Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 229 of 313
Found at i:70564020 original size:44 final size:43
Alignment explanation
Indices: 70563841--70564023 Score: 102
Period size: 44 Copynumber: 4.2 Consensus size: 43
70563831 TTTTAGATCT
* **
70563841 TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGGCGAATTT
1 TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGC-AATCC
* * * ** *
70563885 TATCCTCCC-CAGGAGT-AGGGAAGCAGATTTAAGCCA-CAAGTCC
1 TAT-CTCCCTAAGCAGTAATGG-AGCAGATCGAAGACAGCAA-TCC
* * * * * * * *** *
70563928 TATTTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTTCAGATCT
1 TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGCA-ATCC
*
70563972 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCC
1 TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGC-AATCC
70564016 TATCTCCC
1 TATCTCCC
70564024 CGATGTTTTG
Statistics
Matches: 97, Mismatches: 34, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
42 6 0.06
43 20 0.21
44 64 0.66
45 7 0.07
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGCAATCC
Found at i:70567333 original size:28 final size:28
Alignment explanation
Indices: 70567302--70567358 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
70567292 TATGTTTGTT
70567302 TTTATTATTAT-AACTTTATAATATATTA
1 TTTATTATTATAAACTTTATAAT-TATTA
70567330 TTTATTATTATAAACTTTATAATTATTA
1 TTTATTATTATAAACTTTATAATTATTA
70567358 T
1 T
70567359 AAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTATTATTATAAACTTTATAATTATTA
Found at i:70567348 original size:15 final size:15
Alignment explanation
Indices: 70567302--70567355 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
70567292 TATGTTTGTT
70567302 TTTATTATTAT-AAC
1 TTTATTATTATAAAC
* *
70567316 TTTA-TAATATATTA-
1 TTTATTATTATA-AAC
70567330 TTTATTATTATAAAC
1 TTTATTATTATAAAC
*
70567345 TTTATAATTAT
1 TTTATTATTAT
70567356 TATAAAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
13 5 0.16
14 9 0.29
15 17 0.55
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATTATTATAAAC
Found at i:70567370 original size:20 final size:21
Alignment explanation
Indices: 70567331--70567372 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
70567321 AATATATTAT
* *
70567331 TTATTATTATAAACTTTATAA
1 TTATTATTAAAAACTATATAA
70567352 TTATTA-TAAAAACTATATAA
1 TTATTATTAAAAACTATATAA
70567372 T
1 T
70567373 ATATACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATTATTAAAAACTATATAA
Found at i:70567569 original size:14 final size:15
Alignment explanation
Indices: 70567550--70567578 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70567540 TTACGAAACT
70567550 TTCACACAT-ATAAA
1 TTCACACATAATAAA
70567564 TTCACACATAATAAA
1 TTCACACATAATAAA
70567579 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:70575640 original size:43 final size:43
Alignment explanation
Indices: 70575593--70575694 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
70575583 TCAGAGAGTT
* *
70575593 ACACGGCTTGGCCACATGGTCATGTGTCTCGACTGTGTGAGGC
1 ACACGGCTTGGCCACATGGGCATGTGTCTCGACCGTGTGAGGC
* * * * * *
70575636 ACACGGCCTAGTCACATGGGCGTGTGTCTTGGCCGTGTGAGGC
1 ACACGGCTTGGCCACATGGGCATGTGTCTCGACCGTGTGAGGC
70575679 ACACGGCTTGGCCACA
1 ACACGGCTTGGCCACA
70575695 CGGGTGTGTG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (43 bp):
ACACGGCTTGGCCACATGGGCATGTGTCTCGACCGTGTGAGGC
Found at i:70578555 original size:31 final size:31
Alignment explanation
Indices: 70578517--70578586 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
70578507 ATAATTAATT
70578517 TAATATTAAATT-AATA-AAATACTATTAAAA
1 TAATATTAAATTAAATATAAA-ACTATTAAAA
*
70578547 TAAGTATTAAATTAAATATTAAACTATTAAAA
1 TAA-TATTAAATTAAATATAAAACTATTAAAA
70578579 TAATATTA
1 TAATATTA
70578587 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 3 0.08
31 14 0.39
32 17 0.47
33 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (31 bp):
TAATATTAAATTAAATATAAAACTATTAAAA
Found at i:70580779 original size:27 final size:27
Alignment explanation
Indices: 70580702--70580779 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
70580692 TAATCATGGA
* *
70580702 ATAGTCTGACGAGACACTAAACATGAG
1 ATAGTCTGACGAGACAATAAACACGAG
*
70580729 ATAGTC-CATC-AGGACAATAAACACGAG
1 ATAGTCTGA-CGA-GACAATAAACACGAG
70580756 ATAGTCTGACGAGACAATAAACAC
1 ATAGTCTGACGAGACAATAAACAC
70580780 AGGGTTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.05
27 39 0.91
28 2 0.05
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
ATAGTCTGACGAGACAATAAACACGAG
Found at i:70583645 original size:20 final size:20
Alignment explanation
Indices: 70583605--70583666 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
70583595 TGTAGATAAA
* * *
70583605 CTACCAGAGTTACAGAAAAG
1 CTACCAGAATTATAGACAAG
*
70583625 CTACCAGAATTATGGACAAG
1 CTACCAGAATTATAGACAAG
* *
70583645 CCACCAGAATTGTAGACAAG
1 CTACCAGAATTATAGACAAG
70583665 CT
1 CT
70583667 TCTAGTACTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (20 bp):
CTACCAGAATTATAGACAAG
Found at i:70584296 original size:120 final size:120
Alignment explanation
Indices: 70584083--70584314 Score: 437
Period size: 120 Copynumber: 1.9 Consensus size: 120
70584073 GATTATCTGA
*
70584083 GGGCATTACGTGTGAATTAGTTATATACCGAGTTGAGTAAGTGTGAGTTATGCTGAGAGAAGTAC
1 GGGCATTACGTGTGAATTAGTTATATACCAAGTTGAGTAAGTGTGAGTTATGCTGAGAGAAGTAC
70584148 ATTTTTTGGGCCATGTGATTTCTATCGAAGGTATTAAAGTGGATCCTGTTAAGGC
66 ATTTTTTGGGCCATGTGATTTCTATCGAAGGTATTAAAGTGGATCCTGTTAAGGC
* *
70584203 GGGCATTACGTGTGAATTAGTTATATACCAAGTTGAGTAAGTGTGAGTTCTGTTGAGAGAAGTAC
1 GGGCATTACGTGTGAATTAGTTATATACCAAGTTGAGTAAGTGTGAGTTATGCTGAGAGAAGTAC
70584268 ATTTTTTGGGCCATGTGATTTCTATCGAAGGTATTAAAGTGGATCCT
66 ATTTTTTGGGCCATGTGATTTCTATCGAAGGTATTAAAGTGGATCCT
70584315 AATAAGGTGA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.35
Consensus pattern (120 bp):
GGGCATTACGTGTGAATTAGTTATATACCAAGTTGAGTAAGTGTGAGTTATGCTGAGAGAAGTAC
ATTTTTTGGGCCATGTGATTTCTATCGAAGGTATTAAAGTGGATCCTGTTAAGGC
Found at i:70591978 original size:22 final size:23
Alignment explanation
Indices: 70591937--70591982 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
70591927 TCCAATTAAG
70591937 GGCATCAATTGTCTTTCATATTA
1 GGCATCAATTGTCTTTCATATTA
70591960 GGCATCAATTGT-TTTCATATTA
1 GGCATCAATTGTCTTTCATATTA
70591982 G
1 G
70591983 CCACAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (23 bp):
GGCATCAATTGTCTTTCATATTA
Found at i:70604834 original size:15 final size:15
Alignment explanation
Indices: 70604814--70604845 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
70604804 CATTTCACTA
*
70604814 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
70604829 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
70604844 TT
1 TT
70604846 TTCATACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:70606249 original size:40 final size:40
Alignment explanation
Indices: 70606199--70606340 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
70606189 AGAGCATTCT
* * * * *
70606199 TTTCAATAGATTCAGTAGGTCTGGCTTGAGAGCGCATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTTGAAAGCACATACG
* *
70606239 TTTCAGTAGATTCAGTAGGTATGGCTTGAAAGCTCATATG
1 TTTCAGTAGATTCAGTAGGTATGGCTTGAAAGCACATACG
*
70606279 TTTCAGTAGATTCAGTAGGTATGGCTTGAAAGCATATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTTGAAAGCACATACG
*
70606319 TTTCACTAGATTCAGTAGGTAT
1 TTTCAGTAGATTCAGTAGGTAT
70606341 CGCTCGTCCG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTTGAAAGCACATACG
Found at i:70616100 original size:50 final size:50
Alignment explanation
Indices: 70615973--70616261 Score: 165
Period size: 50 Copynumber: 5.7 Consensus size: 50
70615963 AATAATAACA
* * * *
70615973 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTA-C--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGA-GTTCTC-GTATCGG
* * * * *
70616022 TTCAAATGTCATATCCCAAATATGGTCTTACATGAGAGTTCTCGTATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGAGTTCTCGTATCGG
* * * * * ** * *
70616072 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGAGTTCTCGTATCGG
* * ** * *
70616122 TGGCAACGCCATGTCCCAAACATGGTCTTACATGAGACATCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGAGTTCTCGT-A--TC---GG
* * ** *
70616178 TGCCAATGCTAGGTCCCAAACATGGTCTTACATG-G-GACCTCATATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGAGTTCTCGTA--TCGG
* * *
70616228 TGCGAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATG
70616262 GGACCTCTTT
Statistics
Matches: 186, Mismatches: 45, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
47 3 0.02
48 6 0.03
49 29 0.16
50 103 0.55
53 7 0.04
54 6 0.03
55 1 0.01
56 31 0.17
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGAGTTCTCGTATCGG
Found at i:70616262 original size:50 final size:51
Alignment explanation
Indices: 70616079--70616268 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 51
70616069 CGGTGCCCAT
* * * *
70616079 GCCATGTCCCAGACATGGTCTTATAGGGGACCTC-TCATCTCGGTG-GCAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCATAATCTCGGTGCG-AAC
* * * *
70616129 GCCATGTCCCAAACATGGTCTTACATGAGACATCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGAC--CTCATAATCTC---GGTGCGAAC
* *
70616185 GCTAGGTCCCAAACATGGTCTTACATGGGACCTCAT-ATCTCGGTGCGAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCATAATCTCGGTGCGAAC
*
70616235 GCCATGTCCCAGACATGGTCTTACATGGGACCTC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTC
70616269 TTTACCCAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
50 64 0.55
52 3 0.03
53 11 0.09
54 5 0.04
56 33 0.28
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (51 bp):
GCCATGTCCCAAACATGGTCTTACATGGGACCTCATAATCTCGGTGCGAAC
Found at i:70619257 original size:63 final size:65
Alignment explanation
Indices: 70619063--70619258 Score: 163
Period size: 63 Copynumber: 3.0 Consensus size: 65
70619053 ATATTATTTT
* * * *
70619063 AATAGTTTAATAATAAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTGA
1 AATA-TTTAATATTAAATTTAATTTAATA-TTATCTTGATAAATATTATATTAATTTAATATT-A
70619127 AGTG
63 AG-G
* ** * *
70619131 AATATCTTAATATTTAATTTAATTTAATGACCATCTTGTAGATAAACATTCTATT-ATTT--TAT
1 AATAT-TTAATATTAAATTTAATTTAAT-ATTATC-T-T-GATAAATATTATATTAATTTAATAT
70619193 TAA-G
61 TAAGG
*
70619197 -AT-TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAA
1 AATATTTAATATTAAATTTAATTTAATA-TTATCTTGATAAATATTATATTAATTTAATATTAA
70619259 AGTGATTAAG
Statistics
Matches: 104, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
60 13 0.12
61 5 0.05
62 2 0.02
63 29 0.28
64 1 0.01
65 2 0.02
66 1 0.01
67 1 0.01
68 29 0.28
69 6 0.06
70 1 0.01
71 6 0.06
72 8 0.08
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (65 bp):
AATATTTAATATTAAATTTAATTTAATATTATCTTGATAAATATTATATTAATTTAATATTAAGG
Found at i:70626903 original size:20 final size:20
