Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 265 of 322
Found at i:87908596 original size:18 final size:18
Alignment explanation
Indices: 87908569--87908661 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
87908559 TACGACCGTT
87908569 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
87908587 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
87908605 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
87908623 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
87908641 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
87908659 TAC
1 TAC
87908662 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:87913892 original size:30 final size:30
Alignment explanation
Indices: 87913841--87913915 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
87913831 GATTCCATAG
* *
87913841 GTCCCTGTATGTTTCATAAATTTAATATTTA
1 GTCCCTGTAT-TTTTATAAATTTAAAATTTA
87913872 GTCCCTGTATTTTTATAAATTTAAAATTTA
1 GTCCCTGTATTTTTATAAATTTAAAATTTA
* *
87913902 GTCTCTTTATTTTT
1 GTCCCTGTATTTTT
87913916 TAATTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 30 0.75
31 10 0.25
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (30 bp):
GTCCCTGTATTTTTATAAATTTAAAATTTA
Found at i:87913929 original size:30 final size:30
Alignment explanation
Indices: 87913841--87913931 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
87913831 GATTCCATAG
*
87913841 GTCCCTGTATGTTTCATAAA-TTTAATATTTA
1 GTCCCTGTAT-TTTTATAAATTTTAA-ATTTA
*
87913872 GTCCCTGTATTTTTATAAATTTAAAATTTA
1 GTCCCTGTATTTTTATAAATTTTAAATTTA
* * *
87913902 GTCTCTTTATTTTT-TAATTTTTTAAATTTA
1 GTCCCTGTATTTTTATAA-ATTTTAAATTTA
87913932 AGTTTAATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
29 3 0.06
30 35 0.67
31 14 0.27
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.55
Consensus pattern (30 bp):
GTCCCTGTATTTTTATAAATTTTAAATTTA
Found at i:87914186 original size:20 final size:20
Alignment explanation
Indices: 87914161--87914200 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
87914151 CGTAAAATGA
*
87914161 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
87914181 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
87914201 GGAAAATATT
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:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:87914190 original size:34 final size:35
Alignment explanation
Indices: 87914146--87914212 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
87914136 CAGTAAAATA
*
87914146 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
87914180 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
87914213 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:87914216 original size:14 final size:15
Alignment explanation
Indices: 87914140--87914216 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
87914130 GATTGCCAGT
* *
87914140 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
87914154 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
87914168 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
87914188 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
87914203 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
87914217 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:87916623 original size:34 final size:35
Alignment explanation
Indices: 87916565--87916631 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
87916555 CAAACATCAG
87916565 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
87916600 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
87916632 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:87919163 original size:21 final size:19
Alignment explanation
Indices: 87919139--87919191 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
87919129 ATTGGAATAT
87919139 AATATTTAATTATTATATTTA
1 AATATTTAATTA-T-TATTTA
*
87919160 AATATTTAAATATTATTTA
1 AATATTTAATTATTATTTA
*
87919179 TATATTCTAATTA
1 AATATT-TAATTA
87919192 AATTTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.39
20 6 0.21
21 11 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTAATTATTATTTA
Found at i:87919446 original size:13 final size:13
Alignment explanation
Indices: 87919428--87919465 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
87919418 CTCAAATTTT
*
87919428 TCAAAAGCACTTC
1 TCAAAAGTACTTC
87919441 TCAAAAGTACTTC
1 TCAAAAGTACTTC
87919454 TCAAAAGTACTT
1 TCAAAAGTACTT
87919466 TTCCATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (13 bp):
TCAAAAGTACTTC
Found at i:87919840 original size:9 final size:10
Alignment explanation
Indices: 87919826--87919861 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
87919816 TATTTAATCA
87919826 TTTCCTTTC-
1 TTTCCTTTCT
87919835 TTTCCTTTCT
1 TTTCCTTTCT
*
87919845 TTTACTTTCT
1 TTTCCTTTCT
87919855 TTTCCTT
1 TTTCCTT
87919862 CACAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTCCTTTCT
Found at i:87923354 original size:13 final size:13
Alignment explanation
Indices: 87923338--87923363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87923328 AAATTTCTAA
87923338 ATATTTTATAATT
1 ATATTTTATAATT
87923351 ATATTTTATAATT
1 ATATTTTATAATT
87923364 TTTTTAGAAT
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTTATAATT
Found at i:87933098 original size:19 final size:20
Alignment explanation
Indices: 87933058--87933101 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
87933048 GTCTCTTTAG
* *
87933058 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
87933077 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
87933096 GCATTA
1 GCATTA
87933102 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:87938135 original size:86 final size:87
Alignment explanation
Indices: 87937939--87938196 Score: 333
Period size: 86 Copynumber: 3.0 Consensus size: 87
87937929 CAATGAAGTT
* **
87937939 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
1 ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTCCATCGG
* * *
87938003 TTG-TGATAGAGCTGGTTGAAGACA
64 TTGCAG-TGGAGCTGGTTAAAGACA
* * * *
87938027 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCGTCCATCGATT
1 ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
*
87938092 GCAGTGGAGCTAGTTAAAGA-A
66 GCAGTGGAGCTGGTTAAAGACA
* * *
87938113 GCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTT
1 ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
*
87938178 GCATTGGAGCTGGTTAAAG
66 GCAGTGGAGCTGGTTAAAG
87938197 GTTACAGATT
Statistics
Matches: 148, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
86 81 0.55
87 28 0.19
88 39 0.26
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (87 bp):
ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
GCAGTGGAGCTGGTTAAAGACA
Found at i:87938635 original size:87 final size:87
Alignment explanation
Indices: 87938544--87939445 Score: 1708
Period size: 87 Copynumber: 10.4 Consensus size: 87
87938534 AAAGAATTTC
87938544 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87938609 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87938631 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87938696 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87938718 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87938783 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87938805 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87938870 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87938892 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87938957 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87938979 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87939044 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87939066 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87939131 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87939153 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87939218 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87939240 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
87939305 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
87939327 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCC-GAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATC-CCCCTGAAGTT
*
87939391 ACAGTGGAGTGGATT---A-AAG
65 ACAGTGGAGCGGATTAAAATAAG
* * * *
87939410 -GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
87939446 CATCAAGTCT
Statistics
Matches: 809, Mismatches: 5, Indels: 7
0.99 0.01 0.01
Matches are distributed among these distances:
82 32 0.04
83 3 0.00
84 1 0.00
87 769 0.95
88 4 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (87 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCCCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAG
