TTTAGTTTATTTATAT
10114705 TT
1 TT
10114707 CATATACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTAGTTTATTTATAT
Found at i:10117521 original size:22 final size:22
Alignment explanation
Indices: 10117494--10117537 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10117484 TGCCTCTNTC
10117494 AGGAACAAATTGAATTTTCGGT
1 AGGAACAAATTGAATTTTCGGT
10117516 AGGAACAAATTGAATTTTCGGT
1 AGGAACAAATTGAATTTTCGGT
10117538 CGGAGCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (22 bp):
AGGAACAAATTGAATTTTCGGT
Found at i:10118889 original size:29 final size:30
Alignment explanation
Indices: 10118847--10118905 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
10118837 TATGGTTTAA
* *
10118847 TGTGTAATTGTATATATGAA-CTTTGATTT
1 TGTGCAATTGTATACATGAATCTTTGATTT
* *
10118876 TGTGCAATTTTATACATGAATTTTTGATTT
1 TGTGCAATTGTATACATGAATCTTTGATTT
10118906 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAATCTTTGATTT
Found at i:10121157 original size:22 final size:22
Alignment explanation
Indices: 10121132--10121182 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10121122 AGCATATTAA
* *
10121132 TGCTTTCCGTTTAGCACATTT-G
1 TGCTCTCCGTATAGCAC-TTTAG
*
10121154 TGCTCTCTGTATAGCACTTTAG
1 TGCTCTCCGTATAGCACTTTAG
10121176 TGCTCTC
1 TGCTCTC
10121183 TGTTCAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (22 bp):
TGCTCTCCGTATAGCACTTTAG
Found at i:10121183 original size:22 final size:22
Alignment explanation
Indices: 10121143--10121185 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10121133 GCTTTCCGTT
10121143 TAGCACATTTGTGCTCTCTGTA
1 TAGCACATTTGTGCTCTCTGTA
10121165 TAGCAC-TTTAGTGCTCTCTGT
1 TAGCACATTT-GTGCTCTCTGT
10121186 TCAATAGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (22 bp):
TAGCACATTTGTGCTCTCTGTA
Found at i:10134587 original size:22 final size:22
Alignment explanation
Indices: 10134561--10134627 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
10134551 TCTCCGATTA
*
10134561 TTAGCACATTAGTCCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
*
10134583 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
10134605 GTAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
10134627 T
1 T
10134628 CAATAGTGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:10140457 original size:41 final size:41
Alignment explanation
Indices: 10140367--10140457 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
10140357 TCTACATATG
* *
10140367 TATATATACGTACCTATATATTTTTCTTATATTTCATAATT
1 TATATATACGTACCTATATATTATTCTTATATTTCATAATA
* * **
10140408 TTTTTATACGTGTCTATATAATTATT-TTAT-TTTCATAAATA
1 TATATATACGTACCTATAT-ATTATTCTTATATTTCAT-AATA
10140449 TATATATAC
1 TATATATAC
10140458 TTACATATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
40 6 0.15
41 29 0.73
42 5 0.12
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (41 bp):
TATATATACGTACCTATATATTATTCTTATATTTCATAATA
Found at i:10140766 original size:16 final size:16
Alignment explanation
Indices: 10140741--10140779 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10140731 AAAGTATACA
10140741 TATATATACATACTTT
1 TATATATACATACTTT
* **
10140757 TATATGTACATGTTTT
1 TATATATACATACTTT
10140773 TATATAT
1 TATATAT
10140780 TTTTATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:10140911 original size:4 final size:4
Alignment explanation
Indices: 10140888--10140964 Score: 59
Period size: 4 Copynumber: 18.8 Consensus size: 4
10140878 TTATTATTAT
* * **
10140888 TTTA CTTTA TGTTCA TTTA TTTA TTTA TTTA TTTA TATG TCCA TTT- TTTA
1 TTTA -TTTA T-TT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
10140938 TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTT
10140965 GTTATTCTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
3 5 0.09
4 39 0.67
5 12 0.21
6 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:10141284 original size:108 final size:108
Alignment explanation
Indices: 10141095--10141423 Score: 547
Period size: 108 Copynumber: 3.1 Consensus size: 108
10141085 CAAAAAGGAA
* * * * *
10141095 AAATTTTTAAAGTAAGGCAATATTTTGCGTTTGG-GAATTTGAGAAAACGTGCTCTAATCTGCTG
1 AAATTTTCAAAGTAAGGTAATATTTTGCGTTTGGAG-ATTTGAGAAAACGGGCCCTAATGTGCTG
10141159 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
65 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
10141203 AAATTTTCAAAGTAAGGTAATATTTTGCGTTTGGAGATTTGAGAAAACGGGCCCTAATGTGCTGG
1 AAATTTTCAAAGTAAGGTAATATTTTGCGTTTGGAGATTTGAGAAAACGGGCCCTAATGTGCTGG
10141268 GTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
