Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 153 of 222
Found at i:49291390 original size:149 final size:149
Alignment explanation
Indices: 49291101--49291427 Score: 403
Period size: 149 Copynumber: 2.2 Consensus size: 149
49291091 TTTTGGTGAA
* * * *
49291101 CAAATCTTCGTC-GATTTACGTGACTAGT-GTTAGG-CACATCATTATCTTCGTCGATTTATCCG
1 CAAATCTTCGTCAG-TTTACCTGACTA-TAGCT-GGACACATCATTATATTCATC-A--TATCCG
*
49291163 ACTAGCGCTGGGCGCAAATCTTCGTCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCAT
60 ACTAGCGCTGGGCGCAAATCTTCGCCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCAT
*
49291228 CGATTTATTCGACTAGCGCAGGGCG
125 CGATTTATCCGACTAGCGCAGGGCG
*
49291253 CAAATCTTTGTCAGTTTACCTGACTATAGCTGGACACATCATTATATTCATCATATCCGACTAGC
1 CAAATCTTCGTCAGTTTACCTGACTATAGCTGGACACATCATTATATTCATCATATCCGACTAGC
* * * * * *
49291318 GCTGGGTGCAAATCTTCGCCAGTTTATCTTACTAGTGCTGGGCACATCATTATATTTGA-CAGA-
66 GCTGGGCGCAAATCTTCGCCAATTTACCTTACTAGTACTGGGCACATCATTAT-CTTCATC-GAT
*
49291381 TTATCCGACTAGCGCTGGGCG
129 TTATCCGACTAGCGCAGGGCG
* *
49291402 CAAATCTTCGTTAGTTTATCTGACTA
1 CAAATCTTCGTCAGTTTACCTGACTA
49291428 GTGCTAGGCA
Statistics
Matches: 153, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
149 103 0.67
150 5 0.03
151 4 0.03
152 40 0.26
153 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (149 bp):
CAAATCTTCGTCAGTTTACCTGACTATAGCTGGACACATCATTATATTCATCATATCCGACTAGC
GCTGGGCGCAAATCTTCGCCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCATCGATTT
ATCCGACTAGCGCAGGGCG
Found at i:49295038 original size:41 final size:40
Alignment explanation
Indices: 49294983--49295334 Score: 345
Period size: 41 Copynumber: 8.7 Consensus size: 40
49294973 CTTTCGGGGC
* *
49294983 TTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCAGAGC-
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCAG-GCT
* * *
49295024 TTTAGCGGTGTTTTTTAAAAAGCGCTGCTAATACTC-GAGCT
1 TTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTCAG-GCT
* * ** *
49295065 TTTAGCGGCATTTTTAAAAAAGCACTTCTAATCCTCAGGCT
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCAGGCT
*
49295106 TTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCAGGCT
* *
49295147 TTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCAGGCC
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCAGGCT
* *
49295188 TTTAGTGGCGTTTTTAGAAAAGCGCCACTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCAGGCT
* * * * * *
49295229 TTTAGTGCCATTTTT--GAAGCACAGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* ** *
49295267 TTTAGCGGCTTTTTTAAAAAGCATCGCTAATGCTCGGGGC-
1 TTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC-AGGCT
*
49295307 TTTAGCAGCGTTTTTAAAAAAGCGCCGC
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGC
49295335 AAAAACATTT
Statistics
Matches: 261, Mismatches: 41, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
38 31 0.12
40 38 0.15
41 186 0.71
42 6 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:49295762 original size:14 final size:15
Alignment explanation
Indices: 49295734--49295766 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
49295724 AAGGTTTATA
49295734 GATTATGGAATTAGG
1 GATTATGGAATTAGG
49295749 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
49295763 GATT
1 GATT
49295767 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:49298102 original size:17 final size:17
Alignment explanation
Indices: 49298080--49298116 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
49298070 CAGAAGGTCT
*
49298080 TTCAAAGAGGTGGTTCA
1 TTCAAAAAGGTGGTTCA
49298097 TTCAAAAAGGTGGTTCA
1 TTCAAAAAGGTGGTTCA
49298114 TTC
1 TTC
49298117 TTTGCTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (17 bp):
TTCAAAAAGGTGGTTCA
Found at i:49300320 original size:44 final size:44
Alignment explanation
Indices: 49300219--49300365 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 44
49300209 TTTAAACGTT
* * *
49300219 ATGTT-TTTAGCGGCGTTTTTG-CAAGAAGTGCCGCTAAAGGT-
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAAGTGCCACTAAAGGTC
* * * *
49300260 TTGATCTATAGCGGCGTTTGTGACAAAAAATGCCACTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAAGTGCCACTAAAGGTC
* * *
49300304 ATGTTCTTTAGCGGCGTTTGT-ACCAAAAGCGCCACTAAATGTC
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAAGTGCCACTAAAGGTC
*
49300347 ATGGTCTTTAGCGGCGTTT
1 ATGTTCTTTAGCGGCGTTT
49300366 TTACATAAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 3 0.03
42 14 0.16
43 53 0.60
44 18 0.20
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGTTCTTTAGCGGCGTTTGTGACAAAAAGTGCCACTAAAGGTC
Found at i:49300558 original size:17 final size:17
Alignment explanation
Indices: 49300533--49300565 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49300523 ATATTTTTAT
49300533 TTAAATATAATTATTAA
1 TTAAATATAATTATTAA
*
49300550 TTAATTATAATTATTA
1 TTAAATATAATTATTA
49300566 TAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATATAATTATTAA
Found at i:49300579 original size:20 final size:20
Alignment explanation
Indices: 49300542--49300584 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
49300532 TTTAAATATA
* * * *
49300542 ATTATTAATTAATTATAATT
1 ATTATAAATAAATAATAACT
49300562 ATTATAAATAAATAATAACT
1 ATTATAAATAAATAATAACT
49300582 ATT
1 ATT
49300585 GGGATTAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATAAATAAATAATAACT
Found at i:49300668 original size:10 final size:10
Alignment explanation
Indices: 49300650--49300687 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
49300640 AGGATTTTAG
49300650 TATTTAATTA
1 TATTTAATTA
*
49300660 TAATTAATTA
1 TATTTAATTA
49300670 TTATTTAATTA
1 -TATTTAATTA
49300681 TATTTAA
1 TATTTAA
49300688 AAAAAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTAATTA
Found at i:49301648 original size:16 final size:16
Alignment explanation
Indices: 49301606--49301657 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
49301596 TGGTGAGAAG
49301606 TAAAAGTTTAGAGGGAAAA
1 TAAAAGTTT-GAGGG--AA
*
49301625 TAAAAAGTTTTAGGGAA
1 T-AAAAGTTTGAGGGAA
49301642 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGAGGGAA
49301658 AGTAAATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.47
17 3 0.10
19 5 0.17
20 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTGAGGGAA
Found at i:49302723 original size:20 final size:20
Alignment explanation
Indices: 49302698--49302757 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
49302688 AATTAGATTT
49302698 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
* *
49302718 ATTTAAATTTAAAAATA-GAA
1 ATTTAAA-ATAAAAATATTAA
* *
49302738 AATTAAAATATCAAATATTA
1 ATTTAAAATA-AAAATATTA
49302758 TTGAAAACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 2 0.06
20 20 0.65
21 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:49302740 original size:21 final size:21
Alignment explanation
Indices: 49302698--49302748 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
49302688 AATTAGATTT
**
49302698 ATTTAAA-ATAAAAATATTAA
1 ATTTAAATATAAAAATAGAAA
*
49302718 ATTTAAATTTAAAAATAGAAA
1 ATTTAAATATAAAAATAGAAA
*
49302739 ATTAAAATAT
1 ATTTAAATAT
49302749 CAAATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTAAATATAAAAATAGAAA
Found at i:49304562 original size:92 final size:92
Alignment explanation
Indices: 49304405--49304599 Score: 372
Period size: 92 Copynumber: 2.1 Consensus size: 92
49304395 GTTGTGTTAG
49304405 TTTATGAAATAAGTGAATCAATAATGGCTTCTTTTCTTCCAAAGACAACGATTTTTTTACTTCAT
1 TTTATGAAATAAGTGAATCAATAATGGCTTCTTTTCTTCCAAAGACAACGATTTTTTTACTTCAT
49304470 TGTTGTGCGAGATTTTGGGAGTTATTA
66 TGTTGTGCGAGATTTTGGGAGTTATTA
49304497 TTTATGAAATAAGTGAATCAATAATGGCTTCTTTTCTTCCAAAGACAACGATTTTTTTACTTCAT
1 TTTATGAAATAAGTGAATCAATAATGGCTTCTTTTCTTCCAAAGACAACGATTTTTTTACTTCAT
49304562 TGTTGTGCGAGATTTTGGGAGTTATTA
66 TGTTGTGCGAGATTTTGGGAGTTATTA
*
49304589 TTAATGTAAAT
1 TTTATG-AAAT
49304600 GGTAGGAAAA
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 97 0.96
93 4 0.04
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (92 bp):
TTTATGAAATAAGTGAATCAATAATGGCTTCTTTTCTTCCAAAGACAACGATTTTTTTACTTCAT
TGTTGTGCGAGATTTTGGGAGTTATTA
Found at i:49306248 original size:21 final size:21
Alignment explanation
Indices: 49306218--49306259 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49306208 TTTGTAAAAG
* *
49306218 ATGTGTATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
49306239 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATTAAATTGA
49306260 GCTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:49306650 original size:25 final size:25
Alignment explanation
Indices: 49306622--49306678 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
49306612 CTTATGAGCA
* *
49306622 TCCCG-TTATATGGCTCTCTTAAGCT
1 TCCCGATTA-ATGGATCCCTTAAGCT
*
49306647 TCCCGATTAATGGATCCCTTGAGCT
1 TCCCGATTAATGGATCCCTTAAGCT
49306672 TCCCGAT
1 TCCCGAT
49306679 ACTTAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.35
Consensus pattern (25 bp):
TCCCGATTAATGGATCCCTTAAGCT
Found at i:49306724 original size:23 final size:24
Alignment explanation
Indices: 49306695--49306754 Score: 104
Period size: 23 Copynumber: 2.5 Consensus size: 24
49306685 TGGCTTTCCA
*
49306695 GAGCTTCTCGATATTGGCT-TTAT
1 GAGCTTCTCGATATTGGCTCGTAT
49306718 GAGCTTCTCGATATTGGCTCGTAT
1 GAGCTTCTCGATATTGGCTCGTAT
49306742 GAGCTTCTCGATA
1 GAGCTTCTCGATA
49306755 ATTTTCTCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (24 bp):
GAGCTTCTCGATATTGGCTCGTAT
Found at i:49306770 original size:25 final size:24
Alignment explanation
Indices: 49306694--49306773 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
49306684 ATGGCTTTCC
**
49306694 AGAGCTTCTCGATATTGGCT-TTA
1 AGAGCTTCTCGATATTGGCTCGCA