Found at i:87940252 original size:20 final size:20
Alignment explanation
Indices: 87940227--87940266 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87940217 CATGACGGAA
87940227 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
87940247 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
87940267 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:87940419 original size:13 final size:13
Alignment explanation
Indices: 87940401--87940426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87940391 ATCTCTTCTC
87940401 TGTTTATTTTTAT
1 TGTTTATTTTTAT
87940414 TGTTTATTTTTAT
1 TGTTTATTTTTAT
87940427 CTTCTACACT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TGTTTATTTTTAT
Found at i:87940972 original size:48 final size:48
Alignment explanation
Indices: 87940916--87941012 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
87940906 TTCAATTTGG
* *
87940916 TCCTATTTTGTTGTTTTATTTTATTTTGATTTAGCCCTAACATTTTAC
1 TCCTATTTTGGTATTTTATTTTATTTTGATTTAGCCCTAACATTTTAC
87940964 TCCTATTTTGGTATTTTATTTTATTTTGATTTAGCCCTAACATTTTAC
1 TCCTATTTTGGTATTTTATTTTATTTTGATTTAGCCCTAACATTTTAC
87941012 T
1 T
87941013 TTTGTTTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (48 bp):
TCCTATTTTGGTATTTTATTTTATTTTGATTTAGCCCTAACATTTTAC
Found at i:87941223 original size:3 final size:3
Alignment explanation
Indices: 87941215--87941249 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
87941205 TTTGTTAACT
87941215 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87941250 TTCCTTTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87946452 original size:11 final size:11
Alignment explanation
Indices: 87946436--87946500 Score: 64
Period size: 11 Copynumber: 6.0 Consensus size: 11
87946426 AATTAATCAC
87946436 ATTAATATTAA
1 ATTAATATTAA
87946447 ATTAATA--AA
1 ATTAATATTAA
* *
87946456 A-TATTATCAA
1 ATTAATATTAA
*
87946466 GATAAATATTAA
1 -ATTAATATTAA
87946478 ATTAATATTAA
1 ATTAATATTAA
87946489 TATTAATATTAA
1 -ATTAATATTAA
87946501 TTGTTTCTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 2 0.05
11 18 0.41
12 17 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:87946489 original size:6 final size:6
Alignment explanation
Indices: 87946470--87946501 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
87946460 TATCAAGATA
87946470 AATATT AA-ATT AATATT AATATT AATATT AAT
1 AATATT AATATT AATATT AATATT AATATT AAT
87946502 TGTTTCTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATATT
Found at i:87946496 original size:23 final size:22
Alignment explanation
Indices: 87946436--87946500 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
87946426 AATTAATCAC
87946436 ATTAATATTAAATTAATA--AA
1 ATTAATATTAAATTAATATTAA
* * *
87946456 A-TATTATCAAGATAAATATTAA
1 ATTAATATTAA-ATTAATATTAA
87946478 ATTAATATTAATATTAATATTAA
1 ATTAATATTAA-ATTAATATTAA
87946501 TTGTTTCTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
22 3 0.09
23 17 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAATATTAAATTAATATTAA
Found at i:87946973 original size:52 final size:50
Alignment explanation
Indices: 87946898--87947004 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 50
87946888 AAAAGCTAAA
* * * *
87946898 TAAATAAAAATGAGATTCTATTAGATTAATTATCTTTTTGAAGTTAAAAATC
1 TAAATAAAAATAAAATTCAATTAGATTAATTA--TTTTTGAACTTAAAAATC
*
87946950 TAAATAAAAATAAAATTCAATTAGATTAATTATTTTTGAACTTATAAATC
1 TAAATAAAAATAAAATTCAATTAGATTAATTATTTTTGAACTTAAAAATC
87947000 TAAAT
1 TAAAT
87947005 TTGACTCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 21 0.42
52 29 0.58
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.40
Consensus pattern (50 bp):
TAAATAAAAATAAAATTCAATTAGATTAATTATTTTTGAACTTAAAAATC
Found at i:87947925 original size:12 final size:12
Alignment explanation
Indices: 87947908--87947932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87947898 GTAAAACACT
87947908 TAAATAATATTA
1 TAAATAATATTA
87947920 TAAATAATATTA
1 TAAATAATATTA
87947932 T
1 T
87947933 GTTGGAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATAATATTA
Found at i:87953448 original size:18 final size:19
Alignment explanation
Indices: 87953427--87953463 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
87953417 AGAAAAAAAT
87953427 AAATATG-CATATATATAA
1 AAATATGACATATATATAA
87953445 AAATATGTACATATATATA
1 AAATATG-ACATATATATA
87953464 TGTAGGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATATGACATATATATAA
Found at i:87955839 original size:18 final size:19
Alignment explanation
Indices: 87955812--87955850 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
87955802 TTGTTTTAGG
* *
87955812 TAAAATAAAATGAAA-AAA
1 TAAAAGAAAATAAAAGAAA
87955830 TAAAAGAAAATAAAAGAAA
1 TAAAAGAAAATAAAAGAAA
87955849 TA
1 TA
87955851 TATAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (19 bp):
TAAAAGAAAATAAAAGAAA
Found at i:87959044 original size:19 final size:19
Alignment explanation
Indices: 87959020--87959063 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
87959010 TTATTAAAAT
87959020 ATTATAACAAATT-TAGAAA
1 ATTATAA-AAATTATAGAAA
87959039 ATTATAAAAATTATAGAAA
1 ATTATAAAAATTATAGAAA
*
87959058 AATATA
1 ATTATA
87959064 TTTTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTATAAAAATTATAGAAA
Found at i:87959225 original size:77 final size:75
Alignment explanation
Indices: 87959095--87959240 Score: 170
Period size: 77 Copynumber: 1.9 Consensus size: 75
87959085 AATATTAAGT
* ** *
87959095 ATTATAAAATAGTATTAATGTATTGTGAAAAAAAAATGAAAAATCATAGAAATTATATAAATTAC
1 ATTATAAAATAGTATTAATATATTGACAAAAAAAAATGAAAAAT-ATAGAAATTATAAAAATTA-
87959160 AAAAATAGCAAA
64 AAAAATAGCAAA
* * *
87959172 ATTATAAAATATTTTTAATATATT-ACAAAAAAAAACTGAAAGAAT-TAGAAAATTTTAAAAATT
1 ATTATAAAATAGTATTAATATATTGACAAAAAAAAA-TGAAA-AATATAG-AAATTATAAAAATT
87959235 AAAAAA
63 AAAAAA
87959241 CTAAAAATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
76 17 0.29
77 39 0.66
78 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (75 bp):
ATTATAAAATAGTATTAATATATTGACAAAAAAAAATGAAAAATATAGAAATTATAAAAATTAAA
AAATAGCAAA
Found at i:87960792 original size:21 final size:20
Alignment explanation
Indices: 87960767--87960806 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
87960757 GTAGTAATTC
*
87960767 TTATGATTTTTATAATTTTTT
1 TTATG-TTTTTATAAATTTTT
87960788 TTATGTTTTTATAAATTTT
1 TTATGTTTTTATAAATTTT
87960807 GAAGTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATGTTTTTATAAATTTTT
Found at i:87960798 original size:20 final size:22
Alignment explanation
Indices: 87960767--87960806 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
87960757 GTAGTAATTC
87960767 TTATGATTTTTAT-AATTTTTT
1 TTATGATTTTTATAAATTTTTT
87960788 TTATG-TTTTTATAAATTTT
1 TTATGATTTTTATAAATTTT
87960807 GAAGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTATGATTTTTATAAATTTTTT
Found at i:87960817 original size:29 final size:27
Alignment explanation
Indices: 87960786--87960859 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 27
87960776 TTATAATTTT
*
87960786 TTTTATGTTT-TTATAAATTTTGAAGTAA
1 TTTTATATTTGTTAT-AATTTTGAA-TAA
*
87960814 TTTTATATTTGTTATAATTTTTAATAA
1 TTTTATATTTGTTATAATTTTGAATAA
* *
87960841 --TTATTTTTATTATAATTTT
1 TTTTATATTTGTTATAATTTT
87960860 AGCCAACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 17 0.41
27 3 0.07
28 17 0.41
29 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTTATATTTGTTATAATTTTGAATAA
Found at i:87960832 original size:28 final size:26
Alignment explanation
Indices: 87960786--87960859 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 26
87960776 TTATAATTTT
*
87960786 TTTTATGTTTTTATAAATTTTGAAGTAA
1 TTTTATATTTTTAT-AATTTTGAA-TAA
*
87960814 TTTTATATTTGTTATAATTTTTAATAA
1 TTTTATATTT-TTATAATTTTGAATAA
*
87960841 TTATT-T-TTATTATAATTTT
1 TT-TTATATTTTTATAATTTT
87960860 AGCCAACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 10 0.24
26 2 0.05
27 6 0.15
28 19 0.46
29 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (26 bp):
TTTTATATTTTTATAATTTTGAATAA
Found at i:87969013 original size:41 final size:41
Alignment explanation
Indices: 87968962--87969148 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
87968952 TTTAAACAGA
* * ** *
87968962 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTAATTCAG
* *
87969003 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * *
87969044 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * * *
87969085 CTCACCGGCACTTAGCCTGCT-GGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CTTATAG-CCTAATTCAG
87969126 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
87969149 ACGTATAGTC
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.02
41 122 0.95