66 GTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
10141311 AAATTTTCAAAGTAAGGTAATATTTTGCGTTTGGAGATTTGAGAAAACGGGCCCTAATGTGCTGG
1 AAATTTTCAAAGTAAGGTAATATTTTGCGTTTGGAGATTTGAGAAAACGGGCCCTAATGTGCTGG
* * *
10141376 GTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTT
66 GTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
*
10141417 GAATTTT
1 AAATTTT
10141424 AATCCATGCC
Statistics
Matches: 211, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
106 37 0.18
108 173 0.82
109 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (108 bp):
AAATTTTCAAAGTAAGGTAATATTTTGCGTTTGGAGATTTGAGAAAACGGGCCCTAATGTGCTGG
GTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
Found at i:10142341 original size:17 final size:17
Alignment explanation
Indices: 10142319--10142359 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10142309 TATTTATTTT
10142319 TATTTTTAATAAA-ATA
1 TATTTTTAATAAATATA
*
10142335 TACTTTTTATTAAATATA
1 TA-TTTTTAATAAATATA
10142353 TATTTTT
1 TATTTTT
10142360 TGGACTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 15 0.68
18 5 0.23
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTAATAAATATA
Found at i:10143203 original size:3 final size:3
Alignment explanation
Indices: 10143195--10143237 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10143185 TTTTTATCTA
10143195 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10143238 TAAGGCCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10144022 original size:109 final size:110
Alignment explanation
Indices: 10143828--10144045 Score: 357
Period size: 109 Copynumber: 2.0 Consensus size: 110
10143818 TAGACCCAAA
*
10143828 AAAATTTAGATACGAAATTAAGAAAAAAATATCGAATTCAGGTATAAAAGCATTTAAATATAATT
1 AAAATTTAGATACGAAATTAAGAAAAAAATATCGAATTCAGATATAAAAGCATTTAAATATAATT
*
10143893 CTTTACTTGTATTTAAAGATTGGTTTGATTCCATGTGTATAAAAG
66 CTTTACTTATATTTAAAGATTGGTTTGATTCCATGTGTATAAAAG
* * * **
10143938 AAAATTTAGATACGAAATT-AGGAAAAAGTGTCGAATTTTGATATAAAAGCATTTAAATATAATT
1 AAAATTTAGATACGAAATTAAGAAAAAAATATCGAATTCAGATATAAAAGCATTTAAATATAATT
*
10144002 CTTTACTTATATTTAGAGATTGGTTTGATTCCATGTGTATAAAA
66 CTTTACTTATATTTAAAGATTGGTTTGATTCCATGTGTATAAAA
10144046 AAACATGTTC
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 81 0.81
110 19 0.19
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (110 bp):
AAAATTTAGATACGAAATTAAGAAAAAAATATCGAATTCAGATATAAAAGCATTTAAATATAATT
CTTTACTTATATTTAAAGATTGGTTTGATTCCATGTGTATAAAAG
Found at i:10146217 original size:21 final size:23
Alignment explanation
Indices: 10146166--10146217 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 23
10146156 TATGTCAATG
10146166 TTTAAAAATTTTTATTAAAAAAGT
1 TTTAAAAA-TTTTATTAAAAAAGT
* *
10146190 TTT-AAAA-TTTA-TACAAAATT
1 TTTAAAAATTTTATTAAAAAAGT
10146210 TTTAAAAA
1 TTTAAAAA
10146218 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 10 0.40
21 8 0.32
23 4 0.16
24 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAAAAATTTTATTAAAAAAGT
Found at i:10146458 original size:19 final size:17
Alignment explanation
Indices: 10146414--10146467 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
10146404 TAAAAACATG
*
10146414 TTTTAAAAATTTATATAC
1 TTTTAAAAATTTA-AAAC
10146432 TTTATAAAATATTTAAAAC
1 TTT-TAAAA-ATTTAAAAC
*
10146451 TATTTAAAAAATTAAAA
1 T-TTTAAAAATTTAAAA
10146468 ACCCTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 10 0.32
19 14 0.45
20 7 0.23
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTTAAAAATTTAAAAC
Found at i:10156160 original size:25 final size:25
Alignment explanation
Indices: 10156132--10156199 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
10156122 CTCTCACGAC
*
10156132 CTTCCCGATATTTGGCTCTTATGAG
1 CTTCCCGATATTTGGCTCGTATGAG
10156157 CTTCCCG-T-TTATGGCTCGTATGAG
1 CTTCCCGATATT-TGGCTCGTATGAG
**
10156181 CTTCCTAATATTTGGCTCG
1 CTTCCCGATATTTGGCTCG
10156200 CAAGAGCTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.05
24 18 0.49
25 15 0.41
26 2 0.05
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CTTCCCGATATTTGGCTCGTATGAG
Found at i:10156278 original size:22 final size:22
Alignment explanation
Indices: 10156248--10156290 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10156238 ACACTAAAAC
*
10156248 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
10156270 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
10156291 AGCGTCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:10156484 original size:43 final size:43