* *
49306717 TGAGCTTCTCGATATTGGCTCGTA
1 AGAGCTTCTCGATATTGGCTCGCA
* **
49306741 TGAGCTTCTCGATAATTTTCTCGCA
1 AGAGCTTCTCGAT-ATTGGCTCGCA
49306766 AGAGCTTC
1 AGAGCTTC
49306774 CCGTTATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
23 19 0.39
24 15 0.31
25 15 0.31
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
AGAGCTTCTCGATATTGGCTCGCA
Found at i:49306820 original size:25 final size:25
Alignment explanation
Indices: 49306760--49306834 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
49306750 CGATAATTTT
* * *
49306760 CTCGCAAGAGCTTCCCGTTATATAG
1 CTCGAAAGAGCTTCCCGTTACATGG
* *
49306785 CT-TACATGAGCTTCCCGTTACATGG
1 CTCGA-AAGAGCTTCCCGTTACATGG
*
49306810 CTCGAAAGAGCTTCCCAATTACATG
1 CTCGAAAGAGCTTCCC-GTTACATG
49306835 CTTGTATAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
25 31 0.79
26 8 0.21
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (25 bp):
CTCGAAAGAGCTTCCCGTTACATGG
Found at i:49326251 original size:46 final size:46
Alignment explanation
Indices: 49326169--49326258 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
49326159 TCATTTGTAT
* * *
49326169 AAATTTTAAAACTTTACTATTACGATAAATTCTTTATATATTAAGA
1 AAATTATAAAACTTTACTATCACGATAAATTATTTATATATTAAGA
* * * *
49326215 AAATTATAAAATTTTACTATCAGGGTCAATTATTTATATATTAA
1 AAATTATAAAACTTTACTATCACGATAAATTATTTATATATTAA
49326259 AATTTTGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (46 bp):
AAATTATAAAACTTTACTATCACGATAAATTATTTATATATTAAGA
Found at i:49326423 original size:64 final size:64
Alignment explanation
Indices: 49326355--49326485 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
49326345 GTTCCTATTC
49326355 TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
1 TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
* *
49326419 TAAATTAAATGATTAAAACTTTATTTTATATTAATATTTCTATGTTTCTCCTAAATTTTATTGT
1 TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
49326483 TAA
1 TAA
49326486 GACAATTTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (64 bp):
TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
Found at i:49326477 original size:32 final size:32
Alignment explanation
Indices: 49326377--49326479 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
49326367 TTAAAAATTT
*
49326377 ATTTTATATTAATATTTCTATATTTCTCCTAA
1 ATTTTATATTAATATTTCTATGTTTCTCCTAA
* ** **** **
49326409 ATTTTATTGTTAA-A-TTAAATGATTAAAACTTT
1 ATTTTA-TATTAATATTTCTATG-TTTCTCCTAA
49326441 ATTTTATATTAATATTTCTATGTTTCTCCTAA
1 ATTTTATATTAATATTTCTATGTTTCTCCTAA
49326473 ATTTTAT
1 ATTTTAT
49326480 TGTTAAGACA
Statistics
Matches: 48, Mismatches: 19, Indels: 8
0.64 0.25 0.11
Matches are distributed among these distances:
31 9 0.19
32 29 0.60
33 10 0.21
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (32 bp):
ATTTTATATTAATATTTCTATGTTTCTCCTAA
Found at i:49328181 original size:68 final size:67
Alignment explanation
Indices: 49328082--49328280 Score: 227
Period size: 68 Copynumber: 3.0 Consensus size: 67
49328072 TATTTTAATA
* *
49328082 TATTTAATATTAATTTTAATTTAATACTTATCTTGATAATATATTATTAATTTAATATTAAAGTG
1 TATTTAATATTAAATTTAATTTAATATTTATCTTGATAATATATTATTAATTTAATATTAAAGTG
49328147 AT
66 AT
**
49328149 TATCTTAATATTAAATTTAATTTAATATTTATCTTG-TAGATA-AACATT-ATATTAA-ATT-AA
1 TAT-TTAATATTAAATTTAATTTAATATTTATCTTGATA-ATATATTATTAAT-TTAATATTAAA
49328209 -T-A-
63 GTGAT
* * *
49328211 GATTTAATATTAAATTTAATCTAATATTTATCATGATAAGTAT-TATATTAATTTAATATTAAAG
1 TATTTAATATTAAATTTAATTTAATATTTATCTTGATAA-TATAT-TATTAATTTAATATTAAAG
49328275 TGAT
64 TGAT
49328279 TA
1 TA
49328281 AGTTTAATTA
Statistics
Matches: 109, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
61 31 0.28
62 6 0.06
63 8 0.07
64 6 0.06
65 4 0.04
66 6 0.06
67 14 0.13
68 34 0.31
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (67 bp):
TATTTAATATTAAATTTAATTTAATATTTATCTTGATAATATATTATTAATTTAATATTAAAGTG
AT
Found at i:49328281 original size:58 final size:59
Alignment explanation
Indices: 49328155--49328288 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 59
49328145 TGATTATCTT
* * *
49328155 AATATTAAATTTAATTTAATATTTATCTTGTAGATAAACATTATATTAAATTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATC-TATAGATAAACATTATATTAAATTAATA-ATTA
** *
49328216 AATATTAAATTTAATCTAATATTTATC-AT-GATAAGTATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTATAGATAAACATTATATTAAATTAATAATTA
*
49328272 AAGTGATTAAGTTTAAT
1 AA-T-ATTAAATTTAAT
49328289 TATAATTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 31 0.48
59 1 0.02
61 26 0.41
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (59 bp):
AATATTAAATTTAATCTAATATTTATCTATAGATAAACATTATATTAAATTAATAATTA
Found at i:49340889 original size:18 final size:18
Alignment explanation
Indices: 49340855--49340926 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
49340845 AGTCACTATG
49340855 TATTTTGAAAT-TAAAAAT
1 TATTTT-AAATATAAAAAT
*
49340873 TATATTAAATATAAAAAT
1 TATTTTAAATATAAAAAT
*
49340891 ATAATTTTTTAATA-AAAAAT
1 -T-A-TTTTAAATATAAAAAT
*
49340911 TATTTTAAAGATAAAA
1 TATTTTAAATATAAAA
49340927 TGTGAAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 11 0.25
18 17 0.39
19 2 0.05
20 7 0.16
21 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATTTTAAATATAAAAAT
Found at i:49340924 original size:19 final size:18
Alignment explanation
Indices: 49340855--49340926 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
49340845 AGTCACTATG
* *
49340855 TATTTTGAAATTAAAAAT
1 TATTTTAAAATAAAAAAT
*
49340873 TATATTAAATATAAAAATAT
1 TATTTTAAA-ATAAAAA-AT
* **
49340893 AATTTTTTAATAAAAAAT
1 TATTTTAAAATAAAAAAT
49340911 TATTTTAAAGATAAAA
1 TATTTTAAA-ATAAAA
49340927 TGTGAAATTG
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 15 0.37
19 19 0.46
20 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATTTTAAAATAAAAAAT
Found at i:49341664 original size:11 final size:10
Alignment explanation
Indices: 49341623--49341694 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
49341613 TTTTTATTTT
49341623 TATTAAATTA
1 TATTAAATTA
49341633 TATTAAA-TA
1 TATTAAATTA
49341642 -A-T-AATTA
1 TATTAAATTA
49341649 TATTAAATTA
1 TATTAAATTA
49341659 TGATTAAATTA
1 T-ATTAAATTA
* *
49341670 T-TTATTATTTT
1 TATTA--AATTA
49341681 TATTAAATTA
1 TATTAAATTA
49341691 TATT
1 TATT
49341695 TAATAGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 2 0.04
9 6 0.12
10 20 0.40
11 14 0.28
12 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (10 bp):
TATTAAATTA
Found at i:49341664 original size:16 final size:16
Alignment explanation
Indices: 49341624--49341692 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
49341614 TTTTATTTTT
49341624 ATTA-AATTATATTAA
1 ATTATAATTATATTAA
*
49341639 ATAATAATTATATTAA
1 ATTATAATTATATTAA
* *
49341655 ATTATGATTAAATT-A
1 ATTATAATTATATTAA
* * *
49341670 TTTATTATTTTTATTAA
1 ATTA-TAATTATATTAA
49341687 ATTATA
1 ATTATA
49341693 TTTAATAGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
15 7 0.17
16 30 0.73
17 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (16 bp):
ATTATAATTATATTAA
Found at i:49341668 original size:21 final size:20
Alignment explanation
Indices: 49341623--49341694 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
49341613 TTTTTATTTT
49341623 TATTAAATTATATTAAA-TA
1 TATTAAATTATATTAAATTA
49341642 -A-T-AATTATATTAAATTA
1 TATTAAATTATATTAAATTA
* *
49341659 TGATTAAATTAT-TTATTATTTT
1 T-ATTAAATTATATTA--AATTA
49341681 TATTAAATTATATT
1 TATTAAATTATATT
49341695 TAATAGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
16 12 0.28
17 3 0.07
18 1 0.02
19 1 0.02
20 4 0.09
21 16 0.37
22 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (20 bp):
TATTAAATTATATTAAATTA
Found at i:49341678 original size:26 final size:25
Alignment explanation
Indices: 49341616--49341678 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
49341606 ATTAAATTTT
49341616 TTATTT-TTATTAAATTATATTAAA
1 TTATTTATTATTAAATTATATTAAA
*
49341640 TAATAATTA-TATTAAATTATGATTAAA
1 T--TATTTATTATTAAATTAT-ATTAAA
49341667 TTATTTATTATT
1 TTATTTATTATT
49341679 TTTATTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
24 1 0.03
25 5 0.16
26 19 0.59
27 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTTATTATTAAATTATATTAAA
Found at i:49341687 original size:58 final size:56
Alignment explanation
Indices: 49341581--49341699 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 56
49341571 TATAATTTAA
* *
49341581 TAAA-AATAATTATATTAAGAATGTTATTAAATTTTTTATTTTTATTAAATTATAT
1 TAAATAATAATTATATTAAGAATATGATTAAATTTTTTATTTTTATTAAATTATAT
*
49341636 TAAATAATAATTATATTAA-ATTATGATTAAATTATTTATTATTTTTATTAAATTATAT
1 TAAATAATAATTATATTAAGAATATGATTAAA-T-TTT-TTATTTTTATTAAATTATAT
*
49341694 TTAATA
1 TAAATA
49341700 GAAAAAATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
55 13 0.23
56 15 0.27
57 3 0.05
58 25 0.45
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (56 bp):
TAAATAATAATTATATTAAGAATATGATTAAATTTTTTATTTTTATTAAATTATAT
Found at i:49342882 original size:17 final size:19
Alignment explanation
Indices: 49342860--49342921 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 19
49342850 AATAATTCAA
*
49342860 AAAAATTAAA-AAAATT-T
1 AAAAATAAAATAAAATTCT
49342877 AAAAATAAAATAAAATTCT
1 AAAAATAAAATAAAATTCT
*
49342896 AAAATATATAATTTAAAATT-T
1 AAAA-ATA-AA-ATAAAATTCT
49342917 AAAAA
1 AAAAA
49342922 ATCAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 5 0.13
20 4 0.11
21 7 0.18
22 7 0.18
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATAAAATAAAATTCT
Found at i:49343026 original size:24 final size:23
Alignment explanation
Indices: 49342980--49343030 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 23
49342970 AAATTCTAAA
*