Alignment explanation
Indices: 70626878--70626917 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
70626868 GGGCACAAAA
*
70626878 CAAATCTTTAGAAATTTTGG
1 CAAATCCTTAGAAATTTTGG
*
70626898 CAAATCCTTAGATATTTTGG
1 CAAATCCTTAGAAATTTTGG
70626918 TTTAACCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (20 bp):
CAAATCCTTAGAAATTTTGG
Found at i:70626944 original size:20 final size:20
Alignment explanation
Indices: 70626921--70626961 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
70626911 ATTTTGGTTT
* *
70626921 AACCTTGGAAATTTTGATAA
1 AACCTTAGAAAATTTGATAA
*
70626941 AACCTTATAAAATTTGATAA
1 AACCTTAGAAAATTTGATAA
70626961 A
1 A
70626962 TTTTTCTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
AACCTTAGAAAATTTGATAA
Found at i:70627055 original size:20 final size:20
Alignment explanation
Indices: 70627030--70627104 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
70627020 GGAAATCTTA
*
70627030 AGAAATTTTGGTGAGCCCTT
1 AGAAATTTTGGTAAGCCCTT
* *
70627050 AGAAATATTGGTAAGTCCTT
1 AGAAATTTTGGTAAGCCCTT
* *
70627070 AGAAAGTTTGGAAAAG-CCTT
1 AGAAATTTTGG-TAAGCCCTT
70627090 -GAAAATTTTGGTAAG
1 AG-AAATTTTGGTAAG
70627105 TCTTTAGATA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (20 bp):
AGAAATTTTGGTAAGCCCTT
Found at i:70627228 original size:20 final size:20
Alignment explanation
Indices: 70627202--70627264 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
70627192 GACACTAAAG
70627202 AAATCTTTAAAAATTTTGAT
1 AAATCTTTAAAAATTTTGAT
* * *
70627222 GAATCTTTAGAAATATTGAT
1 AAATCTTTAAAAATTTTGAT
* * *
70627242 AAATCCTTGAAAATTTTGCT
1 AAATCTTTAAAAATTTTGAT
70627262 AAA
1 AAA
70627265 GCCTTGGAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATCTTTAAAAATTTTGAT
Found at i:70627269 original size:20 final size:20
Alignment explanation
Indices: 70627241--70627279 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
70627231 GAAATATTGA
*
70627241 TAAATCCTTGAAAATTTTGC
1 TAAAGCCTTGAAAATTTTGC
*
70627261 TAAAGCCTTGGAAATTTTG
1 TAAAGCCTTGAAAATTTTG
70627280 TCATGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
TAAAGCCTTGAAAATTTTGC
Found at i:70627442 original size:59 final size:59
Alignment explanation
Indices: 70627328--70627551 Score: 138
Period size: 59 Copynumber: 3.8 Consensus size: 59
70627318 AGGAAATCAA
* * * *
70627328 TAGATATTTTGGTAAAGCTTAGAAATTTTGGTAATTCCCTAGATATTTTTATATAACCT
1 TAGAAATTTGGGTAAAGCTTAGAAATTTTGGTAAATCCCTAGATATTTTGATATAACCT
* * * * * *
70627387 TAGAAATTTGGGT-AAGCCTTAGAATTTTTGGTAAATGCTTGGATATTTTGGTATAATCT
1 TAGAAATTTGGGTAAAG-CTTAGAAATTTTGGTAAATCCCTAGATATTTTGATATAACCT
* * * * * * * *
70627446 TGGAAACTTT-GGTAAATCCTTATACATTTTGATATAA-CCTTAGAAATTTTGGTA-AATCC-
1 TAGAAA-TTTGGGTAAA-GCTTAGAAATTTTGGTA-AATCCCTAGATATTTTGATATAA-CCT
* * * *
70627505 T--AAATTTTGGCAAAGCCTTAGAAATTTTAGTAAATCCTTAGCATATT
1 TAGAAATTTGGGTAAAG-CTTAGAAATTTTGGTAAATCCCTAG-ATATT
70627552 GTTAAATCTA
Statistics
Matches: 128, Mismatches: 27, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
56 5 0.04
57 26 0.20
58 7 0.05
59 56 0.44
60 32 0.25
61 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (59 bp):
TAGAAATTTGGGTAAAGCTTAGAAATTTTGGTAAATCCCTAGATATTTTGATATAACCT
Found at i:70627543 original size:20 final size:20
Alignment explanation
Indices: 70627328--70627575 Score: 165
Period size: 20 Copynumber: 12.7 Consensus size: 20
70627318 AGGAAATCAA
* *
70627328 TAGATATTTTGGTAAA-GCT
1 TAGAAATTTTGGTAAATCCT
* *
70627347 TAGAAATTTTGGTAATTCCC
1 TAGAAATTTTGGTAAATCCT
* **
70627367 TAGATATTTTTATATAA-CCT
1 TAGAAATTTTGGTA-AATCCT
* *
70627387 TAGAAATTTGGGT-AAGCCT
1 TAGAAATTTTGGTAAATCCT
* *
70627406 TAGAATTTTTGGTAAATGCT
1 TAGAAATTTTGGTAAATCCT
* *
70627426 TGGATATTTTGGTATAAT-CT
1 TAGAAATTTTGGTA-AATCCT
* *
70627446 TGGAAACTTTGGTAAATCCT
1 TAGAAATTTTGGTAAATCCT
* * *
70627466 TATACATTTTGATATAA-CCT
1 TAGAAATTTTGGTA-AATCCT
70627486 TAGAAATTTTGGTAAATCC-
1 TAGAAATTTTGGTAAATCCT
* *
70627505 T--AAATTTTGGCAAAGCCT
1 TAGAAATTTTGGTAAATCCT
*
70627523 TAGAAATTTTAGTAAATCCT
1 TAGAAATTTTGGTAAATCCT
* * *
70627543 TAG-CATATTGTTAAAT-CT
1 TAGAAATTTTGGTAAATCCT
*
70627561 ATAGAAATATTGGTA
1 -TAGAAATTTTGGTA
70627576 TGCCAAAATG
Statistics
Matches: 175, Mismatches: 41, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
17 14 0.08
18 5 0.03
19 46 0.26
20 104 0.59
21 6 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (20 bp):
TAGAAATTTTGGTAAATCCT
Found at i:70627661 original size:19 final size:19
Alignment explanation
Indices: 70627622--70627677 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
70627612 AGGAAATGTC
70627622 TAGAAATATTGGTAAATCCT
1 TAGAAAT-TTGGTAAATCCT
70627642 TAGAAATTTGGTCAAA-CCT
1 TAGAAATTTGGT-AAATCCT
*
70627661 TAGATATTTGGTAAATC
1 TAGAAATTTGGTAAATC
70627678 TTTAAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 3 0.09
19 20 0.61
20 10 0.30
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
TAGAAATTTGGTAAATCCT
Found at i:70627686 original size:19 final size:19
Alignment explanation
Indices: 70627625--70627688 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
70627615 AAATGTCTAG
70627625 AAATA-TTGGTAAATCCTT
1 AAATATTTGGTAAATCCTT
70627643 AGAA-ATTTGGTCAAA-CCTT
1 A-AATATTTGGT-AAATCCTT
* *
70627662 AGATATTTGGTAAATCTTT
1 AAATATTTGGTAAATCCTT
70627681 AAATATTT
1 AAATATTT
70627689 TGGCATAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.16
19 29 0.76
20 3 0.08
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (19 bp):
AAATATTTGGTAAATCCTT
Found at i:70630384 original size:16 final size:16
Alignment explanation
Indices: 70630334--70630386 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
70630324 TTTGGTTCGC
70630334 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
70630350 TATATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
70630367 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
70630383 TGTA
1 TGTA
70630387 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:70630639 original size:16 final size:16
Alignment explanation
Indices: 70630599--70630656 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
70630589 ATTTTAATCA
70630599 TAATTAAACATA-ATTAT
1 TAATTAAA-ATATATT-T
70630616 T-ATT-AAATATATTT
1 TAATTAAAATATATTT
70630630 TAATTAAAATATATAATT
1 TAATTAAAATATAT--TT
70630648 TAA-TAAAAT
1 TAATTAAAAT
70630657 TCTTAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 11 0.31
17 7 0.19
18 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAAAATATATTT
Found at i:70630643 original size:18 final size:17
Alignment explanation
Indices: 70630622--70630656 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
70630612 TTATTATTAA
*
70630622 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
70630640 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
70630657 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:70630742 original size:120 final size:120
Alignment explanation
Indices: 70630600--70630987 Score: 695
Period size: 120 Copynumber: 3.2 Consensus size: 120
70630590 TTTTAATCAT
70630600 AATTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 AATT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
70630665 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
70630721 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
70630786 TTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
66 TTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
* * *
70630841 AATTAACATAATTATTATTAAATAAATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAA
1 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
70630906 TTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
66 TTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
*
70630961 AATTAACATAATAATTATTAAATATAT
1 AATTAACATAATTATTATTAAATATAT
70630988 AACTTGAAAA
Statistics
Matches: 257, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
120 253 0.98
121 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
Found at i:70630763 original size:18 final size:17
Alignment explanation
Indices: 70630742--70630776 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
70630732 TTATTATTAA
*
70630742 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
70630760 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
70630777 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:70634650 original size:81 final size:81
Alignment explanation
Indices: 70634513--70634725 Score: 256
Period size: 81 Copynumber: 2.6 Consensus size: 81
70634503 ATCTGGACTA
* * *
70634513 AAATACCCTCGATAGATAAAATGA-CTGAAATACCCTCGATGGGTAAAATAACCAAAATACCCTC
1 AAATACCCTCGATAGGTAAAATGATC-GAAATACCCTTGATGGGTAAAATAACCAAAATACCATC
70634577 GATGGGTAAAATGATC-G
65 GATGGGTAAAATG-TCTG
* *
70634594 AAATACCCTCGA-AGGGTAAAATGATCGAAATACCCTTGATGGGTAAAATGATCAAAATACCATC
1 AAATACCCTCGATA-GGTAAAATGATCGAAATACCCTTGATGGGTAAAATAACCAAAATACCATC
*
70634658 GATGTGTAAAATGTCTG
65 GATGGGTAAAATGTCTG
* * * *
70634675 AAATGCCC-CCATATGGTAAAATGATCGTAATACCCCTG-TAGGGTAAAATAA
1 AAATACCCTCGATA-GGTAAAATGATCGAAATACCCTTGAT-GGGTAAAATAA
70634726 TCGTAATGCC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
80 6 0.05
81 108 0.94
82 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (81 bp):
AAATACCCTCGATAGGTAAAATGATCGAAATACCCTTGATGGGTAAAATAACCAAAATACCATCG
ATGGGTAAAATGTCTG
Found at i:70634678 original size:27 final size:27
Alignment explanation
Indices: 70634513--70634747 Score: 221
Period size: 27 Copynumber: 8.7 Consensus size: 27
70634503 ATCTGGACTA
* *
70634513 AAATACCCTCGATAGATAAAATGA-CTG
1 AAATACCCTCGATGGGTAAAATGATC-G
* * *
70634540 AAATACCCTCGATGGGTAAAATAACCA
1 AAATACCCTCGATGGGTAAAATGATCG
70634567 AAATACCCTCGATGGGTAAAATGATCG
1 AAATACCCTCGATGGGTAAAATGATCG
*
70634594 AAATACCCTCGAAGGGTAAAATGATCG
1 AAATACCCTCGATGGGTAAAATGATCG
* *
70634621 AAATACCCTTGATGGGTAAAATGATCA
1 AAATACCCTCGATGGGTAAAATGATCG
* *
70634648 AAATACCATCGATGTGTAAAATG-TCTG
1 AAATACCCTCGATGGGTAAAATGATC-G
* * *
70634675 AAATGCCC-CCATATGGTAAAATGATCG
1 AAATACCCTCGAT-GGGTAAAATGATCG
* *
70634702 TAATACCC-CTG-TAGGGTAAAATAATCG
1 AAATACCCTC-GAT-GGGTAAAATGATCG
* * *
70634729 TAATGCCCTAG-TGGGTAAA
1 AAATACCCTCGATGGGTAAA
70634748 TGACTATTTT
Statistics
Matches: 175, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.07
27 160 0.91
28 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATGATCG
Found at i:70634812 original size:23 final size:23
Alignment explanation
Indices: 70634786--70634852 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
70634776 GATTATTTTT
70634786 TCTGTGGTTAAATGACTGATTTG
1 TCTGTGGTTAAATGACTGATTTG
*
70634809 TCTGT-GTTCGATATGACTGATTTG
1 TCTGTGGTT--AAATGACTGATTTG
* *
70634833 TCTGTGTTTGAATGACTGAT
1 TCTGTGGTTAAATGACTGAT