42 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
Found at i:87969171 original size:41 final size:41
Alignment explanation
Indices: 87969003--87969161 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 41
87968993 TTTAATTCCG
* * *
87969003 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* * *
87969044 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* *
87969085 CTCACCGGCACTTAGCCTGCTGGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAA
*
87969126 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGA
87969162 ATAATTTCAC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 102 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
Found at i:87971625 original size:18 final size:18
Alignment explanation
Indices: 87971589--87971627 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
87971579 TTATTATTGT
**
87971589 TAAAATTTTCTATTAAAA
1 TAAAATTTTAAATTAAAA
*
87971607 TAAAATTTTAAATTTAAA
1 TAAAATTTTAAATTAAAA
87971625 TAA
1 TAA
87971628 TTTATTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATTTTAAATTAAAA
Found at i:87972971 original size:22 final size:24
Alignment explanation
Indices: 87972940--87972991 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
87972930 TTATAGAGTT
* *
87972940 AAAAATACTAGAT-ATATC-TATA
1 AAAAAAACTAGATAAAATCATATA
87972962 AAAAAAACTAGATAAAATCATATA
1 AAAAAAACTAGATAAAATCATATA
87972986 AAAAAA
1 AAAAAA
87972992 TTTGTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.46
23 4 0.15
24 10 0.38
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAAAAACTAGATAAAATCATATA
Found at i:87973172 original size:29 final size:28
Alignment explanation
Indices: 87973137--87973255 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 28
87973127 AATCAAAAAA
87973137 TACATTTTGACCTCTAAACTTTTTGAAAT
1 TACATTTTGACC-CTAAACTTTTTGAAAT
* *
87973166 TATATTTTGACCCATAAACCTTTTGAAAT
1 TACATTTTGACCC-TAAACTTTTTGAAAT
*
87973195 TACATTTTGACCC-ATAACATTTTTTAAAT
1 TACATTTTGACCCTA-AAC-TTTTTGAAAT
*
87973224 TACATTTTTACCCCTAAA-TTTTCTCGAAAT
1 TACATTTTGA-CCCTAAACTTTT-T-GAAAT
87973254 TA
1 TA
87973256 TGTTTCAGCC
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
27 1 0.01
28 8 0.11
29 55 0.72
30 11 0.14
31 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (28 bp):
TACATTTTGACCCTAAACTTTTTGAAAT
Found at i:87973524 original size:10 final size:10
Alignment explanation
Indices: 87973505--87973554 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
87973495 TTTTTCGAAG
*
87973505 GAAAAAAGAA
1 GAAAAGAGAA
87973515 GAAAAGAGAA
1 GAAAAGAGAA
87973525 GAAAAGAGAA
1 GAAAAGAGAA
* *
87973535 -AGAGGAGAA
1 GAAAAGAGAA
87973544 GAAAAGA-AA
1 GAAAAGAGAA
87973553 GA
1 GA
87973555 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:87973555 original size:17 final size:19
Alignment explanation
Indices: 87973508--87973550 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
87973498 TTCGAAGGAA
87973508 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
87973526 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
87973545 AAAAGA
1 AAAAGA
87973551 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:87973842 original size:17 final size:16
Alignment explanation
Indices: 87973816--87973847 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
87973806 AAAAAAAGCA
87973816 GCCCAAAAAAGAAAAG
1 GCCCAAAAAAGAAAAG
87973832 GCCCAAAAAAAGAAAA
1 GCCC-AAAAAAGAAAA
87973848 AACAGCCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.19, G:0.16, T:0.00
Consensus pattern (16 bp):
GCCCAAAAAAGAAAAG
Found at i:87973968 original size:23 final size:23
Alignment explanation
Indices: 87973942--87974032 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
87973932 AACAGGCCAG
*
87973942 GAAAAAAAGAGAGACAG-AAAAAA
1 GAAAAAAAGAAAGA-AGAAAAAAA
87973965 GAAAAAAAGAAAGAAGAAAAAAA
1 GAAAAAAAGAAAGAAGAAAAAAA
* * *
87973988 G-AAAAGAGAAAAAAGGAAAAAA
1 GAAAAAAAGAAAGAAGAAAAAAA
*
87974010 GGAAAAAAG-AAGAA-AAAAAAA
1 GAAAAAAAGAAAGAAGAAAAAAA
87974031 GA
1 GA
87974033 GTTTCAATTC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.12
22 25 0.43
23 26 0.45
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAGAAAAAAA
Found at i:87973972 original size:8 final size:8
Alignment explanation
Indices: 87973959--87974028 Score: 72
Period size: 8 Copynumber: 8.8 Consensus size: 8
87973949 AGAGAGACAG
87973959 AAAAAAGA
1 AAAAAAGA
87973967 AAAAAAG-
1 AAAAAAGA
*
87973974 AAAGAAGA
1 AAAAAAGA
87973982 AAAAAAG-
1 AAAAAAGA
*
87973989 AAAAGAGA
1 AAAAAAGA
*
87973997 AAAAAGGA
1 AAAAAAGA
*
87974005 AAAAAGGAA
1 AAAAAAG-A
87974014 AAAAGAAGA
1 AAAA-AAGA
87974023 AAAAAA
1 AAAAAA
87974029 AAGAGTTTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 12 0.23
8 28 0.54
9 10 0.19
10 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:87973975 original size:15 final size:15
Alignment explanation
Indices: 87973957--87974030 Score: 96
Period size: 15 Copynumber: 4.9 Consensus size: 15
87973947 AAAGAGAGAC
87973957 AGAAAAAAGAAAAAA
1 AGAAAAAAGAAAAAA
*
87973972 AGAAAGAAGAAAAAA
1 AGAAAAAAGAAAAAA
*
87973987 AGAAAAGAGAAAAAA
1 AGAAAAAAGAAAAAA
* *
87974002 GGAAAAAAGGAAAAA
1 AGAAAAAAGAAAAAA
87974017 AGAAGAAAA-AAAAA
1 AGAA-AAAAGAAAAA
87974031 GAGTTTCAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
15 46 0.92
16 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAAAA
Found at i:87974001 original size:38 final size:39
Alignment explanation
Indices: 87973942--87974033 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
87973932 AACAGGCCAG
* * *
87973942 GAAAAAAAG-AGAGACAGAAAAAAGAAAAAAAGAAAGAA
1 GAAAAAAAGAAAAGAGAGAAAAAAGAAAAAAAGAAAAAA
* *
87973980 GAAAAAAAGAAAAGAGA-AAAAAGGAAAAAAGGAAAAAA
1 GAAAAAAAGAAAAGAGAGAAAAAAGAAAAAAAGAAAAAA
87974018 GAAGAAAAA-AAAAGAG
1 GAA-AAAAAGAAAAGAG
87974034 TTTCAATTCG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 37 0.79
39 10 0.21
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (39 bp):
GAAAAAAAGAAAAGAGAGAAAAAAGAAAAAAAGAAAAAA
Found at i:87974612 original size:20 final size:22
Alignment explanation
Indices: 87974572--87974613 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
87974562 AATTTTGTGT
*
87974572 AAAAAATCCAGTGTTTTCAAAA
1 AAAAAATCCAGTGTTTCCAAAA
87974594 AAAAAATCCA-T-TTTCCAAAA
1 AAAAAATCCAGTGTTTCCAAAA
87974614 TTTTTAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAATCCAGTGTTTCCAAAA
Found at i:87974683 original size:18 final size:17
Alignment explanation
Indices: 87974609--87974771 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
87974599 ATCCATTTTC
* *
87974609 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
87974627 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
87974645 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
87974661 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
87974678 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
87974696 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
87974713 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
87974731 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
87974748 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
87974766 CAAAAA
1 CAAAAA
87974772 AAAATCTCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:87974771 original size:35 final size:34
Alignment explanation
Indices: 87974609--87974771 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
87974599 ATCCATTTTC
* * * *
87974609 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
87974645 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
87974678 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
87974713 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
87974748 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
87974772 AAAATCTCGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:87983472 original size:87 final size:81
Alignment explanation
Indices: 87983235--87983587 Score: 498
Period size: 81 Copynumber: 4.3 Consensus size: 81
87983225 CAAGAAATAT
* **
87983235 TTTTCAATTTCTGTTTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
87983300 CACGCTGAGGTATTTC
66 CACGCTGAGGTATTTC
* *
87983316 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCT
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
87983381 CACGCTGAGGTATTTC
66 CACGCTGAGGTATTTC
87983397 TTTTAAATTTCTGTCTTTTCAAAAAAAATCAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
1 TTTTAAATTTCTGT-TTTTC---AAAAA--AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
87983462 GGGTCGCACGCTGAGGTATTTC
60 GGGTCGCACGCTGAGGTATTTC
** * * *
87983484 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGCCA
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
* *
87983549 CACACCGAGGTA----