49342980 TTCTAAAATTAATATATATATAT
1 TTCTAAAATTAAAATATATATAT
49343003 TTCTAAACATTTAAAATTATATATAT
1 TTCTAAA-A-TTAAAA-TATATATAT
49343029 TT
1 TT
49343031 GATGAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 1 0.04
25 5 0.21
26 11 0.46
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
TTCTAAAATTAAAATATATATAT
Found at i:49343981 original size:15 final size:16
Alignment explanation
Indices: 49343963--49343992 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49343953 GGTTAGGGTT
49343963 TTTA-GGTTTTAAAGG
1 TTTAGGGTTTTAAAGG
49343978 TTTAGGGTTTTAAAG
1 TTTAGGGTTTTAAAG
49343993 AAAAAATTAA
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:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (16 bp):
TTTAGGGTTTTAAAGG
Found at i:49344129 original size:95 final size:96
Alignment explanation
Indices: 49343977--49344216 Score: 215
Period size: 98 Copynumber: 2.5 Consensus size: 96
49343967 GGTTTTAAAG
* * * * *
49343977 GTTTAGGGTTTTAAAGAAAAAATTAAA-TAAATAAGGG-ATTAGGGTTTTTCAATTAAATTGATT
1 GTTTAGGTTTTTAAAGAAAAAA-TAAATTAAATTAGGGTA-TAGGATTTTTCAAGTAAATTAATT
* * * * * *
49344040 -ATAATTTTTTCAAAATT-GTATT-AGGTTTCGT
64 AAAAAATGTTTAAAAATTAG-ATTAAGATTTAGT
*
49344071 GTTTATGGTTTTTAAAGAAAAAATAAATTAAATTAGGGTATAGGATTTCTT-GAGTAAATTAATT
1 GTTTA-GGTTTTTAAAGAAAAAATAAATTAAATTAGGGTATAGGATTT-TTCAAGTAAATTAATT
49344135 AAAAAAATGTTTAAAAATTAGATTAAGATTTAGT
64 -AAAAAATGTTTAAAAATTAGATTAAGATTTAGT
* * * *
49344169 GTTTAGGGTTTTT-AAGTAAAAACTCAATTAAATTAGGGTTTGGGATTT
1 GTTTA-GGTTTTTAAAG-AAAAAATAAATTAAATTAGGGTATAGGATTT
49344217 AGGGTTACTT
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
94 9 0.08
95 42 0.35
96 3 0.03
97 19 0.16
98 47 0.39
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (96 bp):
GTTTAGGTTTTTAAAGAAAAAATAAATTAAATTAGGGTATAGGATTTTTCAAGTAAATTAATTAA
AAAATGTTTAAAAATTAGATTAAGATTTAGT
Found at i:49344597 original size:126 final size:126
Alignment explanation
Indices: 49344248--49344793 Score: 810
Period size: 125 Copynumber: 4.3 Consensus size: 126
49344238 TTGTTAATTT
* * *
49344248 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTTGCTCCTGAAAAAATAATTTCGAGTAAAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
49344313 ATTTCTGAGCAAATAAG-GTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAAT-AGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
* * *
49344374 AAAGAAGCTCTCA-GTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
49344438 ATTTCTAAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
* * * * * * *
49344499 AAAGAAGCTCTCACGTGGACGCGTTTTTGCTAGAGTAGATCTTGAAAAAATAATTTTGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
49344564 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGTATGCTTCGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
* *
49344625 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAATAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
49344690 GTTTCTGAGCAAAT-GTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
** *
49344750 AAAGAAGCTCCCATATGGACGCGTTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
49344794 TTTGGCCTAA
Statistics
Matches: 379, Mismatches: 39, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
124 2 0.01
125 196 0.52
126 181 0.48
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
Found at i:49344721 original size:251 final size:251
Alignment explanation
Indices: 49344248--49344793 Score: 826
Period size: 251 Copynumber: 2.2 Consensus size: 251
49344238 TTGTTAATTT
** * *
49344248 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTTGCTCCTGAAAAAATAATTTCGAGTAAAC
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTAAAC
*
49344313 ATTTCTGAGCAAATAAGGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 ATTTCTGAGCAAATAAGGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTGAAAG
* *
49344378 AAGCTCTCAGTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGACATTTC
131 AAGCTCCCAGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACATTTC
* *
49344443 TAAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
196 TAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTCGTCAGCAAAAGTACTG
* * * * **
49344499 AAAGAAGCTCTCACGTGGACGCGTTTTTGCTAGAGTAGATCTTGAAAAAATAATTTTGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTAAAC
* * *
49344564 GTTTCTGAGCAAAT-AGTGTCAAAAACGCTTTAAGTAGTATGCTTCGTCAGCAAAAGTACTGAAA
66 ATTTCTGAGCAAATAAG-GTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTGAAA
* *
49344628 GAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAATAATAATTTCGAGTAGACGTT
130 GAAGCTCCCA-GTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACATT
* * *
49344693 TCTGAGCAAAT-GTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTG
194 TCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTCGTCAGCAAAAGTACTG
** *
49344750 AAAGAAGCTCCCATATGGACGCGTTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTG
49344794 TTTGGCCTAA
Statistics
Matches: 264, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
250 2 0.01
251 201 0.76
252 61 0.23
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (251 bp):
AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTAAAC
ATTTCTGAGCAAATAAGGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTGAAAG
AAGCTCCCAGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACATTTC
TAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTCGTCAGCAAAAGTACTG
Found at i:49347884 original size:38 final size:38
Alignment explanation
Indices: 49347842--49347922 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
49347832 AAAGAAAATC
*
49347842 TATTCTATTAAAAATATTAAAGTAAATTACAATTACTT
1 TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
49347880 TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
1 TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
49347918 TATTC
1 TATTC
49347923 AAAACAATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (38 bp):
TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
Found at i:49348261 original size:21 final size:22
Alignment explanation
Indices: 49348235--49348286 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
49348225 GCTCCGACGA
49348235 GATTCTGGTTCCTCCGGT-GGG
1 GATTCTGGTTCCTCCGGTAGGG
*
49348256 GATTCTGGTTCTTCCGGTAGGG
1 GATTCTGGTTCCTCCGGTAGGG
49348278 GA-TCTGGTT
1 GATTCTGGTT
49348287 GTCGGTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.08, C:0.19, G:0.37, T:0.37
Consensus pattern (22 bp):
GATTCTGGTTCCTCCGGTAGGG
Found at i:49348554 original size:18 final size:18
Alignment explanation
Indices: 49348528--49348570 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
49348518 GACTACAAAA
* *
49348528 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
49348546 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
49348564 AGGATAC
1 AGGATAC
49348571 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:49350404 original size:29 final size:29
Alignment explanation
Indices: 49350367--49350423 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
49350357 TTAAAAAAAT
*
49350367 AAAATTTAAAACTTTTTTAAAAATAATTA
1 AAAAATTAAAACTTTTTTAAAAATAATTA
*
49350396 AAAAATTAAAGCTTTTTTAAAAATAATT
1 AAAAATTAAAACTTTTTTAAAAATAATT
49350424 TGAGAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAAATTAAAACTTTTTTAAAAATAATTA
Found at i:49350457 original size:33 final size:33
Alignment explanation
Indices: 49350420--49350483 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
49350410 TTTTAAAAAT
49350420 AATTTGAGAAGAA-ATTGAGAG-GAAATTGAGAAG
1 AATTTGAG-AGAATATT-AGAGAGAAATTGAGAAG
*
49350453 AATTTGAGAGAATATTAGAGAGAATTTGAGA
1 AATTTGAGAGAATATTAGAGAGAAATTGAGA
49350484 GAAAGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (33 bp):
AATTTGAGAGAATATTAGAGAGAAATTGAGAAG
Found at i:49350475 original size:12 final size:10
Alignment explanation
Indices: 49350420--49350486 Score: 71
Period size: 11 Copynumber: 6.2 Consensus size: 10
49350410 TTTTAAAAAT
49350420 AATTTGAGAAG
1 AATTTGAG-AG
*
49350431 AAATTGAGAGG
1 AATTTGAGA-G
*
49350442 AAATTGAGAAG
1 AATTTGAG-AG
49350453 AATTTGAGAG
1 AATTTGAGAG
49350463 AATATTAGAGAG
1 AAT-TT-GAGAG
49350475 AATTTGAGAG
1 AATTTGAGAG
49350485 AA
1 AA
49350487 AGGATTTAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
10 13 0.26
11 28 0.56
12 9 0.18
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:49350485 original size:22 final size:21
Alignment explanation
Indices: 49350423--49350487 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 21
49350413 TAAAAATAAT
*
49350423 TTGAGAAGAAATTGAGAGGAAA
1 TTGAGAAGAATTTGAGA-GAAA
49350445 TTGAGAAGAATTTGAGAGAATA
1 TTGAGAAGAATTTGAGAGAA-A
49350467 TT-AGAGAGAATTTGAGAGAAA
1 TTGAGA-AGAATTTGAGAGAAA
49350488 GGATTTAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (21 bp):
TTGAGAAGAATTTGAGAGAAA
Found at i:49357591 original size:14 final size:14
Alignment explanation
Indices: 49357554--49357599 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
49357544 TTATAAATGA
49357554 AATTAGAATTGATTT
1 AATTAGAATT-ATTT
49357569 -ATGTA-AATTATTT
1 AAT-TAGAATTATTT
*
49357582 AATTAGAATTAATT
1 AATTAGAATTATTT
49357596 AATT
1 AATT
49357600 TTTGGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 6 0.22
14 19 0.70
15 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (14 bp):
AATTAGAATTATTT
Found at i:49358948 original size:11 final size:12
Alignment explanation
Indices: 49358920--49358952 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
49358910 TTACCCATCT
49358920 TTTTATATATTTG
1 TTTTATA-ATTTG
49358933 TTTTATAATTTG
1 TTTTATAATTTG
49358945 -TTTATAAT
1 TTTTATAAT
49358953 CTTTATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 5 0.25