70634853 ATTAAGCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 3 0.08
23 14 0.38
24 18 0.49
25 2 0.05
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.45
Consensus pattern (23 bp):
TCTGTGGTTAAATGACTGATTTG
Found at i:70634824 original size:24 final size:23
Alignment explanation
Indices: 70634796--70634852 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 23
70634786 TCTGTGGTTA
70634796 AATGACTGATTTGTCTGTGTTCG
1 AATGACTGATTTGTCTGTGTTCG
*
70634819 ATATGACTGATTTGTCTGTGTTTG
1 A-ATGACTGATTTGTCTGTGTTCG
70634843 AATGACTGAT
1 AATGACTGAT
70634853 ATTAAGCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.44
Consensus pattern (23 bp):
AATGACTGATTTGTCTGTGTTCG
Found at i:70635034 original size:26 final size:26
Alignment explanation
Indices: 70634979--70635034 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
70634969 ATATTATTAC
* * *
70634979 TGGCAGCTTTGCTGTGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTATTGA
*
70635005 TGGCAGCTTTGCTGCGATGCTATTGA
1 TGGCAGCTTTGCTGCGATACTATTGA
70635031 TGGC
1 TGGC
70635035 TTTGTGCCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.12, C:0.20, G:0.32, T:0.36
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTATTGA
Found at i:70635069 original size:32 final size:33
Alignment explanation
Indices: 70635023--70635270 Score: 132
Period size: 32 Copynumber: 7.8 Consensus size: 33
70635013 TTGCTGCGAT
* *
70635023 GCTATTGATGGCTTTGTGCCAG-TCGTAGTACC
1 GCTACTGATGGCTTTGTGCCAGATCATAGTACC
70635055 GCTACTGATGGCTTTGTGCC-GATCATAGTACC
1 GCTACTGATGGCTTTGTGCCAGATCATAGTACC
* * **
70635087 GCTACTGAT-GCTTTATGCCA-ATGATCTTACC
1 GCTACTGATGGCTTTGTGCCAGATCATAGTACC
* * ** * *
70635118 GTTA-TCGATGGCTGTGTG-TTGATCAT-TTCACT
1 GCTACT-GATGGCTTTGTGCCAGATCATAGT-ACC
** * * *
70635150 ATTATTGATGG-TTGTGTACC-GATCATA-TCACT
1 GCTACTGATGGCTT-TGTGCCAGATCATAGT-ACC
70635182 GCTACTGATGGCTTTGTGCCA-ATCAT-GTTACC
1 GCTACTGATGGCTTTGTGCCAGATCATAG-TACC
* * *
70635214 GTTACTAATGG-TTGTGTGCC-GATCAT-GTCACT
1 GCTACTGATGGCTT-TGTGCCAGATCATAGT-ACC
*
70635246 ACTACTGATGGCTTTGTGCCA-ATCA
1 GCTACTGATGGCTTTGTGCCAGATCA
70635271 CATTACTATA
Statistics
Matches: 169, Mismatches: 28, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
30 1 0.01
31 30 0.18
32 132 0.78
33 6 0.04
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (33 bp):
GCTACTGATGGCTTTGTGCCAGATCATAGTACC
Found at i:70635230 original size:96 final size:95
Alignment explanation
Indices: 70635056--70635262 Score: 249
Period size: 96 Copynumber: 2.2 Consensus size: 95
70635046 CGTAGTACCG
* *
70635056 CTACTGATGGCTTTGTGCCGATCATAGTACCGCTACTGATGCTTTATGCCAATGATCTTACCGTT
1 CTACTGATGGCTTTGTACCGATCATAGTACCGCTACTGATGCTTTATGCCAATCATCTTACCGTT
* ** *
70635121 ATCGATGGCTGTGTGTTGATCATTTCACTA
66 ATCAATGGCTGTGTGCCGATCATGTCACTA
* * * * *
70635151 TTATTGATGG-TTGTGTACCGATCATA-TCACTGCTACTGATGGCTTTGTGCCAATCATGTTACC
1 CTACTGATGGCTT-TGTACCGATCATAGT-ACCGCTACTGAT-GCTTTATGCCAATCATCTTACC
*
70635214 GTTA-CTAATGGTTGTGTGCCGATCATGTCACTA
63 GTTATC-AATGGCTGTGTGCCGATCATGTCACTA
70635247 CTACTGATGGCTTTGT
1 CTACTGATGGCTTTGT
70635263 GCCAATCACA
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
94 3 0.03
95 32 0.34
96 56 0.60
97 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (95 bp):
CTACTGATGGCTTTGTACCGATCATAGTACCGCTACTGATGCTTTATGCCAATCATCTTACCGTT
ATCAATGGCTGTGTGCCGATCATGTCACTA
Found at i:70635538 original size:28 final size:28
Alignment explanation
Indices: 70635507--70635560 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
70635497 CATACTGATA
*
70635507 CTGTATCAGGCTTAGGCCCACACTGTTT
1 CTGTATCAGGCTAAGGCCCACACTGTTT
**
70635535 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCAGGCTAAGGCCCACACTGT
70635561 ACTATTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.30
Consensus pattern (28 bp):
CTGTATCAGGCTAAGGCCCACACTGTTT
Found at i:70636898 original size:29 final size:29
Alignment explanation
Indices: 70636865--70636943 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
70636855 AAGAAGTGCT
* * *
70636865 TTTGTGG-AGATCTTTGTTAAATGTAAGCC
1 TTTGTGGCA-ATCTTTGTCAAAAGGAAGCC
70636894 TTTGTGGCAATCTTTGTCAAAAGGAAGCC
1 TTTGTGGCAATCTTTGTCAAAAGGAAGCC
* *
70636923 TTTGTGACAACCTTTGTCAAA
1 TTTGTGGCAATCTTTGTCAAA
70636944 GAATGCCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 43 0.98
30 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (29 bp):
TTTGTGGCAATCTTTGTCAAAAGGAAGCC
Found at i:70636956 original size:28 final size:29
Alignment explanation
Indices: 70636889--70636956 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
70636879 TGTTAAATGT
* * *
70636889 AAGCCTTTGTGGCAATCTTTGTCAAAAGG
1 AAGCCATTGTGACAACCTTTGTCAAAAGG
*
70636918 AAGCCTTTGTGACAACCTTTGTC-AAA-G
1 AAGCCATTGTGACAACCTTTGTCAAAAGG
70636945 AATGCCATTGTG
1 AA-GCCATTGTG
70636957 GCGACACTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.09
28 11 0.31
29 21 0.60
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (29 bp):
AAGCCATTGTGACAACCTTTGTCAAAAGG
Found at i:70637609 original size:29 final size:29
Alignment explanation
Indices: 70637567--70637811 Score: 199
Period size: 29 Copynumber: 8.4 Consensus size: 29
70637557 AGTTTCTGTA
70637567 TCTGTTAAATGGAGGCCTTTGTGGCTATC
1 TCTGTTAAATGGAGGCCTTTGTGGCTATC
* *
70637596 TCTGTTAAAGGGAGGCCTTTATGGCTATC
1 TCTGTTAAATGGAGGCCTTTGTGGCTATC
**
70637625 TCCATTAAATGGAGGCCTTTGTGGCTATC
1 TCTGTTAAATGGAGGCCTTTGTGGCTATC
*
70637654 TCAT-TTAAATGGAAGCCTTTGTGG-TGATC
1 TC-TGTTAAATGGAGGCCTTTGTGGCT-ATC
* * * ** *
70637683 TCTGTTAAATGGAAGCCTCTCTAACGATC
1 TCTGTTAAATGGAGGCCTTTGTGGCTATC
* * ** * *
70637712 TTTTTTAAATGGAAACCTTTCTGACTATC
1 TCTGTTAAATGGAGGCCTTTGTGGCTATC
* * * *
70637741 TTTATTAAATGGAAGCCTTTGTGG-TAATG
1 TCTGTTAAATGGAGGCCTTTGTGGCT-ATC
* * * ** *
70637770 TTTGTGAAATGTAAACCTTTGTAGCTATC
1 TCTGTTAAATGGAGGCCTTTGTGGCTATC
70637799 TCTGTTAAATGGA
1 TCTGTTAAATGGA
70637812 ATCCCACCAT
Statistics
Matches: 177, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.02
29 173 0.98
30 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (29 bp):
TCTGTTAAATGGAGGCCTTTGTGGCTATC
Found at i:70637881 original size:29 final size:29
Alignment explanation
Indices: 70637823--70637881 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
70637813 TCCCACCATA
* * * **
70637823 TTTGTTAAATGGAAGCTTTTGTGGCGATC
1 TTTGTTAAATAGAAGCCTTTATGGAAATC
70637852 TTTGTTAAATAGAAGCCTTTATGGAAATC
1 TTTGTTAAATAGAAGCCTTTATGGAAATC
70637881 T
1 T
70637882 CTATCAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (29 bp):
TTTGTTAAATAGAAGCCTTTATGGAAATC
Found at i:70638587 original size:28 final size:29
Alignment explanation
Indices: 70638547--70638788 Score: 132
Period size: 29 Copynumber: 8.4 Consensus size: 29
70638537 TTTCTGTATG
* *
70638547 TGTTAAATGGAGG-CTTTTTTGCTATCTC
1 TGTTAAATGGAGGCCTTTATGGCTATCTC
* *
70638575 TGTTAAATGGAGGCCTTTATTGCTGTCTC
1 TGTTAAATGGAGGCCTTTATGGCTATCTC
* *
70638604 TGTTAAATAGG-GGCCTTTCTGGGTATCTC
1 TGTTAAAT-GGAGGCCTTTATGGCTATCTC
* * * * *
70638633 TATTAAATGGAAGCATTTGTGGCAATCTC
1 TGTTAAATGGAGGCCTTTATGGCTATCTC
* * * * * *
70638662 TGTTAAATGAAATG-CTCTCTGGCGATCTT
1 TGTTAAATG-GAGGCCTTTATGGCTATCTC
* ** * **
70638691 TTTTAAATGGAAACCTTTCTAACTATCTC
1 TGTTAAATGGAGGCCTTTATGGCTATCTC
* * * *
70638720 TGTTAAATGGAAGCCTTTGTGG-TAATGTT
1 TGTTAAATGGAGGCCTTTATGGCT-ATCTC
* ** * *
70638749 TGTGAAATGGAAACCTTTGTGGCTGTCTC
1 TGTTAAATGGAGGCCTTTATGGCTATCTC
*
70638778 TGTTTAATGGA
1 TGTTAAATGGA
70638789 AACCTGCCAT
Statistics
Matches: 164, Mismatches: 43, Indels: 13
0.75 0.20 0.06
Matches are distributed among these distances:
28 17 0.10
29 142 0.87
30 5 0.03
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (29 bp):
TGTTAAATGGAGGCCTTTATGGCTATCTC
Found at i:70638781 original size:977 final size:975
Alignment explanation
Indices: 70636862--70638945 Score: 3083
Period size: 977 Copynumber: 2.1 Consensus size: 975
70636852 CTAAAGAAGT
* * *
70636862 GCTTTTGTGGAGATCTTTGTTAAAT-GTAAGCCTTTGTGGCAATCTTTGTCAAAAGGAAGCCTTT
1 GCTTTTGTGGAGATCTTTGTTAAATAG-AAGCCTTTGTGGAAATCTCTATCAAAAGGAAGCCTTT
* *
70636926 GTGACAACCTTTGTCAAAGAATGCCATTGTGGCGACACTCTAAAAGGAAAGCCTCTATGACTATC
65 GTGACAACCTTTGTCAAAGGATGCCATTGTGGCGAGACTCTAAAAGGAAAGCCTCTATGACTATC
*
70636991 TTTGTAAAGGAATGCCTTCGTGGCATAATTTAAAGAATGATTCTTCTGATGGCCATCTAAAGACA
130 TTTGGAAAGGAATGCCTTCGTGGCATAATTTAAAGAATGATTCTTCTGATGGCCATCTAAAGACA
*
70637056 ACGCCTATAGGCAGACTCTAAATGAGTGGCAAACACGATATTCTGGGAATTGGCAAGTACGATTT
195 ACGCCTATAGGCAGACTCTAAATGAGTGGCAAACACGATATTCTGGGAATTGGCAACTACGATTT
* * * *
70637121 AGCTCTGAAGGAAAGCTATTATGGAAGTTTATTACAAAGACTGTACAATCGATAGGTTTAAAGTT
260 AGCTCTGAAGGAAAGCTATTATGGAAGATTATGACAAAGACTATACAATCGATAGGTTCAAAGTT
*
70637186 ATGAATGAGAAAAAAATGATCAAATCCCTGAATAAGGGCTCAGGTAATAGAGGGTTCTCTCACTA
325 ATGAATAAGAAAAAAATGATCAAATCCCTGAATAAGGGCTCAGGTAATAGAGGGTTCTCTCACTA
*
70637251 AGTTCTATTGAACTTACCCTCTGTGTTTATGTCTCAGGTAAAGGAGACGCTAGGATGGACGATGC
390 AGTTCTATTGAACTTACCCTCTGTGTTTATGTCTCAGGTAAAGGAGACGCTAGGAGGGACGATGC
* * * * ** *
70637316 CAGGGCTGCACCAAAAGAGTGGTGAAGTGGGCACATAAGTACTAGGGATGAGGGGCAAATCTCAT
455 CAAGGCTGCACCAAAAGAGTGGTGAAATGGGCAAATAAGTACCAGGGATGACCGGCAAACCTCAT
* * * * *
70637381 GACAGTGAGTTTAACCGAATCCCTATCGTCAAAAACACTAGTTTCTATAAAAGTGAGCCTTTGTG
520 GACAGTGAGTTTAACCAAATCCCTATCGTAAAAAACACCAATTTCCATAAAAGTGAGCCTTTGTG
* * * *
70637446 GCTATTTCTATTAAAAAATGTCTTTGTGGAAAATCTTTGATAAGGAATACCTTTGTAGTAATCTA
585 GCTATTTCTAATAAAAAATGTCTTTGTGGAAAATCTGTAATAAGGAATACCTTCGTAGTAATCTA
* *
70637511 TAAGGAGACACCTTTGTGGTGGAACCTAAAGAAGTGCCTTTGTGGCAGTTTCTGTATCTGTTAAA
650 TAAGGACACACCTTTATGGTGGAACCTAAAGAAGTGCCTTTGTGGCAGTTTCTGTATCTGTTAAA
70637576 TGGAGGCCTTTGTGGCTATCTCTGTTAAAGGGAGGCCTTTATGGCTATCTCCATTAAATGGAGGC
715 TGGAGGCCTTTGTGGCTATCTCTGTTAAAGGGAGGCCTTTATGGCTATCTCCATTAAATGGAGGC
* * ** *
70637641 CTTTGTGGCTATCTCATTTAAATGGAAGCCTTTGTGGTGATCTCTGTTAAATGGAAGCCTCTCTA
780 CTTTCTGGCTATCTCATTTAAATGGAAGCATTTGTGGCAATCTCTGTTAAATGAAAGCCTCTCTA
* *
70637706 ACGATCTTTTTTAAATGGAAACCTTTCTGACTATCTTTATTAAATGGAAGCCTTTGTGGTAATGT
845 ACGATCTTTTTTAAATGGAAACCTTTCTAACTATCTCTATTAAATGGAAGCCTTTGTGGTAATGT
* *
70637771 TTGTGAAATGTAAACCTTTGTAGCTATCTCTGTTAAATGGAATCCCACCATAT-TTGTTAAATGG
910 TTGTGAAATGGAAACCTTTGTAGCTATCTCTGTTAAATGGAAACCCACCATATATT-TTAAATGG
70637835 AA
974 AA
* *
70637837 GCTTTTGTGGCGATCTTTGTTAAATAGAAGCCTTTATGGAAATCTCTATCAAAAGGAAGCCTTTG
1 GCTTTTGTGGAGATCTTTGTTAAATAGAAGCCTTTGTGGAAATCTCTATCAAAAGGAAGCCTTTG
* * * * * * *
70637902 TAACAACCTTTGTCAAAGGACGCCATTGTGGTGAGACTCTAAAAGGAAAGCCTTTGTGAGTATTT
66 TGACAACCTTTGTCAAAGGATGCCATTGTGGCGAGACTCTAAAAGGAAAGCCTCTATGACTATCT
* * *
70637967 TTGGAAAGGAATGCCTTCGTGGCATAATTTCAAGAATGATTCTTGTGATGGCCATCTGAAGACAA
131 TTGGAAAGGAATGCCTTCGTGGCATAATTTAAAGAATGATTCTTCTGATGGCCATCTAAAGACAA
*
70638032 CGCCTATAGGCAGACTCTTAATGAGTGGCAAACACGATATTCTGGGAATTGGCAACTACGATTTA