66 CACGCTGAGGTATTTC
*
87983561 TTTTCAATTTCTGTTTTTCAAATAAAA
1 TTTTAAATTTCTGTTTTTCAAA-AAAA
87983588 AGAAAATTTT
Statistics
Matches: 250, Mismatches: 15, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
77 21 0.08
78 4 0.02
81 136 0.54
82 5 0.02
83 5 0.02
85 5 0.02
86 5 0.02
87 69 0.28
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (81 bp):
TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
CACGCTGAGGTATTTC
Found at i:87983561 original size:168 final size:166
Alignment explanation
Indices: 87983252--87983563 Score: 534
Period size: 168 Copynumber: 1.9 Consensus size: 166
87983242 TTTCTGTTTT
87983252 AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
1 AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
* *
87983317 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCTC
66 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGCCAC
* *
87983382 ACGCTGAGGTATTTCTTTTAAATTTCTGTCTTTTCA
131 ACACCGAGGTATTTCTTTTAAATTTCTGTCTTTTCA
87983418 AAAAAAATCAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTT
1 AAAAAAA--AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTT
** * *
87983483 CTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGCC
64 CTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGCC
87983548 ACACACCGAGGTATTT
129 ACACACCGAGGTATTT
87983564 TCAATTTCTG
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
166 7 0.05
168 129 0.95
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (166 bp):
AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGCCAC
ACACCGAGGTATTTCTTTTAAATTTCTGTCTTTTCA
Found at i:87983812 original size:29 final size:29
Alignment explanation
Indices: 87983761--87983860 Score: 155
Period size: 29 Copynumber: 3.4 Consensus size: 29
87983751 AAAAAAATCA
*
87983761 AAATATACATTTTGACCCCTAAACTTTTTG
1 AAAT-TACATTTTGACCCATAAACTTTTTG
* *
87983791 AAATTATATTTTGACCCATAAACCTTTTG
1 AAATTACATTTTGACCCATAAACTTTTTG
*
87983820 AAATTACATTTTGACCCATAACCTTTTTG
1 AAATTACATTTTGACCCATAAACTTTTTG
87983849 AAATTACATTTT
1 AAATTACATTTT
87983861 ATCCCTAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
29 60 0.94
30 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTGACCCATAAACTTTTTG
Found at i:87984151 original size:10 final size:10
Alignment explanation
Indices: 87984132--87984181 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
87984122 TTTTTCGAAG
*
87984132 GAAAAAAGAA
1 GAAAAGAGAA
87984142 GAAAAGAGAA
1 GAAAAGAGAA
*
87984152 TAAAAGAGAA
1 GAAAAGAGAA
* *
87984162 -AGAGGAGAA
1 GAAAAGAGAA
87984171 GAAAAGA-AA
1 GAAAAGAGAA
87984180 GA
1 GA
87984182 GTACCGGCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 11 0.33
10 22 0.67
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:87984169 original size:19 final size:17
Alignment explanation
Indices: 87984135--87984177 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
87984125 TTCGAAGGAA
*
87984135 AAAAGAAGAAAAGAGAAT
1 AAAAG-AGAAAAGAGAAG
87984153 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAA-A-GAGAAG
87984172 AAAAGA
1 AAAAGA
87984178 AAGAGTACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (17 bp):
AAAAGAGAAAAGAGAAG
Found at i:87984253 original size:3 final size:3
Alignment explanation
Indices: 87984247--87984308 Score: 115
Period size: 3 Copynumber: 20.3 Consensus size: 3
87984237 GTGTAGGAGG
87984247 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
87984295 AGAA AGA AGA AGA A
1 AG-A AGA AGA AGA A
87984309 AAAAGAAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87984448 original size:18 final size:18
Alignment explanation
Indices: 87984427--87984487 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
87984417 AAAATTAATT
87984427 AAAAAAAA-CAACACAAA
1 AAAAAAAATCAACACAAA
* *
87984444 AAAAATAAATCAGCCCAAA
1 AAAAA-AAATCAACACAAA
*
87984463 AGAAAAAATCAA-AGCAAA
1 AAAAAAAATCAACA-CAAA
87984481 AAAAAAA
1 AAAAAAA
87984488 CAGCCCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 5 0.14
18 19 0.54
19 11 0.31
ACGTcount: A:0.75, C:0.15, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAAAAAATCAACACAAA
Found at i:87984503 original size:18 final size:17
Alignment explanation
Indices: 87984427--87984504 Score: 61
Period size: 18 Copynumber: 4.5 Consensus size: 17
87984417 AAAATTAATT
*
87984427 AAAAAAAA-CAACACAAA
1 AAAAAAAATCAAC-CCAA
*
87984444 AAAAATAAATCAGCCCAA
1 AAAAA-AAATCAACCCAA
**
87984462 AAGAAAAAATCAAAGCAA
1 AA-AAAAAATCAACCCAA
*
87984480 AAAAAAAA-CAGCCCAA
1 AAAAAAAATCAACCCAA
*
87984496 AAAGAAAAT
1 AAAAAAAAT
87984505 GCCCAAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
16 12 0.25
17 11 0.23
18 19 0.40
19 6 0.12
ACGTcount: A:0.72, C:0.17, G:0.06, T:0.05
Consensus pattern (17 bp):
AAAAAAAATCAACCCAA
Found at i:87984651 original size:16 final size:15
Alignment explanation
Indices: 87984643--87984719 Score: 79
Period size: 15 Copynumber: 5.1 Consensus size: 15
87984633 AAAAAGAGAG
*
87984643 AAAGAAAAAAGAAAA
1 AAAGAAGAAAGAAAA
87984658 AAAGAA-AGAAGAAAA
1 AAAGAAGA-AAGAAAA
87984673 AAAGAA-AAGAGAAAA
1 AAAGAAGAA-AGAAAA
* *
87984688 AAAGGAAAAAAGGAAA
1 AAA-GAAGAAAGAAAA
87984704 AAAGAAGAAA-AAAA
1 AAAGAAGAAAGAAAA
87984718 AA
1 AA
87984720 GAAAAAAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
14 7 0.13
15 35 0.64
16 11 0.20
17 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAAGAAAA
Found at i:87984652 original size:15 final size:13
Alignment explanation
Indices: 87984631--87984727 Score: 92
Period size: 13 Copynumber: 7.2 Consensus size: 13
87984621 GCAGGCCAGG
87984631 AAAAAAAGAGAGAA
1 AAAAAAAGA-AGAA
87984645 AGAAAAAAGAA-AA
1 A-AAAAAAGAAGAA
*
87984658 AAAGAAAGAAGAA
1 AAAAAAAGAAGAA
87984671 AAAAAGAA-AAGAGA
1 AAAAA-AAGAAGA-A
* *
87984685 AAAAAAGGAAAAA
1 AAAAAAAGAAGAA
87984698 AGGAAAAAAGAAGAA
1 A--AAAAAAGAAGAA
87984713 AAAAAAAGAA-AA
1 AAAAAAAGAAGAA
87984725 AAA
1 AAA
87984728 GAGTTTCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
12 13 0.19
13 25 0.36
14 13 0.19
15 19 0.27
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:87984658 original size:8 final size:8
Alignment explanation
Indices: 87984630--87984729 Score: 95
Period size: 8 Copynumber: 13.2 Consensus size: 8
87984620 AGCAGGCCAG
87984630 GAAAAAAA
1 GAAAAAAA
* *
87984638 GAGAGAAA
1 GAAAAAAA
87984646 G-AAAAAA
1 GAAAAAAA
87984653 GAAAAAAA
1 GAAAAAAA
*
87984661 G-AAAGAA
1 GAAAAAAA
87984668 GAAAAAAA
1 GAAAAAAA
*
87984676 G-AAAAGA
1 GAAAAAAA
87984683 GAAAAAAA
1 GAAAAAAA
*
87984691 GGAAAAAA
1 GAAAAAAA
*
87984699 GGAAAAAA
1 GAAAAAAA
*
87984707 G--AAGAA
1 GAAAAAAA
87984713 -AAAAAAA
1 GAAAAAAA
87984720 GAAAAAAA
1 GAAAAAAA
87984728 GA
1 GA
87984730 GTTTCAATTC
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
6 4 0.05
7 21 0.28
8 50 0.67
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:87984690 original size:39 final size:39
Alignment explanation
Indices: 87984630--87984727 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
87984620 AGCAGGCCAG
* *
87984630 GAAAAAAAG-AGAGA-AAGAAAAAAGAAAAAAAGAAAGAA
1 GAAAAAAAGAAAAGAGAA-AAAAAAGAAAAAAAGAAAAAA
* *
87984668 GAAAAAAAGAAAAGAGAAAAAAAGGAAAAAAGGAAAAAA
1 GAAAAAAAGAAAAGAGAAAAAAAAGAAAAAAAGAAAAAA
*
87984707 GAAGAAAA-AAAA-AGAAAAAAA
1 GAAAAAAAGAAAAGAGAAAAAAA
87984728 GAGTTTCAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.17
38 13 0.25
39 29 0.55
40 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (39 bp):
GAAAAAAAGAAAAGAGAAAAAAAAGAAAAAAAGAAAAAA
Found at i:87985313 original size:19 final size:21
Alignment explanation
Indices: 87985273--87985314 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
87985263 AATTTTGTGT
*
87985273 AAAAAAATCCAGTGTTTTCAA
1 AAAAAAATCCAGTGTTTCCAA
87985294 AAAAAAATCCA-T-TTTCCAA
1 AAAAAAATCCAGTGTTTCCAA
87985313 AA
1 AA
87985315 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 11 0.55
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAAATCCAGTGTTTCCAA
Found at i:87985352 original size:17 final size:17
Alignment explanation
Indices: 87985306--87985372 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
87985296 AAAAATCCAT
*
87985306 TTTCCAAAATTTTTAGTG
1 TTTCAAAAATTTTT-GTG
87985324 TCTTCTAAAAATTTTTGTG
1 T-TTC-AAAAATTTTTGTG
*
87985343 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTTGTG
87985360 TTTTC-AAAATTTT
1 -TTTCAAAAATTTT
87985373 CATGTTTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 20 0.45
18 8 0.18
19 7 0.16
20 9 0.20
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.52
Consensus pattern (17 bp):
TTTCAAAAATTTTTGTG
Found at i:87985373 original size:17 final size:18
Alignment explanation
Indices: 87985305--87985538 Score: 102
Period size: 18 Copynumber: 12.6 Consensus size: 18