Alignment explanation
Indices: 10156428--10156653 Score: 186
Period size: 43 Copynumber: 5.3 Consensus size: 43
10156418 TTAGTGGAAG
* *
10156428 CGCCGCTAAAGATCCTTATCTTTAGCGGCGCTTCT-CCCAAAAA
1 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTT-TGACCAAAAA
* * **** ** **
10156471 CGCCACTAAAGATCAGGGTCTTTAGCGGCGCTTTCCCCTCAAA
1 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
* *
10156514 CGCCGC-AATAGACCCTGATCTTTAGCGGCGCTTTGACCAAAAG
1 CGCCGCTAA-AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
* ** * * * ** *
10156557 CGCCGTTAAAGACTATGATCTTTAGTGGCGTTTTTTCCACAAA
1 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
* *
10156600 CGCCGCCAAAGCCCCTTATCTTTAGCGGCGCTTTGACCAAAAA
1 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
*
10156643 CGCCACTAAAG
1 CGCCGCTAAAG
10156654 GCCAACACCT
Statistics
Matches: 141, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
42 3 0.02
43 136 0.96
44 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
Found at i:10156545 original size:86 final size:85
Alignment explanation
Indices: 10156428--10156653 Score: 267
Period size: 86 Copynumber: 2.6 Consensus size: 85
10156418 TTAGTGGAAG
* * *
10156428 CGCCGCTAAAGATCCTTATCTTTAGCGGCGCTTCT-CCCAAAAACGCCACTAAAGA-TCAGGGTC
1 CGCCGC-AAAGACCCTTATCTTTAGCGGCGCTT-TGACCAAAAACGCCACTAAAGACT-AGGATC
*
10156491 TTTAGCGGCGCTTTCCCCTCAAA
63 TTTAGCGGCGCTTTCCCCACAAA
* * ** *
10156514 CGCCGCAATAGACCCTGATCTTTAGCGGCGCTTTGACCAAAAGCGCCGTTAAAGACTATGATCTT
1 CGCCGCAA-AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACTAGGATCTT
* * **
10156579 TAGTGGCGTTTTTTCCACAAA
65 TAGCGGCGCTTTCCCCACAAA
*
10156600 CGCCGCCAAAGCCCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
1 CGCCG-CAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
10156654 GCCAACACCT
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
85 3 0.03
86 111 0.94
87 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (85 bp):
CGCCGCAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACTAGGATCTTT
AGCGGCGCTTTCCCCACAAA
Found at i:10157029 original size:21 final size:21
Alignment explanation
Indices: 10157003--10157074 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
10156993 TTTGACGCTG
*
10157003 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
10157024 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * * **
10157045 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGTAGC
10157066 CTCTGCTTC
1 CTCTGCTTC
10157075 TCTTGCTGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.04, C:0.43, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:10157075 original size:21 final size:21
Alignment explanation
Indices: 10157003--10157094 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 21
10156993 TTTGACGCTG
**
10157003 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
10157024 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
10157045 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
10157066 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
10157087 ATCTGCTT
1 CTCTGCTT
10157095 TAAGCTGCTG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.04, C:0.41, G:0.17, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:10157155 original size:66 final size:66
Alignment explanation
Indices: 10157065--10157230 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 66
10157055 CTCGCTGCCG
* * *
10157065 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
10157128 GAA
64 GAA
* * *
10157131 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
10157196 A
66 A
* * * *
10157197 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
10157231 TTGTGTAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 82 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:10162670 original size:9 final size:9
Alignment explanation
Indices: 10162653--10163134 Score: 142
Period size: 9 Copynumber: 55.2 Consensus size: 9
10162643 TAAGTATAAT
*
10162653 TAAGCTATG
1 TAAGTTATG
10162662 TAAGTTATG
1 TAAGTTATG
10162671 T-A-TTATG
1 TAAGTTATG
10162678 TAAGTTAT-
1 TAAGTTATG
*
10162686 TTA-TTATG
1 TAAGTTATG
* *
10162694 AAAATTATG
1 TAAGTTATG
*
10162703 TAAGTTGTG
1 TAAGTTATG
10162712 T-A-TTATG
1 TAAGTTATG
*
10162719 -AA--AAT-
1 TAAGTTATG
* *
10162724 TATGCTATG
1 TAAGTTATG
10162733 TAAGTTATG
1 TAAGTTATG
* *
10162742 TAAGTCATA
1 TAAGTTATG
10162751 TAAGTTATG
1 TAAGTTATG
10162760 T-A-TTATG
1 TAAGTTATG
10162767 TAAGTTATG
1 TAAGTTATG