13 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TTTTATAATTTG
Found at i:49363196 original size:25 final size:24
Alignment explanation
Indices: 49363150--49363201 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
49363140 AGGCCACACC
* **
49363150 CTCGATAGTCACATGATTGTGTCT
1 CTCGATAGTCACACGACCGTGTCT
*
49363174 CTCGCATAGTCACACGACCGTGTGT
1 CTCG-ATAGTCACACGACCGTGTCT
49363199 CTC
1 CTC
49363202 ACATGGCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (24 bp):
CTCGATAGTCACACGACCGTGTCT
Found at i:49370138 original size:33 final size:34
Alignment explanation
Indices: 49370075--49370138 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
49370065 TAACAATAAG
*
49370075 TTATTCCAACAATTAAATAAACTAAGATAAGCAT
1 TTATTCCAACAATTAAATAAACTAAAATAAGCAT
* * *
49370109 TTATTCTAGCAATT-AATTAACTAAAATAAG
1 TTATTCCAACAATTAAATAAACTAAAATAAG
49370139 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (34 bp):
TTATTCCAACAATTAAATAAACTAAAATAAGCAT
Found at i:49371486 original size:92 final size:92
Alignment explanation
Indices: 49371329--49371515 Score: 304
Period size: 92 Copynumber: 2.0 Consensus size: 92
49371319 TCCTTGTATG
*
49371329 GAAAAAGCTATAACAATATATTATGATAACGGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
1 GAAAAAGCTATAACAATATATTATGATAACAGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
49371394 TCACAAG-AGAACCAAACATATTGACCA
66 TCACAAGAAG-ACCAAACATATTGACCA
* * * * *
49371421 GAAAAAGCTATAACAATGTATTGTGATAACAGTGCTGTAATAACTAATACCAAGGAAATAAGAAG
1 GAAAAAGCTATAACAATATATTATGATAACAGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
49371486 TCACAAGAAGACCAAACATATTGACCA
66 TCACAAGAAGACCAAACATATTGACCA
49371513 GAA
1 GAA
49371516 GTATTACTTG
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 86 0.98
93 2 0.02
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (92 bp):
GAAAAAGCTATAACAATATATTATGATAACAGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
TCACAAGAAGACCAAACATATTGACCA
Found at i:49371814 original size:15 final size:15
Alignment explanation
Indices: 49371794--49371823 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49371784 TTCACTATTA
*
49371794 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
49371809 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
49371824 GCATGCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:49373410 original size:24 final size:25
Alignment explanation
Indices: 49373374--49373423 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
49373364 TAACTATATC
*
49373374 AAAAATAATATT-ATTTTAATAGTTT
1 AAAAATAATATTAAATTTAATA-TTT
*
49373399 AAAATTAA-ATTAAATTTAATATTT
1 AAAAATAATATTAAATTTAATATTT
49373423 A
1 A
49373424 TCTTAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAAATAATATTAAATTTAATATTT
Found at i:49373468 original size:20 final size:20
Alignment explanation
Indices: 49373445--49373482 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49373435 TTTTATTAAT
49373445 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
49373465 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
49373483 AGTTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:49376168 original size:12 final size:13
Alignment explanation
Indices: 49376137--49376170 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
49376127 TCAACTAGAG
49376137 AATTTAATTAAAA
1 AATTTAATTAAAA
*
49376150 AATTTAATTGAAA
1 AATTTAATTAAAA
49376163 AA-TTAATT
1 AATTTAATT
49376171 TGGAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
AATTTAATTAAAA
Found at i:49378612 original size:13 final size:12
Alignment explanation
Indices: 49378596--49378645 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
49378586 TTTAAACTAA
49378596 ACTTTTCAAAAGC
1 ACTTTTCAAAA-C
*
49378609 ACTTCTCAATAAC
1 ACTTTTCAA-AAC
*
49378622 ACTTTTCCATAAC
1 ACTTTT-CAAAAC
49378635 ACTTTTCAAAA
1 ACTTTTCAAAA
49378646 GTATTGCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (12 bp):
ACTTTTCAAAAC
Found at i:49380353 original size:13 final size:13
Alignment explanation
Indices: 49380335--49380376 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
49380325 GAAATAAGAT
49380335 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
49380348 GAAAAG--AAAAA
1 GAAAAGAAAAAAA
* *
49380359 GAGAGGAAAAAAA
1 GAAAAGAAAAAAA
49380372 GAAAA
1 GAAAA
49380377 TAAACATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:49385404 original size:19 final size:19
Alignment explanation
Indices: 49385382--49385419 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
49385372 AATAATTTTT
49385382 AAAAATTGGAAAAAAATTA
1 AAAAATTGGAAAAAAATTA
*
49385401 AAAAGTTGGAAAAAAATTA
1 AAAAATTGGAAAAAAATTA
49385420 GTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (19 bp):
AAAAATTGGAAAAAAATTA
Found at i:49386429 original size:20 final size:19
Alignment explanation
Indices: 49386381--49386433 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
49386371 AATTACTATC
49386381 TTTTACAATTTCTAATCAT
1 TTTTACAATTTCTAATCAT
* *
49386400 TTTTATAATTTCTTA-CAAT
1 TTTTACAATTTCTAATC-AT
49386419 ATTTTACAATTTCTA
1 -TTTTACAATTTCTA
49386434 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 12 0.43
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTACAATTTCTAATCAT
Found at i:49386446 original size:10 final size:10
Alignment explanation
Indices: 49386433--49386468 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
49386423 TACAATTTCT
49386433 ATTTTTTAAA
1 ATTTTTTAAA
49386443 ATTTTTTTAAA
1 A-TTTTTTAAA
*
49386454 ATTTTTAAAA
1 ATTTTTTAAA
49386464 ATTTT
1 ATTTT
49386469 AACATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:49386450 original size:11 final size:11
Alignment explanation
Indices: 49386434--49386468 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
49386424 ACAATTTCTA
49386434 TTTTTTAAAAT
1 TTTTTTAAAAT
49386445 TTTTTTAAAA-
1 TTTTTTAAAAT
*
49386455 TTTTTAAAAAT
1 TTTTTTAAAAT
49386466 TTT
1 TTT
49386469 AACATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:49386481 original size:11 final size:9
Alignment explanation
Indices: 49386435--49386525 Score: 62
Period size: 9 Copynumber: 9.7 Consensus size: 9
49386425 CAATTTCTAT
49386435 TTTTTAAAA
1 TTTTTAAAA
49386444 TTTTTTTAAAA
1 --TTTTTAAAA
49386455 TTTTTAAAA
1 TTTTTAAAA
*
49386464 ATTTTAACATA
1 TTTTTAA-A-A
49386475 TTTTT--AA
1 TTTTTAAAA
49386482 TTTTTAAATA
1 TTTTTAAA-A
**
49386492 GTTTTTGTAA
1 -TTTTTAAAA
*
49386502 TTTTT-ATA
1 TTTTTAAAA
49386510 TTTTTAAAGA
1 TTTTTAAA-A
49386520 TTTTTA
1 TTTTTA
49386526 GGGTTTTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
7 6 0.09
8 7 0.11
9 22 0.34
10 10 0.15
11 20 0.31
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:49386486 original size:18 final size:19
Alignment explanation
Indices: 49386465--49386507 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
49386455 TTTTTAAAAA
49386465 TTTTAACATA-TTTT-TAAT
1 TTTTAA-ATAGTTTTGTAAT
49386483 TTTTAAATAGTTTTTGTAAT
1 TTTTAAATAG-TTTTGTAAT
49386503 TTTTA
1 TTTTA
49386508 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 4 0.18
20 9 0.41
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTAAATAGTTTTGTAAT
Found at i:49386497 original size:47 final size:46
Alignment explanation
Indices: 49386399--49386507 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 46
49386389 TTTCTAATCA
* * *
49386399 TTTTTATAATTTCTTACAATATTTTACAATTTCTATTTTTTAAAATT
1 TTTTTATAATTT-TTACAAAATTTTACAATTTCTAATTTTTAAAATG
* *
49386446 TTTTTAAAATTTTTA-AAAATTTTAACATATTTTTAATTTTT-AAATAG
1 TTTTTATAATTTTTACAAAATTTT-ACA-ATTTCTAATTTTTAAAAT-G
*
49386493 TTTTTGTAATTTTTA
1 TTTTTATAATTTTTA
49386508 TATTTTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
45 7 0.13
46 10 0.19
47 35 0.67
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (46 bp):
TTTTTATAATTTTTACAAAATTTTACAATTTCTAATTTTTAAAATG
Found at i:49390410 original size:457 final size:452
Alignment explanation
Indices: 49389560--49390471 Score: 1533
Period size: 457 Copynumber: 2.0 Consensus size: 452
49389550 GTTTGATTTT
* *
49389560 TGGCTTAATTTTTATTATATATGAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
1 TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
49389625 ATTTATTATGAATTTTGGATATATTGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTCT
66 ATTTATTATGAATTTTGGATATATTGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTCT
49389690 TAGTCAATAAGAAAGTTTAGAACTACTTATTTAGATTAACTAGAGTTTCAGTATACTTGAGAGTT
131 TAGTCAATAAGAAAGTTTAGAACTACTTATTTAGATTAACTAGAGTTTCAGTATACTTGAGAGTT
* * *
49389755 TTATTTGGATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTGCACAATTCATAATTCATT
196 TTATTTGAATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTACACAATTCATAATTCATC
* *
49389820 CAGCAACTTCTCTCTTTAAGTTAATAAAATTCTCTTTAAGTTTTTTCTCTTCAAGAATTCCTCTT
261 CAACAACTTCTCTCTTTAAGTTAATAAAATTCTATTTAAGTTTTTTCTCTTCAAGAATTCCTCTT
49389885 AAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAGCTTCTTA
326 AAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAGCTTCTTA
* *
49389950 TTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCGTTTGGAGGGGGTTATAGG-TTCATC
391 TTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCATTTGGAGGGAGTTAT-GGATTCATC
* *
49390012 TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTTTTATTTCATTATTT
1 TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
*
49390077 ATTTATTATGAATTTTGGATATATAT-TTTTAAGTATTTTAAGTTATTTAGGGGTTTTATGTTTC
66 ATTTATTATGAATTTTGGATATAT-TGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTC
*
49390141 TTAGTCAATAAGAAAGTTTAGTTTAAAACTACTTATTTAGATTAATTAGAGTTTCAGTATACTTG
130 TTAGTCAATAAGAAAGTTTAG-----AACTACTTATTTAGATTAACTAGAGTTTCAGTATACTTG