87985295 AAAAAATCCA
* *
87985305 TTTTCCAAAATTTTTAGTG
1 TTTT-CAAAAATTTTCGTG
* *
87985324 TCTTCTAAAAATTTTTGTG
1 TTTTC-AAAAATTTTCGTG
87985343 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
87985360 TTTTCAAAATTTTCATGTTTTCGTG
1 TTTTCAAAA-----A--TTTTCGTG
*
87985385 TTTTCAAAAAAATTCTCGTG
1 TTTTC--AAAAATTTTCGTG
* ** *
87985405 TTTTTTTAAAAAAATTCATG
1 --TTTTCAAAAATTTTCGTG
* ** * *
87985425 TTTTAAAAAAAATACATG
1 TTTTCAAAAATTTTCGTG
*
87985443 TTTTC-GAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
87985460 TTTTCAAAATTTTTCGT-
1 TTTTCAAAAATTTTCGTG
* ** *
87985477 ATTTCAAAAATCCTCTTG
1 TTTTCAAAAATTTTCGTG
*
87985495 TTTTCAAAAA-TTTCGGGG
1 TTTTCAAAAATTTTC-GTG
*
87985513 TTTT-GAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
87985530 TTTT-AAAAA
1 TTTTCAAAAA
87985539 AAAATCTCGT
Statistics
Matches: 164, Mismatches: 34, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
17 52 0.32
18 59 0.36
19 14 0.09
20 16 0.10
22 5 0.03
23 1 0.01
25 13 0.08
27 4 0.02
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:87985532 original size:35 final size:34
Alignment explanation
Indices: 87985449--87985539 Score: 83
Period size: 35 Copynumber: 2.6 Consensus size: 34
87985439 CATGTTTTCG
* *
87985449 AAATTTTCGTGTTTTCAAAATTTTTCGTATTTCAA
1 AAATTTTCGTGTTTTCAAAA-ATTTCGGATTTCAA
** * * **
87985484 AAATCCTCTTGTTTTCAAAAATTTCGGGGTTTTGA
1 AAATTTTCGTGTTTTCAAAAATTTC-GGATTTCAA
*
87985519 AAATTTTCGTGTTTTAAAAAA
1 AAATTTTCGTGTTTTCAAAAA
87985540 AAATCTCGTG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
34 4 0.09
35 39 0.91
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (34 bp):
AAATTTTCGTGTTTTCAAAAATTTCGGATTTCAA
Found at i:87985539 original size:18 final size:18
Alignment explanation
Indices: 87985377--87985539 Score: 66
Period size: 17 Copynumber: 9.0 Consensus size: 18
87985367 AATTTTCATG
87985377 TTTTCGTGTTTTCAAAAAAA
1 TTTTCGTGTTTT--AAAAAA
*
87985397 TTCTCGTGTTTTTTTAAAAAA
1 TTTTCGTG---TTTTAAAAAA
* *
87985418 -ATTCATGTTTTAAAAAA
1 TTTTCGTGTTTTAAAAAA
** * * **
87985435 AATACATGTTTT-CGAAA
1 TTTTCGTGTTTTAAAAAA
* *
87985452 TTTTCGTGTTTTCAAAAT
1 TTTTCGTGTTTTAAAAAA
* *
87985470 TTTTCGT-ATTTCAAAAA
1 TTTTCGTGTTTTAAAAAA
** * *
87985487 TCCTCTTGTTTTCAAAAA
1 TTTTCGTGTTTTAAAAAA
* *
87985505 -TTTCGGGGTTTT-GAAAA
1 TTTTC-GTGTTTTAAAAAA
87985522 TTTTCGTGTTTTAAAAAA
1 TTTTCGTGTTTTAAAAAA
87985540 AAATCTCGTG
Statistics
Matches: 107, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
17 45 0.42
18 41 0.38
20 11 0.10
21 6 0.06
23 4 0.04
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTTCGTGTTTTAAAAAA
Found at i:87985603 original size:35 final size:35
Alignment explanation
Indices: 87985518--87985629 Score: 88
Period size: 35 Copynumber: 3.1 Consensus size: 35
87985508 CGGGGTTTTG
*
87985518 AAAATTTTCGTGTTTTAAAAAAAAATCTCGTGTTTC
1 AAAA-TTTCGTGTTTTAAAAAAAAATCTCATGTTTC
*
87985554 ATAAATTTTG-GTTTTAAAAAAAATAT-T-ATGTCTT-
1 A-AAATTTCGTGTTTTAAAAAAAA-ATCTCATGT-TTC
*
87985588 AAAATTCTCGTGTTTTCAAAACAAGAAATTCTCGTGTTTC
1 AAAATT-TCGTGTTTT-AAAA-AA-AAA-TCTCATGTTTC
87985628 AA
1 AA
87985630 TCGGATCACG
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
33 5 0.08
34 6 0.10
35 21 0.35
36 11 0.18
37 6 0.10
38 3 0.05
39 3 0.05
40 5 0.08
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (35 bp):
AAAATTTCGTGTTTTAAAAAAAAATCTCATGTTTC
Found at i:87999487 original size:23 final size:25
Alignment explanation
Indices: 87999453--87999505 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
87999443 TTTATTTATT
87999453 TATTTCTTTTAT-T-CACATACATA
1 TATTTCTTTTATATGCACATACATA
* *
87999476 TATTT-TTCTTATATGTACATATATA
1 TATTTCTT-TTATATGCACATACATA
87999501 TATTT
1 TATTT
87999506 ATATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 2 0.08
23 9 0.36
24 1 0.04
25 13 0.52
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTCTTTTATATGCACATACATA
Found at i:87999771 original size:14 final size:14
Alignment explanation
Indices: 87999749--87999781 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
87999739 ACATTTATTC
*
87999749 ATATATCAAATTTA
1 ATATTTCAAATTTA
87999763 ATATTTCAAATTTA
1 ATATTTCAAATTTA
87999777 ATATT
1 ATATT
87999782 ACATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATTTCAAATTTA
Found at i:88000236 original size:175 final size:175
Alignment explanation
Indices: 87999945--88000292 Score: 678
Period size: 175 Copynumber: 2.0 Consensus size: 175
87999935 AACATAAAAG
87999945 TTCCTTATCGGGAGTTCGATACGTTGTGTCCTAACGCATTGGATATAACATGTTGTTTTCTCGAG
1 TTCCTTATCGGGAGTTCGATACGTTGTGTCCTAACGCATTGGATATAACATGTTGTTTTCTCGAG
88000010 TTGAGGATTTTTCTAAAAAATAATAAAGGCAATATTCAATGTTTGAAATTTTGAGAAATCGTGCC
66 TTGAGGATTTTTCTAAAAAATAATAAAGGCAATATTCAATGTTTGAAATTTTGAGAAATCGTGCC
88000075 CTAACGTATTGGACTACAATTTCTTCATCTGACTTAAACAATTTC
131 CTAACGTATTGGACTACAATTTCTTCATCTGACTTAAACAATTTC
88000120 TTCCTTATCGGGAGTTCGATACGTTGTGTCCTAACGCATTGGATATAACATGTTGTTTTCTCGAG
1 TTCCTTATCGGGAGTTCGATACGTTGTGTCCTAACGCATTGGATATAACATGTTGTTTTCTCGAG
* *
88000185 TTGAGGATTTTTCTAAAAAATAATGAAGGCAGTATTCAATGTTTGAAATTTTGAGAAATCGTGCC
66 TTGAGGATTTTTCTAAAAAATAATAAAGGCAATATTCAATGTTTGAAATTTTGAGAAATCGTGCC
88000250 CTAACGTATTGGACTACAATTTCTTCATCTGACTTAAACAATT
131 CTAACGTATTGGACTACAATTTCTTCATCTGACTTAAACAATT
88000293 GAATATCCTT
Statistics
Matches: 171, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 171 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (175 bp):
TTCCTTATCGGGAGTTCGATACGTTGTGTCCTAACGCATTGGATATAACATGTTGTTTTCTCGAG
TTGAGGATTTTTCTAAAAAATAATAAAGGCAATATTCAATGTTTGAAATTTTGAGAAATCGTGCC
CTAACGTATTGGACTACAATTTCTTCATCTGACTTAAACAATTTC
Found at i:88001521 original size:16 final size:15
Alignment explanation
Indices: 88001496--88001527 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
88001486 GCACCCAAAA
88001496 TTTTTTTTTCCTTTT
1 TTTTTTTTTCCTTTT
88001511 TTTTCTTTTTCCTTTT
1 TTTT-TTTTTCCTTTT
88001527 T
1 T
88001528 CGTGTATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTCCTTTT
Found at i:88001988 original size:82 final size:84
Alignment explanation
Indices: 88001901--88002075 Score: 204
Period size: 84 Copynumber: 2.1 Consensus size: 84
88001891 TTTTAAGCCG
*
88001901 AAATTAAATTA-TA-TATTTTTATA-A-TATTAAAAATATAAATTTATTATTTTAATAATTT-AT
1 AAATTAAATTATTATTATTTTTA-AGAGGATT-AAAATATAAATTTATTA--TTAATAATTTAAT
*
88001961 ATCTTTAT-AATTTTAAAA-GATT
62 AT-TTTATAAATTATAAAAGGATT
* *
88001983 AAATTAAATTATTATTATTTTTAAGAGGATTAAAATATAATTTTATTATTACTAATTTAATATTT
1 AAATTAAATTATTATTATTTTTAAGAGGATTAAAATATAAATTTATTATTAATAATTTAATATTT
*
88002048 TATAAATTATAAAAGGTTT
66 TATAAATTATAAAAGGATT
88002067 AAA-TAAATT
1 AAATTAAATT
88002076 TTTTTCTATT
Statistics
Matches: 81, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
82 25 0.31
83 22 0.27
84 31 0.38
85 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (84 bp):
AAATTAAATTATTATTATTTTTAAGAGGATTAAAATATAAATTTATTATTAATAATTTAATATTT
TATAAATTATAAAAGGATT
Found at i:88002029 original size:31 final size:30
Alignment explanation
Indices: 88001971--88002032 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
88001961 ATCTTTATAA
*
88001971 TTTTAAAAGATTAAATTAAATTATTATTAT
1 TTTTAAAAGATTAAAATAAATTATTATTAT
*
88002001 TTTTAAGAGGATTAAAATATAATT-TTATTAT
1 TTTTAA-AAGATTAAAATA-AATTATTATTAT
88002032 T
1 T
88002033 ACTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.21
31 18 0.64
32 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (30 bp):
TTTTAAAAGATTAAAATAAATTATTATTAT
Found at i:88003122 original size:5 final size:5
Alignment explanation
Indices: 88003092--88003121 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
88003082 GAGGTGTTCA
*
88003092 TGGGC TGGGC TGGGC TGGGC TGGGC CGGGC
1 TGGGC TGGGC TGGGC TGGGC TGGGC TGGGC
88003122 CCATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.23, G:0.60, T:0.17
Consensus pattern (5 bp):
TGGGC
Found at i:88003956 original size:21 final size:20
Alignment explanation
Indices: 88003932--88003973 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
88003922 TTTTATGTAT
* *
88003932 TTTTTAGAATTTATTTGAAAA
1 TTTTTACAATTT-TTTAAAAA
88003953 TTTTTACAATTTTTTAAAAA
1 TTTTTACAATTTTTTAAAAA
88003973 T
1 T
88003974 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTTACAATTTTTTAAAAA
Found at i:88006292 original size:41 final size:41
Alignment explanation
Indices: 88006235--88006359 Score: 189
Period size: 41 Copynumber: 3.0 Consensus size: 41
88006225 GTTGAATTTT
*
88006235 ATGTTCTGGGCTTTAGCGACGTTTTTATGTAAGCGCCGCTA
1 ATGTTCTGGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTA
* *
88006276 ATGTTCTGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTA
1 ATGTTCTGGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTA
* *
88006317 ATGTTCTGGGCTTTAGCGGCATTTTTAT-TGATGCGCCGCTA
1 ATGTTCTGGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTA
88006358 AT
1 AT
88006360 TCTTAGGCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 75 0.99
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (41 bp):
ATGTTCTGGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTA
Found at i:88006373 original size:82 final size:82
Alignment explanation
Indices: 88006235--88006402 Score: 191
Period size: 82 Copynumber: 2.0 Consensus size: 82
88006225 GTTGAATTTT
* *
88006235 ATGTTCTGGGCTTTAGCGACGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCG-GCGTT
1 ATGTTCTGGGCTTTAGCGACATTTTTATGTAAGCGCCGCTAATGTTCTGGCATTTAGCGAGCGTT
* *
88006299 TTTAAGTAAGCGCCGCTA
66 TTTAA-AAAACGCCGCTA
* * *
88006317 ATGTTCTGGGCTTTAGCGGCATTTTTAT-TGATGCGCCGCTAA--TTCTTAGGCCTTTAGCGACG
1 ATGTTCTGGGCTTTAGCGACATTTTTATGT-AAGCGCCGCTAATGTTC-T-GGCATTTAGCGA-G
*
88006379 CTTTTTTAAAAAACGCCGCTA
62 CGTTTTTAAAAAACGCCGCTA
88006400 ATG
1 ATG
88006403 CTCTTCATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
80 3 0.04
81 2 0.03
82 46 0.63
83 13 0.18
84 9 0.12
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (82 bp):
ATGTTCTGGGCTTTAGCGACATTTTTATGTAAGCGCCGCTAATGTTCTGGCATTTAGCGAGCGTT
TTTAAAAAACGCCGCTA
Found at i:88006814 original size:16 final size:16
Alignment explanation
Indices: 88006793--88006862 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
88006783 CTATAGTATG
88006793 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
88006809 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
88006824 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
88006840 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
88006856 TAGTTTA
1 TAGTTTA
88006863 TGGTTTAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:88006821 original size:23 final size:23
Alignment explanation
Indices: 88006795--88006875 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
88006785 ATAGTATGTA
88006795 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
88006818 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
*
88006842 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
88006865 GTTT-AGGGTTT
1 GTTTAAGGGTTT
88006876 GTTATATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 12 0.25
23 16 0.33
24 12 0.25
25 6 0.12
26 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:88006911 original size:22 final size:21
Alignment explanation
Indices: 88006886--88006926 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
88006876 GTTATATTGG
88006886 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
88006908 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
88006927 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:88010876 original size:21 final size:21
Alignment explanation
Indices: 88010850--88010898 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
88010840 ATGGGTCCTG
* *
88010850 AACAGAGGTTGCAGTGAGAGA
1 AACAGAGGCTGCAGCGAGAGA
88010871 AACAGAGGCTGCAGCGAGAGA
1 AACAGAGGCTGCAGCGAGAGA
*
88010892 AGCAGAG
1 AACAGAG
88010899 CAGAGCAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.39, T:0.08
Consensus pattern (21 bp):
AACAGAGGCTGCAGCGAGAGA
Found at i:88016405 original size:18 final size:19
Alignment explanation
Indices: 88016377--88016412 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88016367 TTTTGCAATT
*
88016377 ATTTTTGAAAAATGTATAA
1 ATTTTTGAAAAATATATAA
88016396 ATTTTT-AAAAATATATA
1 ATTTTTGAAAAATATATA
88016413 TATTAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
ATTTTTGAAAAATATATAA
Found at i:88023503 original size:29 final size:29
Alignment explanation
Indices: 88023459--88023514 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
88023449 AAAAAATTCA
* *
88023459 AAAAAATATAAAAATACATTAATATTTTT
1 AAAAAATACAAAAATAAATTAATATTTTT
* *
88023488 AAAAAATACAATAATAAATTTATATTT
1 AAAAAATACAAAAATAAATTAATATTT
88023515 ATATTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAAATACAAAAATAAATTAATATTTTT
Found at i:88023509 original size:21 final size:21
Alignment explanation
Indices: 88023441--88023509 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
88023431 CAATTTAATC
* *
88023441 ATAATTTTAAAAAATTCAA-A
1 ATAAATTTAAAAAATACAATA
* *
88023461 A-AAATAT-AAAAATACATTA
1 ATAAATTTAAAAAATACAATA
**
88023480 ATATTTTTAAAAAATACAATA
1 ATAAATTTAAAAAATACAATA
88023501 ATAAATTTA
1 ATAAATTTA
88023510 TATTTATATT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
20 4 0.11
21 18 0.50
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATTTAAAAAATACAATA
Found at i:88029405 original size:23 final size:23
Alignment explanation
Indices: 88029379--88029431 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
88029369 GAACTTGAAA
88029379 TTAGCAGGAAAGCCATTGAGGCG
1 TTAGCAGGAAAGCCATTGAGGCG
88029402 TTAGCAGGAAAGCCATTGAGGCG
1 TTAGCAGGAAAGCCATTGAGGCG
*
88029425 ATAGCAG
1 TTAGCAG
88029432 TCGGTTCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.34, T:0.17
Consensus pattern (23 bp):
TTAGCAGGAAAGCCATTGAGGCG
Found at i:88036026 original size:20 final size:19
Alignment explanation
Indices: 88035978--88036026 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
88035968 AAAATAAGCA
* *
88035978 TAAATTATTAAAATTATAT
1 TAAAATATTAAAACTATAT
*
88035997 TAAAAGTATTAAAAACTATGT
1 TAAAA-TATT-AAAACTATAT
88036018 TAAAATATT
1 TAAAATATT
88036027 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (19 bp):
TAAAATATTAAAACTATAT
Found at i:88041089 original size:17 final size:18
Alignment explanation
Indices: 88041058--88041092 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
88041048 GAAAAAACTA
*
88041058 ATAAAAAGTATAATTTAG
1 ATAAAAAGTAGAATTTAG
88041076 ATAAAAA-TAGAATTTAG
1 ATAAAAAGTAGAATTTAG
88041093 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
ATAAAAAGTAGAATTTAG
Found at i:88045992 original size:45 final size:41
Alignment explanation
Indices: 88045933--88046042 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
88045923 TTTGGTTCGC
* *
88045933 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
88045975 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
88046018 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
88046043 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:88046215 original size:18 final size:17
Alignment explanation
Indices: 88046188--88046222 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88046178 TTGTTATTAA
*
88046188 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
88046206 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
88046223 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:88046359 original size:156 final size:157
Alignment explanation
Indices: 88046075--88046388 Score: 576
Period size: 156 Copynumber: 2.0 Consensus size: 157
88046065 TAGAATACCC
*
88046075 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
88046140 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTGTTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
88046205 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
88046231 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
88046296 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
88046361 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
88046388 T
1 T
88046389 CAATATTCTT
Statistics
Matches: 152, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 147 0.97
157 5 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:88046361 original size:16 final size:16
Alignment explanation
Indices: 88046324--88046365 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
88046314 TTAATCATAT
*
88046324 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
88046340 TT-AAATATATTATAA
1 TTAAAATATATTATAA
88046355 TTAAAATATAT
1 TTAAAATATAT
88046366 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:88046372 original size:14 final size:15
Alignment explanation
Indices: 88046333--88046374 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
88046323 TTTAAACATA
*
88046333 ATTATTATTAAATAT
1 ATTATAATTAAATAT
88046348 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
88046362 A-TATAATTTAATA
1 ATTATAATTAAATA
88046375 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:88049790 original size:97 final size:97
Alignment explanation
Indices: 88049679--88049914 Score: 472
Period size: 97 Copynumber: 2.4 Consensus size: 97
88049669 TTTAATAACA
88049679 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
88049744 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
88049776 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