196 CGCCTATAGGCAGACTCTAAATGAGTGGCAAACACGATATTCTGGGAATTGGCAACTACGATTTA
* *
70638097 GCTCTGATGGGAAAGCTATTATGGAAGATTATGACGAAGACTATACAATCGATAGGTTCAAAGTT
261 GCTCTGA-AGGAAAGCTATTATGGAAGATTATGACAAAGACTATACAATCGATAGGTTCAAAGTT
* * * *
70638162 ATGAATAAGAAAAAAAATGTTGAAATCCCTGAATAAGGGCTCAGGTAATTGATGGTTCTCTCACT
325 ATGAATAAG-AAAAAAATGATCAAATCCCTGAATAAGGGCTCAGGTAATAGAGGGTTCTCTCACT
* *
70638227 AAGTTCTGTTGAACTTACCCCTCTGTGTTTATGTCTCAGTTAAAGGAGACGCTAGGAGGGACGAT
389 AAGTTCTATTGAACTTA-CCCTCTGTGTTTATGTCTCAGGTAAAGGAGACGCTAGGAGGGACGAT
*
70638292 GCCAAGGTTGCACCAAAAGAGTGGTGAAATGGGCAAATAAGTACCAGGGATGACCGGCAAACCTC
453 GCCAAGGCTGCACCAAAAGAGTGGTGAAATGGGCAAATAAGTACCAGGGATGACCGGCAAACCTC
* * * *
70638357 ATGATAGTGATTTTAGCCAAATCCCTATTG-AAAGAAACACCAATTTCCATAAAAGTGAGCCTTT
518 ATGACAGTGAGTTTAACCAAATCCCTATCGTAAA-AAACACCAATTTCCATAAAAGTGAGCCTTT
*
70638421 GTGGCTATTTCTAATAAAGAAATGTCTTTGTGGAAAATCTGTAATAAGGAATACCTTCGTGGTAA
582 GTGGCTATTTCTAATAAA-AAATGTCTTTGTGGAAAATCTGTAATAAGGAATACCTTCGTAGTAA
* * *
70638486 TCTGA-AAGGACACGCCTTTATGGTGG-ACCTAAAGAAGTG-TTGTTGTGGCAGTTTCTGTATGT
646 TCT-ATAAGGACACACCTTTATGGTGGAACCTAAAGAAGTGCCT-TTGTGGCAGTTTCTGTATCT
* * * * * **
70638548 GTTAAATGGAGG-CTTTTTTGCTATCTCTGTTAAATGGAGGCCTTTATTGCTGTCTCTGTTAAAT
709 GTTAAATGGAGGCCTTTGTGGCTATCTCTGTTAAAGGGAGGCCTTTATGGCTATCTCCATTAAAT
*
70638612 AGG-GGCCTTTCTGGGTATCTC-TATTAAATGGAAGCATTTGTGGCAATCTCTGTTAAATGAAAT
774 -GGAGGCCTTTCTGGCTATCTCAT-TTAAATGGAAGCATTTGTGGCAATCTCTGTTAAATGAAA-
** *
70638675 G-CTCTCTGGCGATCTTTTTTAAATGGAAACCTTTCTAACTATCTCTGTTAAATGGAAGCCTTTG
836 GCCTCTCTAACGATCTTTTTTAAATGGAAACCTTTCTAACTATCTCTATTAAATGGAAGCCTTTG
* * * ** *
70638739 TGGTAATGTTTGTGAAATGGAAACCTTTGTGGCTGTCTCTGTTTAATGGAAACCTGCCATCTATT
901 TGGTAATGTTTGTGAAATGGAAACCTTTGTAGCTATCTCTGTTAAATGGAAACCCACCATATATT
70638804 TTAAATGGAA
966 TTAAATGGAA
* * * * * * * *
70638814 GCCTCTGTGGTGATATTTATAAAATAGAAGACTTTGT-GACAATGTCTATCAAAAGGAAGCCTTT
1 GCTTTTGTGGAGATCTTTGTTAAATAGAAGCCTTTGTGGA-AATCTCTATCAAAAGGAAGCCTTT
* * * *
70638878 GTGACAACCTTTCTCAATGGATGCCATTATGGCGAGGCTCTAAAAGGAAAGCCTCTATGACTATC
65 GTGACAACCTTTGTCAAAGGATGCCATTGTGGCGAGACTCTAAAAGGAAAGCCTCTATGACTATC
70638943 TTT
130 TTT
70638946 CGAATGAATT
Statistics
Matches: 989, Mismatches: 107, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
975 245 0.25
976 63 0.06
977 397 0.40
978 220 0.22
979 63 0.06
980 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (975 bp):
GCTTTTGTGGAGATCTTTGTTAAATAGAAGCCTTTGTGGAAATCTCTATCAAAAGGAAGCCTTTG
TGACAACCTTTGTCAAAGGATGCCATTGTGGCGAGACTCTAAAAGGAAAGCCTCTATGACTATCT
TTGGAAAGGAATGCCTTCGTGGCATAATTTAAAGAATGATTCTTCTGATGGCCATCTAAAGACAA
CGCCTATAGGCAGACTCTAAATGAGTGGCAAACACGATATTCTGGGAATTGGCAACTACGATTTA
GCTCTGAAGGAAAGCTATTATGGAAGATTATGACAAAGACTATACAATCGATAGGTTCAAAGTTA
TGAATAAGAAAAAAATGATCAAATCCCTGAATAAGGGCTCAGGTAATAGAGGGTTCTCTCACTAA
GTTCTATTGAACTTACCCTCTGTGTTTATGTCTCAGGTAAAGGAGACGCTAGGAGGGACGATGCC
AAGGCTGCACCAAAAGAGTGGTGAAATGGGCAAATAAGTACCAGGGATGACCGGCAAACCTCATG
ACAGTGAGTTTAACCAAATCCCTATCGTAAAAAACACCAATTTCCATAAAAGTGAGCCTTTGTGG
CTATTTCTAATAAAAAATGTCTTTGTGGAAAATCTGTAATAAGGAATACCTTCGTAGTAATCTAT
AAGGACACACCTTTATGGTGGAACCTAAAGAAGTGCCTTTGTGGCAGTTTCTGTATCTGTTAAAT
GGAGGCCTTTGTGGCTATCTCTGTTAAAGGGAGGCCTTTATGGCTATCTCCATTAAATGGAGGCC
TTTCTGGCTATCTCATTTAAATGGAAGCATTTGTGGCAATCTCTGTTAAATGAAAGCCTCTCTAA
CGATCTTTTTTAAATGGAAACCTTTCTAACTATCTCTATTAAATGGAAGCCTTTGTGGTAATGTT
TGTGAAATGGAAACCTTTGTAGCTATCTCTGTTAAATGGAAACCCACCATATATTTTAAATGGAA
Found at i:70638787 original size:87 final size:87
Alignment explanation
Indices: 70638627--70638793 Score: 196
Period size: 87 Copynumber: 1.9 Consensus size: 87
70638617 CCTTTCTGGG
* * *
70638627 TATCTCTATTAAATGGAAGCATTTGTGGCAATCTCTGTTAAATGAAATGCTCTCTGGCGATCTTT
1 TATCTCTATTAAATGGAAGCATTTGTGGCAATCTCTGTGAAATGAAATCCTCTCTGGCGATCTTG
70638692 TTTAAATGGAAACCTTTCTAAC
66 TTTAAATGGAAACCTTTCTAAC
* * * * * * *
70638714 TATCTCTGTTAAATGGAAGCCTTTGTGGTAATGTTTGTGAAATGGAAA-CCTTTGTGGCTG-TCT
1 TATCTCTATTAAATGGAAGCATTTGTGGCAATCTCTGTGAAAT-GAAATCCTCTCTGGC-GATCT
70638777 CTGTTT-AATGGAAACCT
64 -TGTTTAAATGGAAACCT
70638794 GCCATCTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
87 58 0.87
88 9 0.13
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (87 bp):
TATCTCTATTAAATGGAAGCATTTGTGGCAATCTCTGTGAAATGAAATCCTCTCTGGCGATCTTG
TTTAAATGGAAACCTTTCTAAC
Found at i:70639023 original size:29 final size:29
Alignment explanation
Indices: 70638958--70639132 Score: 121
Period size: 29 Copynumber: 6.2 Consensus size: 29
70638948 AATGAATTCT
*
70638958 TTTGTGGAAATATTTGTTAAATGGAAGCC
1 TTTGTGGCAATATTTGTTAAATGGAAGCC
70638987 TTTGTGGCAATATTTGTTAAATGGAAAG-C
1 TTTGTGGCAATATTTGTTAAATGG-AAGCC
** * * * **
70639016 TTTGTGGCTGTCTCTGTGAAACAGAAG-C
1 TTTGTGGCAATATTTGTTAAATGGAAGCC
* *
70639044 --T-T-GCCATCTTT-TTGAAATGGAAGCC
1 TTTGTGGCAATATTTGTT-AAATGGAAGCC
** * *
70639069 TTTGTGGTGATCTTTGTTAAATGGAAGGC
1 TTTGTGGCAATATTTGTTAAATGGAAGCC
* * * *
70639098 TTTGTGGCAATCTTTGTCAAAAGGAAGCT
1 TTTGTGGCAATATTTGTTAAATGGAAGCC
70639127 TTTGTG
1 TTTGTG
70639133 ACAACCTTTG
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.01
24 13 0.11
25 2 0.02
26 1 0.01
27 1 0.01
28 5 0.04
29 87 0.76
30 5 0.04
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (29 bp):
TTTGTGGCAATATTTGTTAAATGGAAGCC
Found at i:70639125 original size:82 final size:82
Alignment explanation
Indices: 70638976--70639127 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 82
70638966 AATATTTGTT
** *
70638976 AAATGGAAGCCTTTGTGGCAATATTTGTTAAATGGAAAGCTTTGTGGCTGTCTCTGTGAAACAGA
1 AAATGGAAGCCTTTGTGGCAATATTTGTTAAATGGAAAGCTTTGTGGCAATCTCTGTCAAACAGA
70639041 AGCTTGCCATCTTTTTG
66 AGCTTGCCATCTTTTTG
** * * *
70639058 AAATGGAAGCCTTTGTGGTGATCTTTGTTAAATGGAAGGCTTTGTGGCAATCTTTGTCAAA-AGG
1 AAATGGAAGCCTTTGTGGCAATATTTGTTAAATGGAAAGCTTTGTGGCAATCTCTGTCAAACA-G
70639122 AAGCTT
65 AAGCTT
70639128 TTGTGACAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 1 0.02
82 60 0.98
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (82 bp):
AAATGGAAGCCTTTGTGGCAATATTTGTTAAATGGAAAGCTTTGTGGCAATCTCTGTCAAACAGA
AGCTTGCCATCTTTTTG
Found at i:70639141 original size:29 final size:29
Alignment explanation
Indices: 70639080--70639143 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
70639070 TTGTGGTGAT
* * * *
70639080 CTTTGTTAAATGGAAGGCTTTGTGGCAAT
1 CTTTGTCAAAAGGAAGGCTTTGTGACAAC
70639109 CTTTGTCAAAAGGAA-GCTTTTGTGACAAC
1 CTTTGTCAAAAGGAAGGC-TTTGTGACAAC
70639138 CTTTGT
1 CTTTGT
70639144 GAAAGGACGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (29 bp):
CTTTGTCAAAAGGAAGGCTTTGTGACAAC
Found at i:70639177 original size:252 final size:252
Alignment explanation
Indices: 70638720--70639197 Score: 679
Period size: 252 Copynumber: 1.9 Consensus size: 252
70638710 TAACTATCTC
* * **
70638720 TGTTAAATGGAAGCCTTTGTGGTAATGTTTGTGAAATGGAAACCTTTGTGGCTGTCTCTGTTTAA
1 TGTTAAATGGAAGCCTTTGTGGCAATATTTGTGAAATGGAAACCTTTGTGGCTGTCTCTGTGAAA
**
70638785 TGGAAACCTGCCATCTATTTTAAATGGAAGCCTCTGTGGTGATATTTATAAAATAGAAGACTTTG
66 CAGAAACCTGCCATCTATTTTAAATGGAAGCCTCTGTGGTGATATTTATAAAATAGAAGACTTTG
* * * *
70638850 TGACAATGTCTATCAAAAGGAAGCCTTTGTGACAACCTTTCTCAATGGATGCCATTATGGCGAGG
131 TGACAATCTCTATCAAAAGGAAGCCTTTGTGACAACCTTTCTCAAAGGACGCCATTATGGCGAGA
*
70638915 CTCTAAAAGGAAAGCCTCTATGACTATCTTTCGAATGAATTCTTTTGTGGAAATATT
196 CTCCAAAAGGAAAGCCTCTATGACTATCTTTCGAATGAATTCTTTTGTGGAAATATT
* *
70638972 TGTTAAATGGAAGCCTTTGTGGCAATATTTGTTAAATGGAAAGCTTTGTGGCTGTCTCTGTGAAA
1 TGTTAAATGGAAGCCTTTGTGGCAATATTTGTGAAATGGAAACCTTTGTGGCTGTCTCTGTGAAA
* * * * * * * *
70639037 CAGAAGCTTGCCATCT-TTTTGAAATGGAAGCCTTTGTGGTGATCTTTGTTAAATGGAAGGCTTT
66 CAGAAACCTGCCATCTATTTT-AAATGGAAGCCTCTGTGGTGATATTTATAAAATAGAAGACTTT
* * * * * * * *
70639101 GTGGCAATCTTTGTCAAAAGGAAGCTTTTGTGACAACCTTTGTGAAAGGACGCCATTGTGTCGAG
130 GTGACAATCTCTATCAAAAGGAAGCCTTTGTGACAACCTTTCTCAAAGGACGCCATTATGGCGAG
70639166 ACTCCAAAAGGAAAGCCTCTATGACTATCTTT
195 ACTCCAAAAGGAAAGCCTCTATGACTATCTTT
70639198 GGAAAGGAAT
Statistics
Matches: 196, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
251 4 0.02
252 192 0.98
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (252 bp):
TGTTAAATGGAAGCCTTTGTGGCAATATTTGTGAAATGGAAACCTTTGTGGCTGTCTCTGTGAAA
CAGAAACCTGCCATCTATTTTAAATGGAAGCCTCTGTGGTGATATTTATAAAATAGAAGACTTTG
TGACAATCTCTATCAAAAGGAAGCCTTTGTGACAACCTTTCTCAAAGGACGCCATTATGGCGAGA
CTCCAAAAGGAAAGCCTCTATGACTATCTTTCGAATGAATTCTTTTGTGGAAATATT
Found at i:70639690 original size:29 final size:27
Alignment explanation
Indices: 70639658--70639720 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
70639648 AAAGAAATGT
70639658 CTTTGTGGGAAATCTTTGATAAGGA-ATAC
1 CTTTGTGGGAAATC--TG-TAAGGAGATAC
*
70639687 CTTTGT-GGTAATCTGTAAGGAGATAC
1 CTTTGTGGGAAATCTGTAAGGAGATAC
70639713 CTTTGTGG
1 CTTTGTGG
70639721 TGCAACCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 6 0.19
26 12 0.39
27 1 0.03
28 6 0.19
29 6 0.19
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (27 bp):
CTTTGTGGGAAATCTGTAAGGAGATAC
Found at i:70639797 original size:29 final size:29
Alignment explanation
Indices: 70639758--70640152 Score: 310
Period size: 29 Copynumber: 13.8 Consensus size: 29
70639748 AGTTTTTGTA
70639758 TCTGTTAAATGGAAGCCTTTGTGGTGATC
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * * *
70639787 TCTATTAAATGGAGGCCTTTTTGGGGATC
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
*
70639816 TCT-TTGAAATGGAGGCCTTTGTGGCT-ATC
1 TCTGTT-AAATGGAAGCCTTTGTGG-TGATC
* * *
70639845 TCTATTAAATGGAGGCCATTGTGGCT-ATC
1 TCTGTTAAATGGAAGCCTTTGTGG-TGATC
*
70639874 TCTGGTAAATGG-AGTCCTTTGTGG-GCATC
1 TCTGTTAAATGGAAG-CCTTTGTGGTG-ATC
*
70639903 TCTGTTAAATGGAAGCCTTTGTGGCGATC
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * * *
70639932 TCTATTAAATGGAAGCCTTTCTGGCGATG
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * * * *
70639961 TTTTTTAAATGGAAACCTTTCTGACT-ATC
1 TCTGTTAAATGGAAGCCTTTGTG-GTGATC
* *
70639990 TCTGTTAAATGGAAGCCTTTGTGGTAATG
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * *
70640019 TTTGTGAAATGGAAACCTTTGTGGCTG-TC
1 TCTGTTAAATGGAAGCCTTTGTGG-TGATC
* **
70640048 TCTGTTAAATGGAAGCC-----CGCCATC
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * *
70640072 TTTGTTAAATGGAAACCTTTGTGGCGATC
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * **
70640101 TTTATTAAATGGAAGCCTTTGTAATGATC
1 TCTGTTAAATGGAAGCCTTTGTGGTGATC
* * *
70640130 TCTATCAAAAGGAAGCCTTTGTG
1 TCTGTTAAATGGAAGCCTTTGTG
70640153 ACAACCTTTG
Statistics
Matches: 298, Mismatches: 51, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
24 18 0.06
28 4 0.01
29 270 0.91
30 6 0.02
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (29 bp):
TCTGTTAAATGGAAGCCTTTGTGGTGATC
Found at i:70639854 original size:87 final size:86