* * *
49390206 AGAGTTTTATTTGAATGTACTTAGCTATCTTATATAAAGGTTTTTTCATTGTACACAATTCATAA
190 AGAGTTTTATTTGAATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTACACAATTCATAA
*
49390271 TTCATCCAACAACTTCTCTCTTTTAATTTAATAAAATTCTATTTAAG-TTTTTCTCTTCAAGAAT
255 TTCATCCAACAACTTCTCTC-TTTAAGTTAATAAAATTCTATTTAAGTTTTTTCTCTTCAAGAAT
* *
49390335 TTCTCTTGAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAG
319 TCCTCTTAAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAG
* * *
49390400 CTTTTTATTGCCAAGTTTTCTTTCTTGGAGGAGAAATTAGAGTCATTTGGAGGGAGTTATGGATT
384 CTTCTTATTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCATTTGGAGGGAGTTATGGATT
49390465 CATC
449 CATC
49390469 TGG
1 TGG
49390472 TTTCCAAGGC
Statistics
Matches: 430, Mismatches: 22, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
452 143 0.33
453 1 0.00
456 2 0.00
457 260 0.60
458 24 0.06
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.46
Consensus pattern (452 bp):
TGGCTTAATTTTTATAATATATAAGCCTAATATTGTATTTATTAGGTCTTATCATTTCATTATTT
ATTTATTATGAATTTTGGATATATTGTTTTAAGTATTTTAAGTTATTTAGGGATTTTATGTTTCT
TAGTCAATAAGAAAGTTTAGAACTACTTATTTAGATTAACTAGAGTTTCAGTATACTTGAGAGTT
TTATTTGAATGTACTTAGCTAACCTATATAAAGGCTTTTTCATTGTACACAATTCATAATTCATC
CAACAACTTCTCTCTTTAAGTTAATAAAATTCTATTTAAGTTTTTTCTCTTCAAGAATTCCTCTT
AAGTTTTCTTTTAGAAGAGTTTTAACAATCTTTTCAGATTGTGAGGATAAACTTCAAGCTTCTTA
TTGCCAAGTTTTCTTTCTTGGAGCAGAAACTAGAGTCATTTGGAGGGAGTTATGGATTCATC
Found at i:49395030 original size:19 final size:20
Alignment explanation
Indices: 49395008--49395056 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
49394998 TTATAACGTA
*
49395008 ACCAAAATCTT-TAA-CAGAT
1 ACCAAAAT-TTGTAACCAAAT
49395027 ACCAAAATTTGTAACCAAAT
1 ACCAAAATTTGTAACCAAAT
49395047 ACCAAAATTT
1 ACCAAAATTT
49395057 CTAATGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
20 14 0.52
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (20 bp):
ACCAAAATTTGTAACCAAAT
Found at i:49398357 original size:16 final size:16
Alignment explanation
Indices: 49398317--49398360 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
49398307 ATTATTAAAT
49398317 TTAATTTAATA-TTTA
1 TTAATTTAATATTTTA
*
49398332 TCT-ATATAATATTTTA
1 T-TAATTTAATATTTTA
49398348 TTAATTTAATATT
1 TTAATTTAATATT
49398361 AATGTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTAATATTTTA
Found at i:49404640 original size:17 final size:16
Alignment explanation
Indices: 49404612--49404664 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
49404602 TTTGGTTCGC
49404612 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
49404628 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
49404645 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
49404661 TGTA
1 TGTA
49404665 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:49404917 original size:16 final size:16
Alignment explanation
Indices: 49404889--49404934 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
49404879 TTTAAGCATA
*
49404889 ATTTTTATT-AAATAT
1 ATTTTAATTAAAATAT
49404904 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
49404920 ATAATTTAA-TAAAAT
1 AT--TTTAATTAAAAT
49404935 TCTTAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 8 0.30
16 8 0.30
17 6 0.22
18 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:49404927 original size:18 final size:17
Alignment explanation
Indices: 49404900--49404934 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49404890 TTTTTATTAA
*
49404900 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49404918 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49404935 TCTTAATAAT
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:49405044 original size:120 final size:116
Alignment explanation
Indices: 49404848--49405415 Score: 528
Period size: 120 Copynumber: 4.8 Consensus size: 116
49404838 TAATAAGATT
* * * * *
49404848 ATTATTATCAATAATAAATAATTT--AATCAT-ATTTAAGCATAATTTTTATTAAATATATTTTA
1 ATTATTATTAACAATAAATAATTTAAAAT-ATAATTTAA-AATAATTATTATTAAATATAATTTA
* * *
49404910 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATT-TGT-TTTGGTAA
64 ATAAAAATATATAATTTAATAAAATTCTTAATAATTA--A-ATATTCT-TATAT-G-AA
* * *
49404967 ATTATTATTAACAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAGATATAATTTAAT
1 ATTATTATTAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
49405032 AAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATGAA
66 AAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * * *
49405082 TTTAATAAAATTATA-ATATATGATACTATAAAATATAATTTAAAATAATTATTATTAAATATAA
1 ATT-AT--TATTA-ACA-ATA-AATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAA
* * *
49405146 TTTAATAGAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAA
60 TTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * * *
49405203 TTTACTA-AAATCATAATATATAATACTATAAATATAATTTAAAATAATTATTATTAAATATAAT
1 ATTATTATTAA-C--AATAAATAAT-TTA-AAATATAATTTAAAATAATTATTATTAAATATAAT
* *
49405267 TTAACAAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTAAATGAA
61 TTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * *
49405322 TTTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATAT
1 ATTATTATTAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATT--AAATAT
* *
49405386 AATTTAGT-AAAATATATAATTTAATCAAAT
58 AATTTAATAAAAATATATAATTTAATAAAAT
49405416 CATTATATTC
Statistics
Matches: 393, Mismatches: 34, Indels: 42
0.84 0.07 0.09
Matches are distributed among these distances:
115 4 0.01
116 9 0.02
117 5 0.01
118 10 0.03
119 78 0.20
120 223 0.57
121 52 0.13
122 12 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (116 bp):
ATTATTATTAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
AAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
Found at i:49405095 original size:19 final size:18
Alignment explanation
Indices: 49405020--49405175 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 18
49405010 TTATTATTAG
*
49405020 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
49405038 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
49405056 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
49405075 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
49405094 ATAATATATGATACTATAAA--
1 AT-ATA-AT-TTAATA-AAATT
49405114 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
49405138 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
49405158 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
49405176 CTTAATATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 40
0.66 0.08 0.25
Matches are distributed among these distances:
17 8 0.08
18 37 0.35
19 22 0.21
20 11 0.10
21 8 0.08
22 4 0.04
23 1 0.01
24 4 0.04
25 1 0.01
26 9 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:49405248 original size:21 final size:21
Alignment explanation
Indices: 49405205--49405248 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49405195 TAAATGAATT
*
49405205 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
49405226 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
49405247 TA
1 TA
49405249 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:49405404 original size:17 final size:16
Alignment explanation
Indices: 49405377--49405408 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
49405367 TAATTATTAT
49405377 TAAAAATATAATTTAG
1 TAAAAATATAATTTAG
49405393 TAAAATATATAATTTA
1 TAAAA-ATATAATTTA
49405409 ATCAAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAAAATATAATTTAG
Found at i:49405415 original size:17 final size:17
Alignment explanation
Indices: 49405377--49405415 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
49405367 TAATTATTAT
*
49405377 TAAAA-ATATAATTTAG
1 TAAAATATATAATTTAA
49405393 TAAAATATATAATTTAA
1 TAAAATATATAATTTAA
*
49405410 TCAAAT
1 TAAAAT
49405416 CATTATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:49405613 original size:25 final size:25
Alignment explanation
Indices: 49405539--49405617 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
49405529 ATTGCAAAAA
49405539 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
*
49405564 GAAATTACT-T---TTTGAAGCATAT
1 GAAATTACTGTAAGTTAG-AGCATAT
49405586 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
49405611 GAAATTA
1 GAAATTA
49405618 AGCAAAGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.06
22 16 0.34
23 1 0.02
24 1 0.02
25 23 0.49
26 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.34
Consensus pattern (25 bp):
GAAATTACTGTAAGTTAGAGCATAT
Found at i:49415532 original size:22 final size:19
Alignment explanation
Indices: 49415506--49415554 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 19
49415496 ATATTTTGAT
49415506 TTTTTAAAATTTATATTTATA
1 TTTTTAAAATTT-TATTT-TA
*
49415527 TATTTTAGAATTTTATTTTA
1 T-TTTTAAAATTTTATTTTA
49415547 TTTTTAAA
1 TTTTTAAA
49415555 CTTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 6 0.24
22 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTTTATTTTA
Found at i:49416764 original size:16 final size:16
Alignment explanation
Indices: 49416740--49416780 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
49416730 AAATAATAAA
*
49416740 TAATTTAATCATAATT
1 TAATATAATCATAATT
* *
49416756 TAATATAATTATTATT
1 TAATATAATCATAATT
49416772 TAATATAAT
1 TAATATAAT
49416781 AATTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATATAATCATAATT
Found at i:49416789 original size:16 final size:16
Alignment explanation
Indices: 49416753--49416792 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49416743 TTTAATCATA
*
49416753 ATTTAATATAATTATT
1 ATTTAATATAATAATT
49416769 ATTTAATATAATAATT
1 ATTTAATATAATAATT
*
49416785 TTTTAATA
1 ATTTAATA