88049841 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
88049873 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
88049915 CATAATTTAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 139 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGCAGATTTAATCTTAAATTTGGAC
Found at i:88050017 original size:13 final size:13
Alignment explanation
Indices: 88049999--88050025 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88049989 TAAAAACAAC
88049999 TATATTGTTTAAA
1 TATATTGTTTAAA
88050012 TATATTGTTTAAA
1 TATATTGTTTAAA
88050025 T
1 T
88050026 TAAACCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:88056722 original size:20 final size:18
Alignment explanation
Indices: 88056685--88056730 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
88056675 TTTTTTAACA
*
88056685 ATATTTTTTATTTTTATT
1 ATATTTTTAATTTTTATT
88056703 ATATTTTTAAATTATTTATT
1 ATATTTTT-AATT-TTTATT
*
88056723 AAATTTTT
1 ATATTTTT
88056731 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATATTTTTAATTTTTATT
Found at i:88061698 original size:19 final size:20
Alignment explanation
Indices: 88061674--88061723 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
88061664 TAGCATAAAT
*
88061674 TATTATTTAATTGAT-ATTA
1 TATTATTTAATTAATAATTA
*
88061693 TATTATTAAATTAATGAATTA
1 TATTATTTAATTAAT-AATTA
88061714 TATATATTTA
1 TAT-TATTTA
88061724 TATATATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 13 0.52
21 7 0.28
22 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTATTTAATTAATAATTA
Found at i:88061700 original size:22 final size:21
Alignment explanation
Indices: 88061672--88061721 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
88061662 AATAGCATAA
*
88061672 ATTATT-ATTTAATTGATATTAT
1 ATTATTAAATTAA-TGA-ATTAT
88061694 ATTATTAAATTAATGAATTAT
1 ATTATTAAATTAATGAATTAT
88061715 ATATATT
1 AT-TATT
88061722 TATATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTATTAAATTAATGAATTAT
Found at i:88061844 original size:30 final size:28
Alignment explanation
Indices: 88061805--88061866 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
88061795 ATGGATTTAA
* *
88061805 ATTACTTATTATTTAAGTACATATATATTT
1 ATTACTTATTA-TTAAGTA-AAAGATATTT
*
88061835 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
88061863 ATTA
1 ATTA
88061867 ATTAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.41
29 7 0.24
30 10 0.34
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:88062008 original size:19 final size:20
Alignment explanation
Indices: 88061975--88062013 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88061965 ACATGTGTAA
88061975 TAATAATAAATATATGTATT
1 TAATAATAAATATATGTATT
88061995 TAATAATAAA-ATATGTATT
1 TAATAATAAATATATGTATT
88062014 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TAATAATAAATATATGTATT
Found at i:88062861 original size:36 final size:37
Alignment explanation
Indices: 88062774--88062872 Score: 101
Period size: 36 Copynumber: 2.6 Consensus size: 37
88062764 GAATATATGT
* *
88062774 GTGGAATTGAATTGAATATATTGGCTTGAAAAATGAAAAG
1 GTGGAATTGAATTGAAT-T-GT-GATTGAAAAATGAAAAG
** *
88062814 GTGAGTTTTGAATTGAATTGTGATTG-AAAGTGAAAAG
1 GTG-GAATTGAATTGAATTGTGATTGAAAAATGAAAAG
*
88062851 GTGGAATTGAATTGAAATGTGA
1 GTGGAATTGAATTGAATTGTGA
88062873 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
36 16 0.32
37 13 0.26
38 4 0.08
39 1 0.02
40 4 0.08
41 12 0.24
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.32
Consensus pattern (37 bp):
GTGGAATTGAATTGAATTGTGATTGAAAAATGAAAAG
Found at i:88063841 original size:18 final size:18
Alignment explanation
Indices: 88063818--88063853 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
88063808 AAAAAGGTTT
*
88063818 AAAAAGTTAGATTTGTAA
1 AAAAAGTTAAATTTGTAA
88063836 AAAAAGTTAAATTTGTAA
1 AAAAAGTTAAATTTGTAA
88063854 TGTTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (18 bp):
AAAAAGTTAAATTTGTAA
Found at i:88064279 original size:20 final size:18
Alignment explanation
Indices: 88064237--88064285 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
88064227 TATTGAAAAA
*
88064237 TATATATTTTTATAAATT
1 TATATATTTTTAAAAATT
88064255 T-TATACTTTTTAAATAATT
1 TATATA-TTTTTAAA-AATT
88064274 TATATAATTTTT
1 TATAT-ATTTTT
88064286 TTGAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
19 5 0.19
20 8 0.31
21 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATATTTTTAAAAATT
Found at i:88067371 original size:3 final size:3
Alignment explanation
Indices: 88067363--88067387 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
88067353 TTTCAACTCT
88067363 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
88067388 ATAATCGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88073588 original size:7 final size:7
Alignment explanation
Indices: 88073576--88073600 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88073566 TTCCACTCTT
88073576 AATAGAA
1 AATAGAA
88073583 AATAGAA
1 AATAGAA
88073590 AATAGAA
1 AATAGAA
88073597 AATA
1 AATA
88073601 ACAGAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
AATAGAA
Found at i:88074226 original size:21 final size:21
Alignment explanation
Indices: 88074199--88074241 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
88074189 AATTTACTAT
* *
88074199 AATTTTTAAAAAATATTATTGA
1 AATTTTCAAAAAA-AGTATTGA
88074221 AATTTTCAAAAAAAGTATTGA
1 AATTTTCAAAAAAAGTATTGA
88074242 TTGTCGATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTTTCAAAAAAAGTATTGA
Found at i:88075556 original size:17 final size:17
Alignment explanation
Indices: 88075519--88075557 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
88075509 CCATATTATT
* *
88075519 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
88075536 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
88075553 TCTTT
1 TCTTT
88075558 GGTTCCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:88075577 original size:11 final size:12
Alignment explanation
Indices: 88075560--88075609 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
88075550 TGATCTTTGG
*
88075560 TTCCCCTTCTTC
1 TTCCCCTTCTCC
88075572 -TCCCCTTTCTCC
1 TTCCCC-TTCTCC
88075584 TTCCCCTTC-CC
1 TTCCCCTTCTCC
*
88075595 TTTCCCCTTCCCC
1 -TTCCCCTTCTCC
88075608 TT
1 TT
88075610 GGTTTGCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
11 7 0.21
12 19 0.58
13 7 0.21
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (12 bp):
TTCCCCTTCTCC
Found at i:88075595 original size:18 final size:18
Alignment explanation
Indices: 88075560--88075609 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
88075550 TGATCTTTGG
** *
88075560 TTCCCCTTCTTCTCCCCT
1 TTCCCCTTCCCCTTCCCT
*
88075578 TTCTCCTTCCCCTTCCCT
1 TTCCCCTTCCCCTTCCCT
88075596 TTCCCCTTCCCCTT
1 TTCCCCTTCCCCTT
88075610 GGTTTGCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCCCCTTCCCCTTCCCT
Found at i:88076575 original size:20 final size:20
Alignment explanation
Indices: 88076546--88076584 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88076536 ATATTTTCTG
*
88076546 GTAAATCATTTTACAGAAAA
1 GTAAAACATTTTACAGAAAA
*
88076566 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
88076585 TCATTTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:88076591 original size:14 final size:14
Alignment explanation
Indices: 88076568--88076607 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
88076558 ACAGAAAAGT
*
88076568 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
88076582 AAATCATTTTACGG
1 AAAACATTTTACAG
88076596 AAAACATTTTAC
1 AAAACATTTTAC
88076608 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:88076857 original size:19 final size:18
Alignment explanation
Indices: 88076841--88076879 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
88076831 TGTAAATTCA
88076841 ATATA-TTTTATTAAATT
1 ATATATTTTTATTAAATT
88076858 ATATATTTTTATTAAATT
1 ATATATTTTTATTAAATT
88076876 ATAT
1 ATAT
88076880 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATATTTTTATTAAATT
Found at i:88076894 original size:13 final size:13
Alignment explanation
Indices: 88076876--88076900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88076866 TTATTAAATT
88076876 ATATTTAATAATA
1 ATATTTAATAATA
88076889 ATATTTAATAAT
1 ATATTTAATAAT
88076901 TTTTTAATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:88077069 original size:21 final size:21
Alignment explanation
Indices: 88077043--88077097 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
88077033 ACCGCTGTTT
* *
88077043 CTAATCTCACTGCTACATTATC
1 CTAATCTCACCGCTACAGTA-C
88077065 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
88077085 CTAATCTCACCGC
1 CTAATCTCACCGC
88077098 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.07, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:88077220 original size:8 final size:7