Alignment explanation
Indices: 70639762--70640149 Score: 351
Period size: 87 Copynumber: 4.5 Consensus size: 86
70639752 TTTGTATCTG
* **
70639762 TTAAATGGAAGCCTTTGTGGTGATCTCTATTAAATGGAGGCCTTTTTGGGGATCTCT-TTGAAAT
1 TTAAATGGAAGCCTTTGTGGTGATCTCTATTAAATGGAAGCC-TTTTGGCCATCTCTGTT-AAAT
* *
70639826 GGAGGCCTTTGTGGCTATCTCTA
64 GGAAGCCTTTGTGGCGATCTCTA
* * ** *
70639849 TTAAATGGAGGCCATTGTGGCT-ATCTCTGGTAAATGG-AGTCCTTTGTGGGCATCTCTGTTAAA
1 TTAAATGGAAGCCTTTGTGG-TGATCTCTATTAAATGGAAG-CCTTT-TGGCCATCTCTGTTAAA
70639912 TGGAAGCCTTTGTGGCGATCTCTA
63 TGGAAGCCTTTGTGGCGATCTCTA
* * * * * * * *
70639936 TTAAATGGAAGCCTTTCTGGCGATGTTTTTTAAATGGAAACCTTTCTGACTATCTCTGTTAAATG
1 TTAAATGGAAGCCTTTGTGGTGATCTCTATTAAATGGAAGCCTTT-TGGCCATCTCTGTTAAATG
** * * *
70640001 GAAGCCTTTGTGGTAATGTTTG
65 GAAGCCTTTGTGGCGATCTCTA
* * * * *
70640023 TGAAATGGAAACCTTTGTGGCTG-TCTCTGTTAAATGGAAGCC----CGCCATCTTTGTTAAATG
1 TTAAATGGAAGCCTTTGTGG-TGATCTCTATTAAATGGAAGCCTTTTGGCCATCTCTGTTAAATG
* *
70640083 GAAACCTTTGTGGCGATCTTTA
65 GAAGCCTTTGTGGCGATCTCTA
** * *
70640105 TTAAATGGAAGCCTTTGTAATGATCTCTATCAAAAGGAAGCCTTT
1 TTAAATGGAAGCCTTTGTGGTGATCTCTATTAAATGGAAGCCTTT
70640150 GTGACAACCT
Statistics
Matches: 240, Mismatches: 50, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
81 2 0.01
82 63 0.26
86 4 0.02
87 166 0.69
88 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (86 bp):
TTAAATGGAAGCCTTTGTGGTGATCTCTATTAAATGGAAGCCTTTTGGCCATCTCTGTTAAATGG
AAGCCTTTGTGGCGATCTCTA
Found at i:70640931 original size:27 final size:27
Alignment explanation
Indices: 70640742--70640918 Score: 221
Period size: 27 Copynumber: 6.6 Consensus size: 27
70640732 TGGCTATTTC
*
70640742 ATAGGGTAGAATGACCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
70640769 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCT
* **
70640796 ATAGGATAAAATGATTGAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* * * *
70640822 CATATGTTAAAATGACCAAAATATCCCT
1 -ATAGGGTAAAATGACCGAAATACCCCT
*
70640850 ATAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
70640877 ATAGAGTAATATGACCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
70640904 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
70640919 TGTTATACCC
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 120 0.94
28 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCT
Found at i:70640931 original size:81 final size:81
Alignment explanation
Indices: 70640740--70640918 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
70640730 TGTGGCTATT
* *
70640740 TCATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGATAA
1 TCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAA
**
70640805 AATGATTGAAATACCC
66 AATGACCGAAATACCC
* * * *
70640821 TCATATGTTAAAATGACCAAAATATCCCTATAGGGTAAAATGACCGAAATACCCCCATA-GAGTA
1 TCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGA-TA
*
70640885 ATATGACCGAAATACCC
65 AAATGACCGAAATACCC
70640902 -CTATAGGGTAAAATGAC
1 TC-ATAGGGTAAAATGAC
70640919 TGTTATACCC
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.04
81 82 0.96
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (81 bp):
TCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAA
AATGACCGAAATACCC
Found at i:70640945 original size:54 final size:54
Alignment explanation
Indices: 70640742--70640945 Score: 216
Period size: 54 Copynumber: 3.8 Consensus size: 54
70640732 TGGCTATTTC
* * * *
70640742 ATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCTATAGAGTAAAATGACCGAAATACCCCT
* ** * * *
70640796 ATAGGATAAAATGATTGAAATA-CCCTCATATG-TTAAAATGACCAAAATATCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT-ATA-GAGTAAAATGACCGAAATACCCCT
* *
70640850 ATAGGGTAAAATGACCGAAATACCCCCATAGAGTAATATGACCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCTATAGAGTAAAATGACCGAAATACCCCT
* ** *
70640904 ATAGGGTAAAATGACTGTTATACCCCTA-AGAGATGAAATGAC
1 ATAGGGTAAAATGACCGAAATACCCCTATAGAG-TAAAATGAC
70640946 TGTTATGGCC
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 9 0.07
54 109 0.89
55 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (54 bp):
ATAGGGTAAAATGACCGAAATACCCCTATAGAGTAAAATGACCGAAATACCCCT
Found at i:70647986 original size:3 final size:3
Alignment explanation
Indices: 70647972--70648023 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
70647962 TTTATTAGTC
* * *
70647972 AAT AAT ATT AAT AAT AAT AAT AAC AAT ACAT TAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
70648017 AAT AAT A
1 AAT AAT A
70648024 TTTAATTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:70652135 original size:27 final size:29
Alignment explanation
Indices: 70652072--70652148 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 29
70652062 AAATATGTTA
*
70652072 CAAGTTCATGCAAATATATGGGACCATAT
1 CAAGTTCATGCAAATATATGTGACCATAT
* *
70652101 CGTA-TTCATGTAAATATATGTGA-CA-AT
1 C-AAGTTCATGCAAATATATGTGACCATAT
70652128 CAAGTTCATGCAAATATATGT
1 CAAGTTCATGCAAATATATGT
70652149 AAATAATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 1 0.02
27 19 0.46
28 2 0.05
29 18 0.44
30 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (29 bp):
CAAGTTCATGCAAATATATGTGACCATAT
Found at i:70655047 original size:23 final size:23
Alignment explanation
Indices: 70654987--70655047 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
70654977 TTAACACAAA
70654987 TAAACTACTACTAAAAAATAACTAAT
1 TAAACTA--ACTAAAAAATAACT-AT
*
70655013 TATACTAA-TAAAAAATAACT-T
1 TAAACTAACTAAAAAATAACTAT
70655034 TAAAACTAACTAAA
1 T-AAACTAACTAAA
70655048 TACACTAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 2 0.06
22 6 0.19
23 16 0.52
24 1 0.03
26 6 0.19
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAACTAACTAAAAAATAACTAT
Found at i:70655845 original size:9 final size:9
Alignment explanation
Indices: 70655833--70655862 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
70655823 ATCCAAAATA
70655833 TTTTTTTGT
1 TTTTTTTGT
70655842 TTTTTTTGT
1 TTTTTTTGT
70655851 TTTTTTT-T
1 TTTTTTTGT
70655859 TTTT
1 TTTT
70655863 GGTGTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:70666945 original size:222 final size:222
Alignment explanation
Indices: 70666559--70667003 Score: 890
Period size: 222 Copynumber: 2.0 Consensus size: 222
70666549 AACACCGAAT
70666559 TTGATTCTTGTTCCTTATCCTTTTAATTTTATTGTTGTTATGAACATGTCTATGAAGATTTTTGA
1 TTGATTCTTGTTCCTTATCCTTTTAATTTTATTGTTGTTATGAACATGTCTATGAAGATTTTTGA
70666624 TGTTGATACGTTTAATTTAATTAATTGGCTTAAATTTAATTCGTGTTAGCTTTATTGCATTTCGT
66 TGTTGATACGTTTAATTTAATTAATTGGCTTAAATTTAATTCGTGTTAGCTTTATTGCATTTCGT
70666689 CCACTTAATTTATTAAAATTGTGTTTGTGTCGTTATAGGCCTCGGTAAGATGTTTGATTAAGTAA
131 CCACTTAATTTATTAAAATTGTGTTTGTGTCGTTATAGGCCTCGGTAAGATGTTTGATTAAGTAA
70666754 AACCATGACTAACTTACTCTTGCATTA
196 AACCATGACTAACTTACTCTTGCATTA
70666781 TTGATTCTTGTTCCTTATCCTTTTAATTTTATTGTTGTTATGAACATGTCTATGAAGATTTTTGA
1 TTGATTCTTGTTCCTTATCCTTTTAATTTTATTGTTGTTATGAACATGTCTATGAAGATTTTTGA
70666846 TGTTGATACGTTTAATTTAATTAATTGGCTTAAATTTAATTCGTGTTAGCTTTATTGCATTTCGT
66 TGTTGATACGTTTAATTTAATTAATTGGCTTAAATTTAATTCGTGTTAGCTTTATTGCATTTCGT
70666911 CCACTTAATTTATTAAAATTGTGTTTGTGTCGTTATAGGCCTCGGTAAGATGTTTGATTAAGTAA
131 CCACTTAATTTATTAAAATTGTGTTTGTGTCGTTATAGGCCTCGGTAAGATGTTTGATTAAGTAA
70666976 AACCATGACTAACTTACTCTTGCATTA
196 AACCATGACTAACTTACTCTTGCATTA
70667003 T
1 T
70667004 AATTGTAAGG
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 223 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (222 bp):
TTGATTCTTGTTCCTTATCCTTTTAATTTTATTGTTGTTATGAACATGTCTATGAAGATTTTTGA
TGTTGATACGTTTAATTTAATTAATTGGCTTAAATTTAATTCGTGTTAGCTTTATTGCATTTCGT
CCACTTAATTTATTAAAATTGTGTTTGTGTCGTTATAGGCCTCGGTAAGATGTTTGATTAAGTAA
AACCATGACTAACTTACTCTTGCATTA
Found at i:70668124 original size:22 final size:19
Alignment explanation
Indices: 70668099--70668140 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
70668089 TAATAATAAT
70668099 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
70668121 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
70668140 T
1 T
70668141 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:70669816 original size:3 final size:3
Alignment explanation
Indices: 70669808--70669860 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
70669798 CGAGGATCTC
70669808 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
70669856 GAA GA
1 GAA GA
70669861 TCTCATAGAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:70671628 original size:15 final size:15
Alignment explanation
Indices: 70671593--70671627 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
70671583 AAAATCATAA
70671593 TTTTTTGAAGAATGT
1 TTTTTTGAAGAATGT
*
70671608 TGTTTTGAAGAAT-T
1 TTTTTTGAAGAATGT
70671622 TTTTTT
1 TTTTTT
70671628 TTCAAAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
TTTTTTGAAGAATGT
Found at i:70671862 original size:11 final size:11
Alignment explanation
Indices: 70671834--70671872 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
70671824 CTAAAATTTT
70671834 TTAATTTTA-A
1 TTAATTTTATA
70671844 TTAATTTTATA
1 TTAATTTTATA
* *
70671855 TCAATTTTTTA
1 TTAATTTTATA
70671866 TTAATTT
1 TTAATTT
70671873 GAATTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATTTTATA
Found at i:70672959 original size:28 final size:28
Alignment explanation
Indices: 70672924--70672981 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
70672914 TTTAATTGCC
*
70672924 AGCTAAAACAAACTAATGAATTTAACTA
1 AGCTAAAACAAACCAATGAATTTAACTA
70672952 AGCTAAAACAAACCAATGAATTTAACTA
1 AGCTAAAACAAACCAATGAATTTAACTA
70672980 AG
1 AG
70672982 TATGGTGCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (28 bp):
AGCTAAAACAAACCAATGAATTTAACTA
Found at i:70675635 original size:50 final size:49
Alignment explanation
Indices: 70675533--70675664 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 49
70675523 GTTCCCATGT
* ** **
70675533 CATGTCCCAAACATGGTCTTACGGGGGA-C-CTCATCATGGTGCCAATGC
1 CATGT-CCAGACATGGTCTTACATGGGACCTCTCATCATGGTGCCAACAC
70675581 CATGTCTCAGACATGGTCTTACATGGGACCTCTCATC-TCGGTGCCAACAC
1 CATGTC-CAGACATGGTCTTACATGGGACCTCTCATCAT-GGTGCCAACAC
*
70675631 CATGTCCTAGACACGGTCTTACATGGGACCTCTC
1 CATGTCC-AGACATGGTCTTACATGGGACCTCTC
70675665 TTAATTTCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
47 1 0.01
48 23 0.32
49 3 0.04
50 46 0.63
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (49 bp):
CATGTCCAGACATGGTCTTACATGGGACCTCTCATCATGGTGCCAACAC
Found at i:70675635 original size:98 final size:98
Alignment explanation
Indices: 70675476--70675662 Score: 221
Period size: 98 Copynumber: 1.9 Consensus size: 98
70675466 TCTTGTACTA
* ** * * * ***
70675476 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTTTCATATCGGTTCCCATGTCATGTCCC
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCC
* *
70675541 AAACATGGTCTTACGGGGGACCTCATCATGGTG
66 AAACACGGTCTTACAGGGGACCTCATCATGGTG
* * * *
70675574 CCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCCT
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCC
* *
70675639 AGACACGGTCTTACATGGGACCTC
66 AAACACGGTCTTACAGGGGACCTC
70675663 TCTTAATTTC
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
98 72 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (98 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCC
AAACACGGTCTTACAGGGGACCTCATCATGGTG
Found at i:70682209 original size:34 final size:33
Alignment explanation
Indices: 70682164--70682228 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
70682154 GGTTTGGCTT
70682164 TTAATGCCAGTGAGGTGCAATTGAGAGGAAAATA
1 TTAATGCCAGTGAGGTGCAATTG-GAGGAAAATA
* *
70682198 TTAATGTCAGTGAGGTGCAATTGGGGGAAAA
1 TTAATGCCAGTGAGGTGCAATTGGAGGAAAA
70682229 AAATGGTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.25
Consensus pattern (33 bp):
TTAATGCCAGTGAGGTGCAATTGGAGGAAAATA
Found at i:70684244 original size:47 final size:47
Alignment explanation
Indices: 70684175--70684268 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
70684165 TTTTACACAA
70684175 ACCATCAGTTACAATATTACAGGTCATAGTATCCACACCATAGCCTT
1 ACCATCAGTTACAATATTACAGGTCATAGTATCCACACCATAGCCTT
*
70684222 ACCATCAGTTACAATATTACAGGTCATAGTATCCACATCATAGCCTT
1 ACCATCAGTTACAATATTACAGGTCATAGTATCCACACCATAGCCTT
70684269 TTTCATTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (47 bp):
ACCATCAGTTACAATATTACAGGTCATAGTATCCACACCATAGCCTT
Found at i:70686573 original size:24 final size:24
Alignment explanation
Indices: 70686527--70686573 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
70686517 AAATCCATCG
* *
70686527 AAATTTTGAAAAATTCAACGGGAT
1 AAATTTAGAAAAATACAACGGGAT
70686551 AAATTTAGAAAAATAACAA-GGGA
1 AAATTTAGAAAAAT-ACAACGGGA
70686574 ATGGAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.23
Consensus pattern (24 bp):
AAATTTAGAAAAATACAACGGGAT
Found at i:70691537 original size:523 final size:516
Alignment explanation
Indices: 70690560--70691598 Score: 1889
Period size: 523 Copynumber: 2.0 Consensus size: 516
70690550 TTTCTACAAC
* * * *
70690560 AAATATATGAAGCTTAGAAAAATGATGAGAAGCTACAGGTTAAACGGGTACAATGTGAGTCAGGT
1 AAATATATGAAGCTCAAAAAAATGATGAGAAGCTACAGGCTAAACGGGTACAATGTGAGTCAAGT
* *
70690625 AATGATTCAGAATTTCAGATTGGGACTGATGGTTGTTTAGAGGTAGAGTATGTGTACCAAAGAAT
66 AATGATTCAAAATTTCAGATTGGGACTGATGGTTGTTTAGAGGCAGAGTATGTGTACCAAAGAAT
* *
70690690 TCAGAGCTTGTACAGAAGATTTTACACGAGGCACACAGTGGTATTATGTCCGTACATCCGGGAGG
131 TCAAAGCTTGTACAGAAGATTTTACACGAGGCACACAGTGGTATTATATCCGTACATCCGGGAGG
70690755 TAATAAAATGTATAATGATTTGAAGAAGATGTACTGGTGGCCAGGTATGAAACGTGATATTTCTG
196 TAATAAAATGTATAATGATTTGAAGAAGATGTACTGGTGGCCAGGTATGAAACGTGATATTTCTG
*
70690820 AGTTTGTATCAAGATGTCTGATATGTCAACAGGTCAAAGCAGAACATCAGGTACCTTCGGGATTG
261 AGTTTGTATCAAGATGTCTGATATGTCAACAGGTCAAAGCAGAACATCAGGTACCTTCGAGATTG
70690885 CTCCAGCCAATTACTATACCGGAATGGAAATGGGAAAGAATTACTATGGATTTTGTGTCGGGATT
326 CTCCAGCCAATTACTATACCGGAATGGAAATGGGAAAGAATTACTATGGATTTTGTGTCGGGATT
70690950 ACCATTGTCACCGAAAAAGAAAGATGCCATTTGGGTGATCGTTGATCGATTAACAAAATCAGCAC
391 ACCATTGTCACCGAAAAAGAAAGATGCCATTTGGGTGATCGTTGATCGATTAACAAAATCAGCAC
70691015 ATTTTATCTCGGTACGTATGGATTATTCTCTAGATAAATTGGCTGAACTGTATATATCTAA
456 ATTTTATCTCGGTACGTATGGATTATTCTCTAGATAAATTGGCTGAACTGTATATATCTAA
70691076 AAATATATGAAGCTCAAAAAAATGATGAGAAGCTACAGGCTAAACGGGTACAATGTGAGTCAAGT
1 AAATATATGAAGCTCAAAAAAATGATGAGAAGCTACAGGCTAAACGGGTACAATGTGAGTCAAGT
* *
70691141 AATGATTCAAAATTTTAGATTGGGATTGATGGTTGTTTATTATTCAGAGGCAGAGTATGTGTACC
66 AATGATTCAAAATTTCAGATTGGGACTGATGGTTG-----T-TT-AGAGGCAGAGTATGTGTACC
* *
70691206 AAAGAATTCAAAGCTTGTATAGAAGATTTTACACGAGGCACACAGTGGTATTATATCCGTGCATC
124 AAAGAATTCAAAGCTTGTACAGAAGATTTTACACGAGGCACACAGTGGTATTATATCCGTACATC
70691271 CGGGAGGTAATAAAATGTATAATGATTTGAAGAAGATGTACTGGTGGCCAGGTATGAAACGTGAT
189 CGGGAGGTAATAAAATGTATAATGATTTGAAGAAGATGTACTGGTGGCCAGGTATGAAACGTGAT
70691336 ATTTCTGAGTTTGTATCAAGATGTCTGATATGTCAACAGGTCAAAGCAGAACATCAGGTACCTTC
254 ATTTCTGAGTTTGTATCAAGATGTCTGATATGTCAACAGGTCAAAGCAGAACATCAGGTACCTTC
*
70691401 GAGATTGCTCTAGCCAATTACTATACCGGAATGGAAATGGGAAAGAATTACTATGGATTTTGTGT
319 GAGATTGCTCCAGCCAATTACTATACCGGAATGGAAATGGGAAAGAATTACTATGGATTTTGTGT
70691466 CGGGATTACCATTGTCACCGAAAAAGAAAGATGCCATTTGGGTGATCGTTGATCGATTAACAAAA
384 CGGGATTACCATTGTCACCGAAAAAGAAAGATGCCATTTGGGTGATCGTTGATCGATTAACAAAA
70691531 TCAGCACATTTTATCTCGGTACGTATGGATTATTCTCTAGATAAATTGGCTGAACTGTATATATC
449 TCAGCACATTTTATCTCGGTACGTATGGATTATTCTCTAGATAAATTGGCTGAACTGTATATATC
70691596 TAA
514 TAA
70691599 GATTGTCAGG
Statistics
Matches: 502, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
516 93 0.19
521 1 0.00
522 2 0.00
523 406 0.81
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (516 bp):
AAATATATGAAGCTCAAAAAAATGATGAGAAGCTACAGGCTAAACGGGTACAATGTGAGTCAAGT
AATGATTCAAAATTTCAGATTGGGACTGATGGTTGTTTAGAGGCAGAGTATGTGTACCAAAGAAT
TCAAAGCTTGTACAGAAGATTTTACACGAGGCACACAGTGGTATTATATCCGTACATCCGGGAGG
TAATAAAATGTATAATGATTTGAAGAAGATGTACTGGTGGCCAGGTATGAAACGTGATATTTCTG
AGTTTGTATCAAGATGTCTGATATGTCAACAGGTCAAAGCAGAACATCAGGTACCTTCGAGATTG
CTCCAGCCAATTACTATACCGGAATGGAAATGGGAAAGAATTACTATGGATTTTGTGTCGGGATT
ACCATTGTCACCGAAAAAGAAAGATGCCATTTGGGTGATCGTTGATCGATTAACAAAATCAGCAC
ATTTTATCTCGGTACGTATGGATTATTCTCTAGATAAATTGGCTGAACTGTATATATCTAA
Found at i:70703852 original size:12 final size:12
Alignment explanation
Indices: 70703835--70703867 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
70703825 AAAATTTTAA
70703835 TTTAATAATTAT
1 TTTAATAATTAT
70703847 TTTAATAA-TAT
1 TTTAATAATTAT
*
70703858 TTTATTAATT
1 TTTAATAATT
70703868 TATTAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATAATTAT
Found at i:70705153 original size:18 final size:18
Alignment explanation
Indices: 70705116--70705151 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
70705106 TTATTATTCT
*
70705116 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
70705134 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
70705152 TATTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:70705167 original size:19 final size:18
Alignment explanation
Indices: 70705145--70705207 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 18
70705135 AAAATTTAAA
70705145 TATTAAATATTAAATAATT
1 TATTAAATATT-AATAATT
70705164 TATTAAATA-TAATAAATT
1 TATTAAATATTAAT-AATT
70705182 ATATTAATTATATTAATAATT
1 -TATTAA--ATATTAATAATT
70705203 TATTA
1 TATTA
70705208 TATGACTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.08
18 5 0.13
19 15 0.38
20 5 0.13
21 7 0.18
22 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAAATATTAATAATT
Found at i:70707774 original size:4 final size:4
Alignment explanation
Indices: 70707765--70707798 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
70707755 AAGTTTTATT
70707765 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
70707799 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:70707806 original size:22 final size:22
Alignment explanation
Indices: 70707748--70707807 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
70707738 AAGTGGCCCA
*
70707748 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
70707772 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
70707793 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
70707808 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:70714306 original size:20 final size:20
Alignment explanation
Indices: 70714281--70714338 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
70714271 TATAATATAA
70714281 AATTTTTAATATTTTCTTT-C
1 AATTTTTAATATTTT-TTTAC
70714301 AATTTTTAAATTATTTTTTTAC
1 AATTTTT-AA-TATTTTTTTAC
*
70714323 AATTTAT-ATATTTTTT
1 AATTTTTAATATTTTTT
70714339 CAGTTATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 8 0.24
20 8 0.24
21 5 0.15
22 13 0.38
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTTTTAATATTTTTTTAC
Found at i:70714459 original size:18 final size:17
Alignment explanation
Indices: 70714409--70714462 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
70714399 TTAAAAATTT
70714409 TAATTTTTATATAGTTTTA
1 TAATTTTTAT-TA-TTTTA
*
70714428 TGATTTTCTA-TATTTTA
1 TAATTTT-TATTATTTTA
70714445 TAATTTTTAATTATTTTA
1 TAATTTTT-ATTATTTTA
70714463 AATATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 9 0.30
19 6 0.20
20 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
TAATTTTTATTATTTTA
Found at i:70725976 original size:28 final size:30
Alignment explanation
Indices: 70725928--70725984 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
70725918 TTTTAAAAAA
70725928 TATTTACAAAAAGAGACAACT-AATTTTAG
1 TATTTACAAAAAGAGACAACTAAATTTTAG
70725957 TATTTACAAAAAGA-ACAACTAAATTTTA
1 TATTTACAAAAAGAGACAACTAAATTTTA
70725985 CAAATAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACTAAATTTTAG
Found at i:70732983 original size:119 final size:120
Alignment explanation
Indices: 70732734--70732991 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 120
70732724 GCTACTCGTT
* * * *
70732734 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
70732798 GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
65 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
70732854 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
70732918 A-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 ATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
70732974 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
70732992 GCCCGGACAT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.03
119 62 0.51
120 54 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:70732998 original size:40 final size:40
Alignment explanation
Indices: 70732715--70732998 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
70732705 CGGAATTTAA
** * *
70732715 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
70732755 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70732795 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70732835 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
70732875 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70732914 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
70732954 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
70732994 CCGGA
1 CCGGA
70732999 CATCATTCGA
Statistics
Matches: 216, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 171 0.79
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70736462 original size:10 final size:10
Alignment explanation
Indices: 70736449--70736491 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
70736439 GTCAAAAAAG
70736449 ATCAAAATTA
1 ATCAAAATTA
70736459 ATCAAAATTTA
1 ATCAAAA-TTA
*