49416793 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATATAATAATT
Found at i:49425756 original size:117 final size:114
Alignment explanation
Indices: 49425507--49425825 Score: 376
Period size: 117 Copynumber: 2.8 Consensus size: 114
49425497 TGTGTGTGTA
* * * * * * *
49425507 TTTTATTAAGTTTAAGTTTGTATTAAAAGTATGATTTGTTTGTTTTATTATTGTTTTTATGATAC
1 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
* * *
49425572 CGTATATCA-GTTTTATGTATTTAA-GACAAATAAATTTTTTTATTGTG
66 CTTATATCAGGTTTTTTGTATTTAAGGACAAAGAAATTTTTTTATTGTG
* * * *
49425619 TTTTATTAGCTTTAAGTTTGTATTAACGGCATGATTAGTTTGTTTTGTTAATGTTTTTGTGGTAT
1 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
** * *
49425684 CTTATATCAGGTTTTTTTGTATTTAAGGGGAAGGACATTTTTTT-TGGCTGTG
66 CTTATATCAGG-TTTTTTGTATTTAAGGACAAAGAAATTTTTTTAT---TGTG
* * **
49425736 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGCTTAATTTGTTTTATTAATGTTTTTGAAGTAT
1 TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
49425801 CTTATATC-GGTTTTTTGTATTTAAG
66 CTTATATCAGGTTTTTTGTATTTAAG
49425826 ATATGAACAT
Statistics
Matches: 175, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
112 62 0.35
113 1 0.01
114 14 0.08
115 27 0.15
116 2 0.01
117 69 0.39
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.54
Consensus pattern (114 bp):
TTTTATTAGGTTTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTAT
CTTATATCAGGTTTTTTGTATTTAAGGACAAAGAAATTTTTTTATTGTG
Found at i:49426709 original size:15 final size:16
Alignment explanation
Indices: 49426681--49426730 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
49426671 TATAATTTAA
49426681 AAATAAATA--ATTTT
1 AAATAAATATTATTTT
49426695 AAAT-AAT-TTATTTTT
1 AAATAAATATTA-TTTT
49426710 AATATAAATATTATTTT
1 AA-ATAAATATTATTTT
49426727 AAAT
1 AAAT
49426731 TTTTTTTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 6 0.20
16 4 0.13
17 9 0.30
18 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATAAATATTATTTT
Found at i:49429202 original size:14 final size:14
Alignment explanation
Indices: 49429183--49429210 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49429173 CCAATTTATT
49429183 AATGAAATATTAAA
1 AATGAAATATTAAA
49429197 AATGAAATATTAAA
1 AATGAAATATTAAA
49429211 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:49430361 original size:18 final size:17
Alignment explanation
Indices: 49430310--49430363 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
49430300 CTTATGTTAA
49430310 TTTCAAATCGTGTCATTCG
1 TTTCAAATCGT-T-ATTCG
* *
49430329 TTTCAAAAACATTATTCG
1 TTTC-AAATCGTTATTCG
49430347 TTTACAAATCGTTATTC
1 TTT-CAAATCGTTATTC
49430364 AATTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 18 0.62
19 6 0.21
20 5 0.17
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (17 bp):
TTTCAAATCGTTATTCG
Found at i:49436976 original size:18 final size:18
Alignment explanation
Indices: 49436945--49436993 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
49436935 GTATCGTTCG
*
49436945 TTTCTAAATTATTATTC-A
1 TTTC-AAATCATTATTCAA
49436963 TTTACAAATCATTATTCAA
1 TTT-CAAATCATTATTCAA
*
49436982 TTTCAAAACATT
1 TTTCAAATCATT
49436994 TTTTTTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAAATCATTATTCAA
Found at i:49452565 original size:47 final size:47
Alignment explanation
Indices: 49452514--49452902 Score: 526
Period size: 47 Copynumber: 8.1 Consensus size: 47
49452504 TTAGGATTTT
* *
49452514 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
49452561 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
49452612 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* ** *
49452659 CTGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
49452712 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
49452759 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
49452806 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
49452853 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
49452900 ATG
1 ATG
49452903 CGAAACGTGT
Statistics
Matches: 306, Mismatches: 26, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
47 218 0.71
48 1 0.00
49 2 0.01
51 43 0.14
52 1 0.00
53 41 0.13
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:49452739 original size:23 final size:23
Alignment explanation
Indices: 49452712--49452786 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
49452702 CGAATGGCCA
49452712 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
49452735 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
49452759 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
49452782 ATGTG
1 ATGTG
49452787 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:49452746 original size:100 final size:98
Alignment explanation
Indices: 49452514--49452902 Score: 587
Period size: 94 Copynumber: 4.0 Consensus size: 98
49452504 TTAGGATTTT
*
49452514 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
49452579 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
*
49452612 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
49452677 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 TG--TATATATATGTGTGATAAGGCCGAATGGCCA
49452712 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*** *
49452776 ---ATGCGTATGTGTGATAAGGCCGGATGGCCA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
* * * *
49452806 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
49452871 TG-A-ATATATGTG-G-TAAGGCCGAATGGCTA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
49452900 ATG
1 ATG
49452903 CGAAACGTGT
Statistics
Matches: 267, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
94 102 0.38
95 1 0.00
96 6 0.02
97 1 0.00
98 64 0.24
99 1 0.00
100 92 0.34
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:49452965 original size:46 final size:46
Alignment explanation
Indices: 49452876--49452966 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
49452866 GAACATGAAT
* * * *
49452876 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
49452922 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
49452967 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:49452973 original size:141 final size:140
Alignment explanation
Indices: 49452514--49452951 Score: 470
Period size: 147 Copynumber: 3.0 Consensus size: 140
49452504 TTAGGATTTT
* * * * *
49452514 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
49452579 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 TG-A-ATATA--TGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGAT
* *
49452644 AAGGCCGAATGGCCA
126 AAAGCCAAATGGCCA
* ** *
49452659 CTGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C---ATGCATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATG
** * * *
49452724 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
60 TGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTG
* **
49452789 ATAAGGCCGGATGGCCA
124 ATAAAGCCAAATGGCCA
49452806 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
49452871 TGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGAGATG-GATATGTG-G-TA
66 TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--ACATGCG-TATGTGTGATA
*
49452932 AAGCCAAATGGCTA
127 AAGCCAAATGGCCA
49452946 ATGTGA
1 ATGTGA
49452952 GATATGTACG
Statistics
Matches: 255, Mismatches: 28, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
139 5 0.02
140 19 0.07
141 68 0.27
142 10 0.04
143 8 0.03
145 14 0.05
146 2 0.01
147 82 0.32
149 9 0.04
151 38 0.15
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCGTATGTGTGATAAAGC
CAAATGGCCA
Found at i:49453258 original size:37 final size:37
Alignment explanation
Indices: 49453113--49453257 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
49453103 GGAAATATAT
* *
49453113 TCCGGGTAATACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49453150 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49453187 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49453224 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49453258 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49454234 original size:40 final size:40
Alignment explanation
Indices: 49454040--49454222 Score: 276
Period size: 40 Copynumber: 4.6 Consensus size: 40
49454030 CCTTACCTAT
49454040 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
49454080 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
49454120 TCTGGGCTAAGTTCCGAGGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
49454160 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
49454200 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
49454223 ATCATGCTGG
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:49454438 original size:25 final size:25
Alignment explanation
Indices: 49454399--49454449 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
49454389 TGTGTAATAA
* *
49454399 CGAATGAATATAGGCATTATGTGTG
1 CGAATGAATAGAGGCACTATGTGTG
* *
49454424 CGAATGATTAGAGGCACTGTGTGTG
1 CGAATGAATAGAGGCACTATGTGTG
49454449 C
1 C
49454450 AAATTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
CGAATGAATAGAGGCACTATGTGTG
Found at i:49454503 original size:58 final size:57
Alignment explanation
Indices: 49454434--49454542 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
49454424 CGAATGATTA
* *
49454434 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
49454492 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
49454543 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:49458318 original size:47 final size:47
Alignment explanation
Indices: 49458267--49458657 Score: 503
Period size: 47 Copynumber: 8.1 Consensus size: 47
49458257 TTAGGATTTT
* *
49458267 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