10162776 TAAGTTAT-
1 TAAGTTATG
*
10162784 TTA-TTATG
1 TAAGTTATG
* * *
10162792 CAAATTAAG
1 TAAGTTATG
10162801 TAAGTTATG
1 TAAGTTATG
*
10162810 TAATTTATG
1 TAAGTTATG
*
10162819 -AA-TAAT-
1 TAAGTTATG
***
10162825 TAAAAAAATG
1 T-AAGTTATG
10162835 TAAGTTATG
1 TAAGTTATG
10162844 TAAG-T-TG
1 TAAGTTATG
10162851 TAAGTTATG
1 TAAGTTATG
10162860 TAAGTTATG
1 TAAGTTATG
*
10162869 TATA-ATAT-
1 TA-AGTTATG
**
10162877 TAA-TTAAC
1 TAAGTTATG
10162885 TAAGTTATG
1 TAAGTTATG
*
10162894 TAATTTATG
1 TAAGTTATG
*
10162903 TATAATATTAATG
1 --TAA-GTT-ATG
10162916 TAAGTTATG
1 TAAGTTATG
*
10162925 TAATTTATG
1 TAAGTTATG
10162934 T-A--TAT-
1 TAAGTTATG
* *
10162939 TAACTAAT-
1 TAAGTTATG
10162947 TAAGTTATG
1 TAAGTTATG
*
10162956 TAATTTATG
1 TAAGTTATG
*
10162965 TATAATATTAATG
1 --TAA-GTT-ATG
10162978 TAAGTTATG
1 TAAGTTATG
*
10162987 TATA-ATAT-
1 TA-AGTTATG
10162995 TAA-TTAAT-
1 TAAGTT-ATG
10163003 TAAGTTATG
1 TAAGTTATG
*
10163012 TAATTTATG
1 TAAGTTATG
*
10163021 TATAATATTAATG
1 --TAA-GTT-ATG
10163034 TAAGTTATG
1 TAAGTTATG
*
10163043 TATA-ATAT-
1 TA-AGTTATG
10163051 TAA-TTAAT-
1 TAAGTT-ATG
10163059 TAAGTTATG
1 TAAGTTATG
*
10163068 TAATTTATG
1 TAAGTTATG
*
10163077 TATAATATTAATG
1 --TAA-GTT-ATG
10163090 TAAGTTATG
1 TAAGTTATG
*
10163099 TATA-ATAT-
1 TA-AGTTATG
10163107 TAA-TTAAT-
1 TAAGTT-ATG
10163115 TAAGTTATG
1 TAAGTTATG
*
10163124 TAATTTATG
1 TAAGTTATG
10163133 TA
1 TA
10163135 TAATATTAAT
Statistics
Matches: 361, Mismatches: 58, Indels: 108
0.69 0.11 0.20
Matches are distributed among these distances:
5 1 0.00
6 7 0.02
7 43 0.12
8 60 0.17
9 193 0.53
10 13 0.04
11 24 0.07
12 8 0.02
13 12 0.03
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:10162679 original size:16 final size:16
Alignment explanation
Indices: 10162658--10162777 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
10162648 ATAATTAAGC
10162658 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
10162674 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
10162690 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
10162699 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
10162715 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
10162729 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
10162747 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
10162763 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
10162778 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:10162700 original size:25 final size:25
Alignment explanation
Indices: 10162672--10162826 Score: 120
Period size: 25 Copynumber: 6.2 Consensus size: 25
10162662 TAAGTTATGT
10162672 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
10162697 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
10162722 ATTATGCTATG-TA---AGTTATGTAA
1 ATTATG-TAAGTTATTTA-TTATGAAA
* * * * *
10162745 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
10162770 GTTATGTAAGTTATTTATTATGCAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
10162795 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTAT-TTA-TTATGAA-A
10162823 ATTA
1 ATTA
10162827 AAAAAATGTA
Statistics
Matches: 104, Mismatches: 17, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
22 4 0.04
23 12 0.12
25 71 0.68
26 6 0.06
27 6 0.06
28 5 0.05
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:10162854 original size:16 final size:16
Alignment explanation
Indices: 10162833--10162865 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10162823 ATTAAAAAAA
10162833 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
10162849 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
10162865 T
1 T
10162866 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:10162860 original size:25 final size:25
Alignment explanation
Indices: 10162729--10162870 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 25
10162719 AAAATTATGC
*
10162729 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
10162756 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
10162781 TAT-TTA-TTATGCAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * **
10162806 TATGTAATTTATGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
10162831 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
10162856 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
10162871 TAATATTAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 65 0.71
26 4 0.04
27 10 0.11
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Done.