70736470 ATATAAAATTA
1 AT-CAAAATTA
*
70736481 ATTAAAATTA
1 ATCAAAATTA
70736491 A
1 A
70736492 ACATGTCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 16 0.53
11 10 0.33
12 4 0.13
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:70749985 original size:37 final size:37
Alignment explanation
Indices: 70749943--70750015 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
70749933 ATTCACTGTG
70749943 ATAATATGACAATGTTGGAATTGGACTTATTCATACC
1 ATAATATGACAATGTTGGAATTGGACTTATTCATACC
70749980 ATAATATGACAATGTTGGAATTGGACTTATTCATAC
1 ATAATATGACAATGTTGGAATTGGACTTATTCATAC
70750016 TATGTATGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (37 bp):
ATAATATGACAATGTTGGAATTGGACTTATTCATACC
Found at i:70751770 original size:21 final size:20
Alignment explanation
Indices: 70751745--70751785 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
70751735 GAAAATTCCA
*
70751745 AATTAAGATTGAAATAAAACT
1 AATTAA-ATTAAAATAAAACT
*
70751766 AATTAAATTAAAATTAAACT
1 AATTAAATTAAAATAAAACT
70751786 GAAGGTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTAAATTAAAATAAAACT
Found at i:70752675 original size:20 final size:21
Alignment explanation
Indices: 70752641--70752703 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 21
70752631 ATTCAGCCCC
*
70752641 AATGTCGCTACATTCAATTCT
1 AATGTCGCAACATTCAATTCT
* *
70752662 AAT-TTGCAACATTCAA-TCC
1 AATGTCGCAACATTCAATTCT
*
70752681 AATGTCGCGACATTCAATTCT
1 AATGTCGCAACATTCAATTCT
70752702 AA
1 AA
70752704 ATTAAAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.15
20 22 0.65
21 7 0.21
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTCGCAACATTCAATTCT
Found at i:70752694 original size:40 final size:42
Alignment explanation
Indices: 70752598--70752703 Score: 135
Period size: 40 Copynumber: 2.6 Consensus size: 42
70752588 TGCACAAAGT
** * * *
70752598 CAATGTCGCGACATAAAAATCCAATGTTGCAACATTCAGCCC
1 CAATGTCGCGACATTCAATTCTAATGTTGCAACATTCAGACC
* *
70752640 CAATGTCGCTACATTCAATTCTAAT-TTGCAACATTCA-ATC
1 CAATGTCGCGACATTCAATTCTAATGTTGCAACATTCAGACC
70752680 CAATGTCGCGACATTCAATTCTAA
1 CAATGTCGCGACATTCAATTCTAA
70752704 ATTAAAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 24 0.43
41 12 0.21
42 20 0.36
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (42 bp):
CAATGTCGCGACATTCAATTCTAATGTTGCAACATTCAGACC
Found at i:70753604 original size:41 final size:41
Alignment explanation
Indices: 70753529--70753640 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 41
70753519 TGCACAAAGT
** * * * * *
70753529 CAATGTCGCGACATAAAAATCCAATGTTGCAACATTTAGCCC
1 CAATGTCGCGACATTCAATTCTAATATTGCAACATTCA-ACC
* *
70753571 CAATGTCGCTACATTCAATTCTAAT-TTGCAACATTCAATC
1 CAATGTCGCGACATTCAATTCTAATATTGCAACATTCAACC
70753611 CAATGTCGCGACATTCAATTCTAATATTGC
1 CAATGTCGCGACATTCAATTCTAATATTGC
70753641 GGCATTAATG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
40 25 0.42
41 15 0.25
42 20 0.33
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (41 bp):
CAATGTCGCGACATTCAATTCTAATATTGCAACATTCAACC
Found at i:70753606 original size:20 final size:21
Alignment explanation
Indices: 70753581--70753640 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
70753571 CAATGTCGCT
70753581 ACATTCAATTCTAAT-TTGCA
1 ACATTCAATTCTAATATTGCA
* * * *
70753601 ACATTCAA-TCCAATGTCGCG
1 ACATTCAATTCTAATATTGCA
70753621 ACATTCAATTCTAATATTGC
1 ACATTCAATTCTAATATTGC
70753641 GGCATTAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 5 0.16
20 19 0.59
21 8 0.25
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.35
Consensus pattern (21 bp):
ACATTCAATTCTAATATTGCA
Found at i:70754221 original size:210 final size:210
Alignment explanation
Indices: 70753859--70754238 Score: 535
Period size: 210 Copynumber: 1.8 Consensus size: 210
70753849 GTAAATACAT
* * * * *
70753859 AAATTATCATTAAAATAACTTTATTTTAATATTAAACAAGCTAAATTTATATGAAAAGGGATACA
1 AAATTATCATTAAAAGAACTTGATTTTAATATTAAACAAGATAAAATTATACGAAAAGGGATACA
* ** * * * * *
70753924 GATAACATGATTGGCTATGGCAGATGACCAACTCACGTATTGGAGAAAGATGTGAGAAAGTTGGA
66 AATAACATGATCAGCTATGGCAGATAACCAACCCACATATTGGAGAAAGATGCGAGAAAGTTGAA
* *
70753989 TTTACGGATAAAATTGTGCATGTTTGTGGGATATCCTAAGGGAACAAAGTACGTTTTGAGTAGTT
131 TTCACGAATAAAATTGTGCATGTTTGTGGGATATCCTAAGGGAACAAAGTACGTTTTGAGTAGTT
70754054 AAAATTTAGAAACAG
196 AAAATTTAGAAACAG
* * * *
70754069 AAATTATTATTAAAAGGACTTGATTTTACTATTAAACAAGATAAAATTATGCGAAAAGGGATACA
1 AAATTATCATTAAAAGAACTTGATTTTAATATTAAACAAGATAAAATTATACGAAAAGGGATACA
* * * * *
70754134 AATATCATGATCAGCTATGGTAGATAACCAACCCACATATTGGATAAATATGCGAGGAAGTTGAA
66 AATAACATGATCAGCTATGGCAGATAACCAACCCACATATTGGAGAAAGATGCGAGAAAGTTGAA
*
70754199 TTCACGAATAGAATTGTGCATGTTTGTGGGATATCCTAAG
131 TTCACGAATAAAATTGTGCATGTTTGTGGGATATCCTAAG
70754239 AGAAAAAAAG
Statistics
Matches: 145, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
210 145 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.30
Consensus pattern (210 bp):
AAATTATCATTAAAAGAACTTGATTTTAATATTAAACAAGATAAAATTATACGAAAAGGGATACA
AATAACATGATCAGCTATGGCAGATAACCAACCCACATATTGGAGAAAGATGCGAGAAAGTTGAA
TTCACGAATAAAATTGTGCATGTTTGTGGGATATCCTAAGGGAACAAAGTACGTTTTGAGTAGTT
AAAATTTAGAAACAG
Found at i:70762273 original size:26 final size:26
Alignment explanation
Indices: 70762234--70762291 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
70762224 GACAATGAAG
*
70762234 GGCAAACCTTATGAAATGTGAGTCTA
1 GGCAAACCTCATGAAATGTGAGTCTA
70762260 GGCAAACCTCATGAAATGTGAGTCTA
1 GGCAAACCTCATGAAATGTGAGTCTA
70762286 GGCAAA
1 GGCAAA
70762292 TCCCAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (26 bp):
GGCAAACCTCATGAAATGTGAGTCTA
Found at i:70762493 original size:56 final size:56
Alignment explanation
Indices: 70762387--70762502 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 56
70762377 GAAAGAAATG
* * * * *
70762387 CCTTTATGGGAAAACTTTGGAAAGGTAAGCCTTTGTGGCGAACATGTTAAAGGACAA
1 CCTTTATGGGAAAACTGTAGAAAGGTAAGCCCTCGTGGCCAACATGTTAAAGGA-AA
* * * *
70762444 CCTTTATGGTAAAACTGTAG-AGGGTAAGCCCTCGTGGCCAACCTTTTAAAGGAAA
1 CCTTTATGGGAAAACTGTAGAAAGGTAAGCCCTCGTGGCCAACATGTTAAAGGAAA
70762499 CCTT
1 CCTT
70762503 GTGGCGAGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 6 0.12
56 27 0.54
57 17 0.34
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (56 bp):
CCTTTATGGGAAAACTGTAGAAAGGTAAGCCCTCGTGGCCAACATGTTAAAGGAAA
Found at i:70762622 original size:28 final size:28
Alignment explanation
Indices: 70762557--70762649 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
70762547 GAAAAGGACA
* *
70762557 CCTTTGTGGTAATCTCTAGTTAATGAAG
1 CCTTTGTGGCAATCTCTAGATAATGAAG
*
70762585 CATTTGTGGCAATCTCTAGATAA-GAAAG
1 CCTTTGTGGCAATCTCTAGATAATG-AAG
* * * *
70762613 CCTTTATGGCTATTTCTA-AAAATGAATG
1 CCTTTGTGGCAATCTCTAGATAATGAA-G
70762641 CCTTTGTGG
1 CCTTTGTGG
70762650 TGCCATCTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.11
28 47 0.89
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (28 bp):
CCTTTGTGGCAATCTCTAGATAATGAAG
Found at i:70770697 original size:16 final size:16
Alignment explanation
Indices: 70770676--70770706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70770666 ATTGGGCTGA
*
70770676 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
70770692 GAAAATTAATTAATT
1 GAAAATTAATTAATT
70770707 TAAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:70773804 original size:24 final size:23
Alignment explanation
Indices: 70773755--70773817 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
70773745 AATATTCACA
*
70773755 AACATGTTCATTTAAC-TTAATCG
1 AACATGTTCA-TGAACATTAATCG
*
70773778 AACATGTTCATGAACATATAATTG
1 AACATGTTCATGAACAT-TAATCG
*
70773802 AACATGTTCACGAACA
1 AACATGTTCATGAACA
70773818 ATGTTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.11
23 11 0.31
24 20 0.57
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (23 bp):
AACATGTTCATGAACATTAATCG
Found at i:70776826 original size:31 final size:27
Alignment explanation
Indices: 70776760--70776827 Score: 68
Period size: 31 Copynumber: 2.4 Consensus size: 27
70776750 TAATTTTAAA
*
70776760 ATATTTTAAA-TTAATTAATATTAATT
1 ATATTTTAAATTTAATTAATATTAACT
70776786 AT-TTATTAAATTTAATTAGAATATATAAGCT
1 ATATT-TTAAATTTAATT--AATAT-TAA-CT
70776817 ATATTTTAAAT
1 ATATTTTAAAT
70776828 ATTTAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
25 2 0.06
26 7 0.21
27 6 0.18
29 5 0.15
30 3 0.09
31 9 0.26
32 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (27 bp):
ATATTTTAAATTTAATTAATATTAACT
Found at i:70777766 original size:24 final size:24
Alignment explanation
Indices: 70777739--70777786 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
70777729 GTAAGTAAGA
70777739 ACTGCTCAATTTTGAAATACAATT
1 ACTGCTCAATTTTGAAATACAATT
70777763 ACTGCTCAATTTTGAAATACAATT
1 ACTGCTCAATTTTGAAATACAATT
70777787 GATTCTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (24 bp):
ACTGCTCAATTTTGAAATACAATT
Found at i:70779391 original size:18 final size:18
Alignment explanation
Indices: 70779355--70779391 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70779345 GAGCAGCAAC
**
70779355 AATTGAAGAAAATGGAAG
1 AATTGAAGAAAATAAAAG
70779373 AATTGAAGAAAATAAAAG
1 AATTGAAGAAAATAAAAG
70779391 A
1 A
70779392 GAAGAGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (18 bp):
AATTGAAGAAAATAAAAG
Found at i:70780481 original size:20 final size:20
Alignment explanation
Indices: 70780456--70780495 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
70780446 AATCATATAA
70780456 TAATAAATTATTTATTATTT
1 TAATAAATTATTTATTATTT
70780476 TAATAAATTATTTATTATTT
1 TAATAAATTATTTATTATTT
70780496 CAATTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATAAATTATTTATTATTT
Found at i:70780528 original size:16 final size:16
Alignment explanation
Indices: 70780506--70780542 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
70780496 CAATTTATTT
70780506 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
70780523 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
70780538 TAATA
1 TAATA
70780543 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:70780566 original size:23 final size:22
Alignment explanation
Indices: 70780525--70780568 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
70780515 ATTTTAAAAA
70780525 TAATAATTTTAAATAATATTCT
1 TAATAATTTTAAATAATATTCT
70780547 TAATATATTATTAAA-AATATTC
1 TAATA-ATT-TTAAATAATATTC
70780569 AATATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATTTTAAATAATATTCT
Found at i:70780588 original size:14 final size:13
Alignment explanation
Indices: 70780501--70780598 Score: 57
Period size: 13 Copynumber: 7.5 Consensus size: 13
70780491 TATTTCAATT
70780501 TATTTTAATAATAA
1 TATTTTAAT-ATAA
*
70780515 -ATTTTAAAAATAA
1 TATTTT-AATATAA
70780528 TAATTTTAA-ATAA
1 T-ATTTTAATATAA
70780541 TATTCTTAATAT-A