49458314 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
49458365 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* ** *
49458412 CTGTGATGAATGTGAACCTGTATATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-------ATGCATATGTGTGATAAGGCCGAATGGCCA
*
49458467 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
49458514 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
49458561 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
49458608 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
49458655 ATG
1 ATG
49458658 CGAAACGTGT
Statistics
Matches: 305, Mismatches: 27, Indels: 24
0.86 0.08 0.07
Matches are distributed among these distances:
47 217 0.71
48 1 0.00
49 2 0.01
51 43 0.14
54 1 0.00
55 41 0.13
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:49458494 original size:23 final size:23
Alignment explanation
Indices: 49458467--49458541 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
49458457 CGAATGGCCA
49458467 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
49458490 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
49458514 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
49458537 ATGTG
1 ATGTG
49458542 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:49458501 original size:102 final size:98
Alignment explanation
Indices: 49458267--49458657 Score: 564
Period size: 94 Copynumber: 4.0 Consensus size: 98
49458257 TTAGGATTTT
*
49458267 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
49458332 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
*
49458365 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
49458430 TGTATATATATATATGCGTGATAAGGCCGAATGGCCA
66 TG----TATATATATGTGTGATAAGGCCGAATGGCCA
49458467 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*** *
49458531 ---ATGCGTATGTGTGATAAGGCCGGATGGCCA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
* * * *
49458561 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
49458626 TG-A-ATATATGTG-G-TAAGGCTGAATGGCTA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
49458655 ATG
1 ATG
49458658 CGAAACGTGT
Statistics
Matches: 266, Mismatches: 20, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
94 101 0.38
95 1 0.00
96 6 0.02
97 1 0.00
98 64 0.24
101 1 0.00
102 92 0.35
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:49458720 original size:46 final size:46
Alignment explanation
Indices: 49458631--49458721 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
49458621 GAACATGAAT
* ** * *
49458631 ATATGTGGTAAGGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
49458677 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
49458722 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:49458728 original size:141 final size:140
Alignment explanation
Indices: 49458267--49458706 Score: 447
Period size: 149 Copynumber: 3.0 Consensus size: 140
49458257 TTAGGATTTT
* * * * *
49458267 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
49458332 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 TG-A-ATATA--TGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGAT
* *
49458397 AAGGCCGAATGGCCA
126 AAAGCCAAATGGCCA
* ** *
49458412 CTGTGATGAATGTGAACCTGTATATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAA
1 ATGTGATGAATGTGAA-C-----ATGCATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAA
** * * *
49458477 TGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTG
58 TGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTG
* **
49458542 TGATAAGGCCGGATGGCCA
122 TGATAAAGCCAAATGGCCA
49458561 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * *
49458626 TGAATATATGTGGTAAGGCTGAATGGCTAATGCGA-AACGTGTATGAGATG-GATATGTG-G-TA
66 TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--ACATGCG-TATGTGTGATA
*
49458687 AAGCCAAATGGCTA
127 AAGCCAAATGGCCA
49458701 ATGTGA
1 ATGTGA
49458707 GATATGTACG
Statistics
Matches: 254, Mismatches: 29, Indels: 29
0.81 0.09 0.09
Matches are distributed among these distances:
139 5 0.02
140 19 0.07
141 67 0.26
142 10 0.04
143 8 0.03
145 14 0.06
146 1 0.00
148 1 0.00
149 82 0.32
151 9 0.04
153 38 0.15
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCGTATGTGTGATAAAGC
CAAATGGCCA
Found at i:49459013 original size:37 final size:37
Alignment explanation
Indices: 49458868--49459012 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
49458858 GGAAATATAT
49458868 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49458905 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49458942 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49458979 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49459013 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49461436 original size:61 final size:61
Alignment explanation
Indices: 49461358--49461488 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
49461348 TATACATTTA
* * * * *
49461358 TATATATATGTGGTTCGAATATAGGT-TACAAATTCATTGAGCTGAATTTAATGTTTTGAAC
1 TATATATATGAGGTTCGAATATA-ATATACAAATTCATTGAGCTAAACTTAATGTTATGAAC
* * * * *
49461419 TATACATATGAGGTTCGAATGTAATATACAAGTTCTTTGAGCTAAACTTAATGTTATGAAT
1 TATATATATGAGGTTCGAATATAATATACAAATTCATTGAGCTAAACTTAATGTTATGAAC
49461480 TATATATAT
1 TATATATAT
49461489 TTTTTCATGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (61 bp):
TATATATATGAGGTTCGAATATAATATACAAATTCATTGAGCTAAACTTAATGTTATGAAC
Found at i:49461645 original size:25 final size:25
Alignment explanation
Indices: 49461604--49461656 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
49461594 CTGTACTTAG
49461604 CAGGCTTAACGCCAGTGAAATAATT
1 CAGGCTTAACGCCAGTGAAATAATT
* *
49461629 CAGGCTTAATGCTAGTGAAATAATT
1 CAGGCTTAACGCCAGTGAAATAATT
49461654 CAG
1 CAG
49461657 ACTTTACGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (25 bp):
CAGGCTTAACGCCAGTGAAATAATT
Found at i:49461674 original size:41 final size:41
Alignment explanation
Indices: 49461629--49461761 Score: 221
Period size: 41 Copynumber: 3.2 Consensus size: 41
49461619 TGAAATAATT
*
49461629 CAGGCTTAATGCTAGTGAAATAATTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
*
49461670 CAGGCTTAATGCCAGTGAAATAATTCAAACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
* *
49461711 CAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATCTAG
1 CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
*
49461752 TAGGCTTAAT
1 CAGGCTTAAT
49461762 ACCGGTGTTC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (41 bp):
CAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGTCTAG
Found at i:49464685 original size:11 final size:11
Alignment explanation
Indices: 49464671--49464695 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49464661 TATATATAAG
49464671 TAATTTAATGA
1 TAATTTAATGA
49464682 TAATTTAATGA
1 TAATTTAATGA
49464693 TAA
1 TAA
49464696 AAGTGGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TAATTTAATGA
Found at i:49468417 original size:64 final size:64
Alignment explanation
Indices: 49468316--49468446 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 64
49468306 TAAAATTGTC
*
49468316 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATGAAGTTTTAATCATTTAAT
1 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
* *
49468380 TTAACAATAAAATTTAGGAGAAATATAGAAATATTAATATAAAATAAATTTTTAATCATTTAAT
1 TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
49468444 TTA
1 TTA
49468447 GAATAGGAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (64 bp):
TTAACAATAAAATTTAGGAGAAACATAGAAATATTAATATAAAATAAAGTTTTAATCATTTAAT
Found at i:49468422 original size:32 final size:32
Alignment explanation
Indices: 49468322--49468424 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
49468312 TGTCTTAACA
*
49468322 ATAAAATTTAGGAGAAACATAGAAATATTAAT
1 ATAAAATTTAGGAGAAATATAGAAATATTAAT
** **** ** *
49468354 ATAAAATGAAGTTTTAATCAT-TTAAT-TTAACA
1 ATAAAATTTAGGAGAAAT-ATAGAAATATTAA-T
49468386 ATAAAATTTAGGAGAAATATAGAAATATTAAT
1 ATAAAATTTAGGAGAAATATAGAAATATTAAT
49468418 ATAAAAT
1 ATAAAAT
49468425 AAATTTTTAA
Statistics
Matches: 48, Mismatches: 19, Indels: 8
0.64 0.25 0.11
Matches are distributed among these distances:
31 6 0.12
32 36 0.75
33 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (32 bp):
ATAAAATTTAGGAGAAATATAGAAATATTAAT
Found at i:49468571 original size:20 final size:20
Alignment explanation
Indices: 49468546--49468618 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
49468536 TCAAAAGTTT
49468546 ATAATTTTCTTAATATATAA
1 ATAATTTTCTTAATATATAA
* * * *
49468566 ATAATTTACCCTGATAGTAAAA
1 ATAATTT-TCTTAATA-TATAA
49468588 TTTTATAATTTTCTTAATATATAA
1 ----ATAATTTTCTTAATATATAA
49468612 ATAATTT
1 ATAATTT
49468619 ATCCTAATAG
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 14 0.36
21 5 0.13
22 4 0.10
24 4 0.10
25 5 0.13
26 7 0.18
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (20 bp):
ATAATTTTCTTAATATATAA
Found at i:49468610 original size:46 final size:46
Alignment explanation
Indices: 49468538--49468644 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 46
49468528 TCAAAATTTC
* *
49468538 AAAAGTTTATAATTTTCTTAATATATAAATAATTTACCCTGATAGT
1 AAAATTTTATAATTTTCTTAATATATAAATAATTTACCCTAATAGT
*
49468584 AAAATTTTATAATTTTCTTAATATATAAATAATTTATCCTAATAGT
1 AAAATTTTATAATTTTCTTAATATATAAATAATTTACCCTAATAGT
* *
49468630 AAACTTTTAAAATTT
1 AAAATTTTATAATTT
49468645 ATACAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (46 bp):
AAAATTTTATAATTTTCTTAATATATAAATAATTTACCCTAATAGT
Found at i:49470480 original size:3 final size:3
Alignment explanation
Indices: 49470472--49470502 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49470462 ACATTATATA