Alignment explanation
Indices: 88077193--88077218 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
88077183 GACTTACAAA
88077193 AAAAATT
1 AAAAATT
88077200 AAAAATT
1 AAAAATT
88077207 AAAAATT
1 AAAAATT
88077214 AAAAA
1 AAAAA
88077219 ATAATAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:88079360 original size:124 final size:125
Alignment explanation
Indices: 88079051--88079387 Score: 597
Period size: 124 Copynumber: 2.7 Consensus size: 125
88079041 CGTCTCTGGT
* * *
88079051 CAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
88079116 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATGATTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATGAATTTTTTCTGATTTTTCTGAG
* *
88079176 TAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATTGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
88079241 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-AATTTTTTCTGATGTTTT-TGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATGAATTTTTTCTGAT-TTTTCTGAG
88079300 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
88079365 TGGACGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
88079388 CAAGTTTGGC
Statistics
Matches: 203, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
124 102 0.50
125 101 0.50
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (125 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATGAATTTTTTCTGATTTTTCTGAG
Found at i:88101707 original size:10 final size:10
Alignment explanation
Indices: 88101692--88101716 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
88101682 CAGATCTAAT
88101692 ATTATGTAAA
1 ATTATGTAAA
88101702 ATTATGTAAA
1 ATTATGTAAA
88101712 ATTAT
1 ATTAT
88101717 TAAGCCAAAA
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:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:88101841 original size:56 final size:56
Alignment explanation
Indices: 88101705--88101839 Score: 150
Period size: 56 Copynumber: 2.4 Consensus size: 56
88101695 ATGTAAAATT
* * * *
88101705 ATGTAAAATTATTAAGCCAAAAATTTTTCTTAATGGTTAGAAAAATTTATCAAATA
1 ATGTAAAATTATTAAGCCAAAAAATTGTCTTAATGGTTAGAAAAATGTATCAAAAA
* * ** *
88101761 ATCTCAAAATT-TTAAGTCC-AAAAATTGTGTTAATGGTTATTAAAGTGT-TCAAAAA
1 ATGT-AAAATTATTAAG-CCAAAAAATTGTCTTAATGGTTAGAAAAATGTATCAAAAA
88101816 ATGTAAAATTATTAAGCCAAAAAA
1 ATGTAAAATTATTAAGCCAAAAAA
88101840 ATATGTAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
54 8 0.12
55 19 0.29
56 30 0.46
57 8 0.12
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (56 bp):
ATGTAAAATTATTAAGCCAAAAAATTGTCTTAATGGTTAGAAAAATGTATCAAAAA
Found at i:88101847 original size:26 final size:26
Alignment explanation
Indices: 88101811--88101867 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
88101801 TAAAGTGTTC
88101811 AAAAA-ATGTAAAATTATTAAGCCAA
1 AAAAATATGTAAAATTATTAAGCCAA
88101836 AAAAATATGTAAAATTATTAAGCCAA
1 AAAAATATGTAAAATTATTAAGCCAA
88101862 AAAAAT
1 AAAAAT
88101868 TTAGGTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (26 bp):
AAAAATATGTAAAATTATTAAGCCAA
Found at i:88101916 original size:28 final size:27
Alignment explanation
Indices: 88101865--88102249 Score: 437
Period size: 28 Copynumber: 13.4 Consensus size: 27
88101855 AAGCCAAAAA
* * *
88101865 AATTTAGGTTTGTTTTGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGG-TTTTAATT
*
88101893 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGG-TTTTAATT
88101922 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTT-AATT
* *
88101950 AATTTAGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAG-GGTTTTAATT
88101978 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGG-TTTTAATT
88102006 AATTTAGGTTAGAGTTAGGGTTTTAAATT
1 AATTTAGGTTAGA-TTAGGGTTTT-AATT
*
88102035 AATTTAGGTTAGATTAGAGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTT-AATT
* *
88102063 AATTTAGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAG-GGTTTTAATT
88102091 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTT-AATT
*
88102119 AATTTAGGTTAAGGTTAGATTAGGGTTTTTAGTT
1 AA--T---TT-AGGTTAGATTAGGG-TTTTAATT
*
88102153 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGG-TTTTAATT
* *
88102182 AATTTAGGTCAGGGTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGG-TTTTAATT
* *
88102211 AATTTAGGTTAGATCAGTGTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTAATT
88102238 AATTTAGGTTAG
1 AATTTAGGTTAG
88102250 GGTTAGGTTA
Statistics
Matches: 319, Mismatches: 22, Indels: 33
0.85 0.06 0.09
Matches are distributed among these distances:
27 30 0.09
28 149 0.47
29 113 0.35
30 1 0.00
32 1 0.00
33 2 0.01
34 19 0.06
35 4 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.49
Consensus pattern (27 bp):
AATTTAGGTTAGATTAGGGTTTTAATT
Found at i:88102012 original size:113 final size:113
Alignment explanation
Indices: 88101865--88102256 Score: 554
Period size: 113 Copynumber: 3.4 Consensus size: 113
88101855 AAGCCAAAAA
* * *
88101865 AATTTAGGTTTGTTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
88101930 TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
66 TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
*
88101978 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGAG-TTAGGGTTTTAAATTAATTTAG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAG-GTTTAGGGTTTTTAATTAATTTAG
*
88102042 GTTAGATTAGAGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
65 GTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
* *
88102091 AATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAAGGTTAGATTAGGGTTTTTAGTTAAT
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTT-AGG-T---TTAGGGTTTTTAATTAAT
* * * * * *
88102156 TTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTCAGGGTTAGGGTTTTTAATT
61 TTAGGTTA-GATTAGGGTTTTAAATTAATTTAGGTTA-GATTAGAGTTTTTAGTT
* * *
88102211 AATTTAGGTTAGATCAGTG-TTTTAATTAATTTAGGTTAGGGTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGG
88102257 TTAGGGTTTT
Statistics
Matches: 251, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
113 144 0.57
114 8 0.03
118 27 0.11
119 41 0.16
120 31 0.12
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (113 bp):
AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
Found at i:88102250 original size:85 final size:85
Alignment explanation
Indices: 88101865--88102256 Score: 529
Period size: 85 Copynumber: 4.6 Consensus size: 85
88101855 AAGCCAAAAA
* * * * *
88101865 AATTTAGGTTTGTTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
1 AATTTAGGTTAGATTAGAGTTTTTAATTAATTTAGGTTAGGATTAGGGTTTTTAATTAATTTAGG
88101930 TTAGATTAGGGTTTTAAATT
66 TTAGATTAGGGTTTTAAATT
*
88101950 AATTTAGGTTAGATTAGAGTTTTTAGTTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGG
1 AATTTAGGTTAGATTAGAGTTTTTAATTAATTTAGGTTAGGATTAGGGTTTTTAATTAATTTAGG
88102014 TTAGAGTTAGGGTTTTAAATT
66 TTAGA-TTAGGGTTTTAAATT
* * *
88102035 AATTTAGGTTAGATTAGAGTTTTAAATTAATTTAGGTTA-GATTAGAGTTTTTAGTTAATTTAGG
1 AATTTAGGTTAGATTAGAGTTTTTAATTAATTTAGGTTAGGATTAGGGTTTTTAATTAATTTAGG
88102099 TTAGATTAGGGTTTTAAATT
66 TTAGATTAGGGTTTTAAATT
* * *
88102119 AATTTAGGTTAAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAA
1 AA--T---TT-AGGTTAGATTAGAGTTTTTAATTAATTTAGGTTAGGATTAGGGTTTTTAATTAA
* * *
88102184 TTTAGGTCAGGGTTAGGGTTTTTAATT
60 TTTAGGTTA-GATTAGGGTTTTAAATT
* * *
88102211 AATTTAGGTTAGATCAGTG-TTTTAATTAATTTAGGTTAGGGTTAGG
1 AATTTAGGTTAGATTAGAGTTTTTAATTAATTTAGGTTAGGATTAGG
88102257 TTAGGGTTTT
Statistics
Matches: 275, Mismatches: 23, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
84 46 0.17
85 139 0.51
86 13 0.05
87 2 0.01
89 2 0.01
90 32 0.12
91 24 0.09
92 17 0.06
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (85 bp):
AATTTAGGTTAGATTAGAGTTTTTAATTAATTTAGGTTAGGATTAGGGTTTTTAATTAATTTAGG
TTAGATTAGGGTTTTAAATT
Found at i:88102358 original size:26 final size:25
Alignment explanation
Indices: 88102327--88102375 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
88102317 CTTAAAAAAT
88102327 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
88102353 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
88102376 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:88102516 original size:24 final size:24
Alignment explanation
Indices: 88102489--88102541 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
88102479 GGCGGTTGTT
*
88102489 CTTCCTCTGGTGGTGATTGTGGTC
1 CTTCCTCCGGTGGTGATTGTGGTC
* *
88102513 CTTCCTCCGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGGTGATTGTGGTC
88102537 CTTCC
1 CTTCC
88102542 GGTTCCGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.02, C:0.25, G:0.32, T:0.42
Consensus pattern (24 bp):
CTTCCTCCGGTGGTGATTGTGGTC
Done.