1 TATT-TTAATATAA
*
70780554 T-TATTAA-A-AA
1 TATTTTAATATAA
*
70780564 TA-TTCAATATTAA
1 TATTTTAATA-TAA
70780577 TATTTTAATATTAAA
1 TATTTTAATA-T-AA
70780592 TATTTTA
1 TATTTTA
70780599 TTATCATTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
10 6 0.09
11 5 0.07
12 4 0.06
13 24 0.36
14 14 0.21
15 14 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTTTAATATAA
Found at i:70781204 original size:21 final size:18
Alignment explanation
Indices: 70781160--70781192 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
70781150 ATATATGACA
70781160 TTGATTATTATAAAATAT
1 TTGATTATTATAAAATAT
70781178 TT--TTATTATAAAATA
1 TTGATTATTATAAAATA
70781193 AATTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
TTGATTATTATAAAATAT
Found at i:70781943 original size:10 final size:11
Alignment explanation
Indices: 70781926--70781950 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70781916 TTTTTCTTTC
70781926 TTTTTTTTGTT
1 TTTTTTTTGTT
70781937 TTTTTTTTGTT
1 TTTTTTTTGTT
70781948 TTT
1 TTT
70781951 GACCAAATAC
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:70787027 original size:24 final size:25
Alignment explanation
Indices: 70786984--70787030 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
70786974 TTGTTGGCGC
* *
70786984 CAAAATAGAATGAAATGTAGGGACT
1 CAAAATAGAATAAAACGTAGGGACT
70787009 CAAAA-AGAATAAAACGTAGGGA
1 CAAAATAGAATAAAACGTAGGGA
70787031 ATAAGAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.53, C:0.09, G:0.23, T:0.15
Consensus pattern (25 bp):
CAAAATAGAATAAAACGTAGGGACT
Found at i:70787415 original size:13 final size:13
Alignment explanation
Indices: 70787397--70787421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70787387 AATGTTTTTT
70787397 AAATAAAAATTTA
1 AAATAAAAATTTA
70787410 AAATAAAAATTT
1 AAATAAAAATTT
70787422 TGCATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAAAAATTTA
Found at i:70793567 original size:14 final size:14
Alignment explanation
Indices: 70793548--70793616 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
70793538 ATCCATTTAT
70793548 TTTATTTTCTTAAA
1 TTTATTTTCTTAAA
*
70793562 TTTATTTT-TAAAATA
1 TTTATTTTCT-TAA-A
* *
70793577 TTTTATTTATCCATTTAT
1 -TTTATTT-T-C-TTAAA
70793595 TTTATTTTCTTAAA
1 TTTATTTTCTTAAA
70793609 TTTATTTT
1 TTTATTTT
70793617 TACATTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
13 1 0.02
14 21 0.50
15 2 0.05
16 8 0.19
17 8 0.19
19 1 0.02
20 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTTCTTAAA
Found at i:70793592 original size:47 final size:47
Alignment explanation
Indices: 70793524--70793618 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
70793514 GCTAAGCTAA
70793524 AAAATATTTTATTTATCCATTTATTTTATTTTCTTAAATTTATTTTT
1 AAAATATTTTATTTATCCATTTATTTTATTTTCTTAAATTTATTTTT
70793571 AAAATATTTTATTTATCCATTTATTTTATTTTCTTAAATTTATTTTT
1 AAAATATTTTATTTATCCATTTATTTTATTTTCTTAAATTTATTTTT
70793618 A
1 A
70793619 CATTTTTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (47 bp):
AAAATATTTTATTTATCCATTTATTTTATTTTCTTAAATTTATTTTT
Found at i:70808656 original size:27 final size:27
Alignment explanation
Indices: 70808625--70808802 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70808615 TAAATTGTAC
70808625 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
70808652 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70808678 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
70808706 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
70808734 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70808761 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
70808788 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70808803 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:70808739 original size:82 final size:81
Alignment explanation
Indices: 70808626--70808781 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70808616 AAATTGTACA
* *
70808626 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
70808690 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
70808707 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
70808772 TGCGAGTTGA
65 TGCGAATTGA
70808782 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:70808793 original size:82 final size:81
Alignment explanation
Indices: 70808622--70808802 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
70808612 GATTAAATTG
* *
70808622 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
70808687 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
70808703 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
70808767 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
70808785 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
70808803 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:70808813 original size:27 final size:27
Alignment explanation
Indices: 70808707--70808813 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
70808697 TGACCATGCG
* * * *
70808707 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
70808735 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
70808762 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
70808789 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
70808814 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:70811993 original size:21 final size:21
Alignment explanation
Indices: 70811942--70812109 Score: 72
Period size: 21 Copynumber: 8.0 Consensus size: 21
70811932 TGAACAGAAG
* * *
70811942 CTCATGAGAGCTAAACGAAAA
1 CTCATAAGAGTTAAACGGAAA
* * *
70811963 CCCATTAGAGTTGAACGGAAA
1 CTCATAAGAGTTAAACGGAAA
* * * **
70811984 CTCGTAAGAGCTGAACAAAAA
1 CTCATAAGAGTTAAACGGAAA
* *
70812005 CTCATAAGGGTTAAAC-TAAA
1 CTCATAAGAGTTAAACGGAAA
*
70812025 GCTCAAAAGAGCTT-AAC-GAAA
1 -CTCATAAGAG-TTAAACGGAAA
* * * *
70812046 GCCCATAAGGGTTGAACGGAAG
1 -CTCATAAGAGTTAAACGGAAA
** * *
70812068 CTTGTAAGAGCTAAACGGAAG
1 CTCATAAGAGTTAAACGGAAA
* *
70812089 CTCGTAAGAGCTAAACGGAAA
1 CTCATAAGAGTTAAACGGAAA
70812110 ATAAACACGA
Statistics
Matches: 112, Mismatches: 31, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
20 5 0.04
21 102 0.91
22 5 0.04
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (21 bp):
CTCATAAGAGTTAAACGGAAA
Found at i:70811995 original size:42 final size:42
Alignment explanation
Indices: 70811948--70812084 Score: 141
Period size: 42 Copynumber: 3.3 Consensus size: 42
70811938 GAAGCTCATG
* *
70811948 AGAGCTAAACGAAAACCCATTAGAGTTGAACGGAAACTCGTA
1 AGAGCTAAACGAAAACCCATAAGGGTTGAACGGAAACTCGTA
* * * * * **
70811990 AGAGCTGAACAAAAACTCATAAGGGTTAAAC-TAAAGCTCAAA
1 AGAGCTAAACGAAAACCCATAAGGGTTGAACGGAAA-CTCGTA
* * * *
70812032 AGAGCTTAACGAAAGCCCATAAGGGTTGAACGGAAGCTTGTA
1 AGAGCTAAACGAAAACCCATAAGGGTTGAACGGAAACTCGTA
70812074 AGAGCTAAACG
1 AGAGCTAAACG
70812085 GAAGCTCGTA
Statistics
Matches: 73, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
41 3 0.04
42 68 0.93
43 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.17
Consensus pattern (42 bp):
AGAGCTAAACGAAAACCCATAAGGGTTGAACGGAAACTCGTA
Found at i:70812104 original size:84 final size:84
Alignment explanation
Indices: 70811939--70812104 Score: 197
Period size: 84 Copynumber: 2.0 Consensus size: 84
70811929 GACTGAACAG
** * *
70811939 AAGCTCATGAGAGCTAAACGAAAACCCATTAGAGTTGAACGGAAACTCGTAAGAGCTGAACAAAA
1 AAGCTCAAAAGAGCTAAACGAAAACCCATAAGAGTTGAACGGAAACTCGTAAGAGCTAAACAAAA
* *
70812004 ACTCATAAGGGTTAAACTA
66 ACTCATAAGAGCTAAACTA
* * * * * **
70812023 AAGCTCAAAAGAGCTTAACGAAAGCCCATAAGGGTTGAACGGAAGCTTGTAAGAGCTAAACGGAA
1 AAGCTCAAAAGAGCTAAACGAAAACCCATAAGAGTTGAACGGAAACTCGTAAGAGCTAAACAAAA
* *
70812088 GCTCGTAAGAGCTAAAC
66 ACTCATAAGAGCTAAAC
70812105 GGAAAATAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (84 bp):
AAGCTCAAAAGAGCTAAACGAAAACCCATAAGAGTTGAACGGAAACTCGTAAGAGCTAAACAAAA
ACTCATAAGAGCTAAACTA
Found at i:70828977 original size:20 final size:20
Alignment explanation
Indices: 70828932--70828979 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
70828922 GTGACCTTTA
*
70828932 TTTTCCAAATTTTCATGTTT
1 TTTTCAAAATTTTCATGTTT
*
70828952 TCTTCAAAATTTTC-TGTTT
1 TTTTCAAAATTTTCATGTTT
70828971 TGTTTCAAA
1 T-TTTCAAA
70828980 TTGATCCCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTCAAAATTTTCATGTTT
Found at i:70828980 original size:19 final size:19
Alignment explanation
Indices: 70828937--70828981 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
70828927 CTTTATTTTC
70828937 CAAATTTTCATGTTTTCTT
1 CAAATTTTCATGTTTTCTT
*
70828956 CAAAATTTTC-TGTTTTGTTT
1 C-AAATTTTCATGTTTT-CTT
70828976 CAAATT
1 CAAATT
70828982 GATCCCTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (19 bp):
CAAATTTTCATGTTTTCTT
Found at i:70830848 original size:19 final size:19
Alignment explanation
Indices: 70830812--70830850 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
70830802 GCCTTAATGG
* *
70830812 TTGTGTCTGATTAATGGAA
1 TTGTGTCTAAATAATGGAA
*
70830831 TTGTGTCTAAATAGTGGAA
1 TTGTGTCTAAATAATGGAA
70830850 T
1 T
70830851 CATGTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (19 bp):
TTGTGTCTAAATAATGGAA
Found at i:70843989 original size:58 final size:57
Alignment explanation
Indices: 70843927--70844054 Score: 167
Period size: 57 Copynumber: 2.2 Consensus size: 57
70843917 AGAAATGGTG
70843927 AAATGGAGAAATAGGAAAT-ATTTGGAAAT-GAT-TAAGGTTTTCTCCAAAAT-GAAAATGA
1 AAATGGAGAAAT--GAAATCATTTGGAAATAGATGT--GGTTTTCTCCAAAATAG-AAATGA
*
70843985 AAATGGAGGAATGAAATCATTTGGAAATAGATGTGGTTTTCTCCAAAATAGAAATGA
1 AAATGGAGAAATGAAATCATTTGGAAATAGATGTGGTTTTCTCCAAAATAGAAATGA
70844042 AAAT-GAGAAATGA
1 AAATGGAGAAATGA
70844055 GAAATGAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
56 13 0.20
57 35 0.55
58 15 0.23
59 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (57 bp):
AAATGGAGAAATGAAATCATTTGGAAATAGATGTGGTTTTCTCCAAAATAGAAATGA
Found at i:70844052 original size:13 final size:13
Alignment explanation
Indices: 70844029--70844061 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
70844019 GGTTTTCTCC
70844029 AAAAT-AGAAATG
1 AAAATGAGAAATG
70844041 AAAATGAGAAATG
1 AAAATGAGAAATG
70844054 AGAAATGA
1 A-AAATGA
70844062 ATTCATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 8 0.42
14 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (13 bp):
AAAATGAGAAATG
Found at i:70844054 original size:7 final size:7
Alignment explanation
Indices: 70844030--70844061 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
70844020 GTTTTCTCCA
70844030 AAAT-AG
1 AAATGAG
70844036 AAATGA-
1 AAATGAG
70844042 AAATGAG
1 AAATGAG
70844049 AAATGAG
1 AAATGAG
70844056 AAATGA
1 AAATGA
70844062 ATTCATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.42
7 14 0.58
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (7 bp):
AAATGAG
Done.