49470472 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49470503 TAACACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:49477937 original size:40 final size:40
Alignment explanation
Indices: 49477856--49478024 Score: 234
Period size: 40 Copynumber: 4.2 Consensus size: 40
49477846 CTAAGATCCA
* * * * *
49477856 AAGGTATTTGTGCGAGATATTAATTCCGGGCTAAG-CCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
* *
49477895 AAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
49477935 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
* *
49477975 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCG
49478015 AAGGCATTTG
1 AAGGCATTTG
49478025 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 28 0.24
40 87 0.74
41 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
Found at i:49477950 original size:79 final size:80
Alignment explanation
Indices: 49477800--49478024 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 80
49477790 TTGAATGAAG
* * * * * * * * *
49477800 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
49477863 TTGTGCGAGATATTAAT
64 TTGTGCGAGATACTAAA
* *
49477880 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCTGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
49477943 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
49477959 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
49478024 G
66 G
49478025 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.44
80 64 0.53
81 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:49478038 original size:40 final size:40
Alignment explanation
Indices: 49477801--49478024 Score: 219
Period size: 40 Copynumber: 5.6 Consensus size: 40
49477791 TGAATGAAGT
* * * * *
49477801 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
49477841 CCGGACTAAGAT-CCAAAGGTATTTGTGCGAGATA-T-TAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49477879 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
49477919 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49477959 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49478000 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
49478025 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
38 2 0.01
39 27 0.17
40 116 0.75
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:49478042 original size:80 final size:80
Alignment explanation
Indices: 49477880--49478057 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 80
49477870 AGATATTAAT
* * *
49477880 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
49477944 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
49477959 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
49478023 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
49478039 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49478058 TACGTGATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 25 0.29
80 58 0.68
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:49479364 original size:24 final size:24
Alignment explanation
Indices: 49479332--49479389 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
49479322 CTGTTAACAC
*
49479332 CTCGTGTTCGACTCCGGTGTCGGT
1 CTCGGGTTCGACTCCGGTGTCGGT
49479356 CTCGGGTTCGACTCCGGTGTCGGT
1 CTCGGGTTCGACTCCGGTGTCGGT
49479380 CTCGGGTTCG
1 CTCGGGTTCG
49479390 GAGTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.36, T:0.31
Consensus pattern (24 bp):
CTCGGGTTCGACTCCGGTGTCGGT
Found at i:49485702 original size:40 final size:40
Alignment explanation
Indices: 49485612--49485836 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
49485602 TTGAATGAAG
* * * *
49485612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
49485652 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49485692 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49485731 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49485771 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49485812 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49485837 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49485854 original size:80 final size:80
Alignment explanation
Indices: 49485612--49485869 Score: 224
Period size: 80 Copynumber: 3.2 Consensus size: 80
49485602 TTGAATGAAG
* * * * * * * *
49485612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
49485675 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * *
49485692 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
49485756 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
49485771 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
49485835 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
49485851 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49485870 TACGTGATTT
Statistics
Matches: 151, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.48
80 75 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:49485858 original size:119 final size:119
Alignment explanation
Indices: 49485612--49485869 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
49485602 TTGAATGAAG
* * *
49485612 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
** ** *
49485677 GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
49485731 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
49485794 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
49485851 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49485870 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:49491935 original size:7 final size:7
Alignment explanation
Indices: 49491918--49492026 Score: 114
Period size: 7 Copynumber: 15.6 Consensus size: 7
49491908 TTCCTTCCCA
*
49491918 AATTCTC
1 AATTTTC
*
49491925 AATCTTC
1 AATTTTC
*
49491932 AATCTTC
1 AATTTTC
* *
49491939 AATCTCC
1 AATTTTC
*
49491946 AATTTCC
1 AATTTTC
49491953 AATTTTC
1 AATTTTC
*
49491960 TATTTTC
1 AATTTTC
*
49491967 AATCTTC
1 AATTTTC
49491974 AATTTTC
1 AATTTTC
49491981 AA-TTTC
1 AATTTTC
49491987 GAA-TTTC
1 -AATTTTC
49491994 GAATTTTC
1 -AATTTTC
49492002 AATTTTC
1 AATTTTC
49492009 AATTTTC
1 AATTTTC
49492016 AATTTTC
1 AATTTTC
49492023 AATT
1 AATT
49492027 CTAAATCCTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
6 4 0.04
7 83 0.91
8 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.02, T:0.50
Consensus pattern (7 bp):
AATTTTC
Found at i:49491968 original size:35 final size:36
Alignment explanation
Indices: 49491929--49492026 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 36
49491919 ATTCTCAATC
* * *
49491929 TTCAATCTTCAATCTCCAATTTCCAATTTTC-TATT
1 TTCAATCTTCAATTTTCAATTTCCAATTTTCGAATT
*
49491964 TTCAATCTTCAATTTTCAATTTCGAA-TTTCGAATT
1 TTCAATCTTCAATTTTCAATTTCCAATTTTCGAATT
* *
49491999 TTCAATTTTCAATTTTCAATTTTCAATT
1 TTCAATCTTCAATTTTCAATTTCCAATT
49492027 CTAAATCCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 4 0.07
35 49 0.91
36 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.02, T:0.51
Consensus pattern (36 bp):
TTCAATCTTCAATTTTCAATTTCCAATTTTCGAATT
Found at i:49492026 original size:42 final size:42
Alignment explanation
Indices: 49491918--49492026 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
49491908 TTCCTTCCCA
* * *
49491918 AATTCTCAATCTTCAATCTTCAATCTCCAATTTCCAATTTTC
1 AATTTTCAATCTTCAATTTTCAATTTCCAATTTCCAATTTTC
* * *
49491960 TATTTTCAATCTTCAATTTTCAATTTCGAATTTCGAATTTTC
1 AATTTTCAATCTTCAATTTTCAATTTCCAATTTCCAATTTTC
*
49492002 AATTTTCAATTTTCAATTTTCAATT
1 AATTTTCAATCTTCAATTTTCAATT
49492027 CTAAATCCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.02, T:0.50
Consensus pattern (42 bp):
AATTTTCAATCTTCAATTTTCAATTTCCAATTTCCAATTTTC
Found at i:49519810 original size:7 final size:7
Alignment explanation
Indices: 49519797--49519834 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
49519787 TTTGGTTGTA
49519797 ATTGGAC
1 ATTGGAC
*
49519804 TTTGGAC
1 ATTGGAC
49519811 ATTGGAC
1 ATTGGAC
49519818 ATTGGAC
1 ATTGGAC
49519825 ATTGGAC
1 ATTGGAC
49519832 ATT
1 ATT
49519835 TTATTTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (7 bp):
ATTGGAC
Found at i:49525398 original size:5 final size:5
Alignment explanation
Indices: 49525388--49525425 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
49525378 AAAGAGGGAA
49525388 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
49525426 TAGGATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:49531230 original size:23 final size:23
Alignment explanation
Indices: 49531204--49531262 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
49531194 CCATACCTTT
49531204 GACAGTCACACGGCCACACCCTC
1 GACAGTCACACGGCCACACCCTC
*
49531227 GACAGTCACACGGCTACACCCTC
1 GACAGTCACACGGCCACACCCTC
* *
49531250 GATAGTTACACGG
1 GACAGTCACACGG
49531263 TCAGCCACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.39, G:0.20, T:0.14
Consensus pattern (23 bp):
GACAGTCACACGGCCACACCCTC
Found at i:49535053 original size:29 final size:30
Alignment explanation
Indices: 49535001--49535066 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
49534991 TAGGCTTGGC
49535001 CTTAACATTGTCCTTAGGCTTTGCCTTAGA
1 CTTAACATTGTCCTTAGGCTTTGCCTTAGA
*
49535031 CTTAGCATT-TCCTTAGGCTTTGCCTTAGA
1 CTTAACATTGTCCTTAGGCTTTGCCTTAGA
49535060 CTTAACA
1 CTTAACA
49535067 ATTCATAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (30 bp):
CTTAACATTGTCCTTAGGCTTTGCCTTAGA
Found at i:49536626 original size:16 final size:17
Alignment explanation
Indices: 49536593--49536626 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49536583 TCGGGCTATA
*
49536593 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
49536610 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
49536626 A
1 A
49536627 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Done.